HEADER HYDROLASE/HYDROLASE INHIBITOR 13-MAR-20 6W5L TITLE 2.1 A RESOLUTION STRUCTURE OF NOROVIRUS 3CL PROTEASE IN COMPLEX WITH TITLE 2 INHIBITOR 7G COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 3.6.1.15,3.4.22.66,2.7.7.48; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NORWALK VIRUS (STRAIN GI/HUMAN/UNITED SOURCE 3 STATES/NORWALK/1968); SOURCE 4 ORGANISM_COMMON: HU/NV/NV/1968/US; SOURCE 5 ORGANISM_TAXID: 524364; SOURCE 6 STRAIN: GI/HUMAN/UNITED STATES/NORWALK/1968; SOURCE 7 GENE: ORF1; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS PROTEASE, NOROVIRUS 3CL PROTEASE, INHHIBITORS, HYDROLASE, HYDROLASE- KEYWDS 2 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.LOVELL,M.M.KASHIPATHY,K.P.BATTAILE,A.D.RATHNAYAKE,Y.KIM,K.O.CHANG, AUTHOR 2 W.C.GROUTAS REVDAT 3 18-OCT-23 6W5L 1 REMARK REVDAT 2 04-NOV-20 6W5L 1 JRNL FORMUL REVDAT 1 30-SEP-20 6W5L 0 JRNL AUTH A.D.RATHNAYAKE,Y.KIM,C.S.DAMPALLA,H.N.NGUYEN,A.M.JESRI, JRNL AUTH 2 M.M.KASHIPATHY,G.H.LUSHINGTON,K.P.BATTAILE,S.LOVELL, JRNL AUTH 3 K.O.CHANG,W.C.GROUTAS JRNL TITL STRUCTURE-GUIDED OPTIMIZATION OF DIPEPTIDYL INHIBITORS OF JRNL TITL 2 NOROVIRUS 3CL PROTEASE. JRNL REF J.MED.CHEM. V. 63 11945 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 32945669 JRNL DOI 10.1021/ACS.JMEDCHEM.0C01252 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_3342 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.400 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 35484 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.750 REMARK 3 FREE R VALUE TEST SET COUNT : 1685 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 36.2100 - 4.8044 0.98 2855 135 0.1781 0.2413 REMARK 3 2 4.8044 - 3.8147 0.97 2808 146 0.1618 0.2202 REMARK 3 3 3.8147 - 3.3329 0.97 2836 140 0.1963 0.2724 REMARK 3 4 3.3329 - 3.0283 0.97 2812 161 0.2200 0.2654 REMARK 3 5 3.0283 - 2.8114 0.98 2812 159 0.2215 0.2809 REMARK 3 6 2.8114 - 2.6457 0.97 2820 132 0.2409 0.3089 REMARK 3 7 2.6457 - 2.5132 0.97 2797 117 0.2467 0.3273 REMARK 3 8 2.5132 - 2.4038 0.97 2875 138 0.2467 0.3042 REMARK 3 9 2.4038 - 2.3113 0.96 2780 131 0.2434 0.3371 REMARK 3 10 2.3113 - 2.2316 0.97 2814 137 0.2446 0.3070 REMARK 3 11 2.2316 - 2.1618 0.96 2835 149 0.2504 0.2969 REMARK 3 12 2.1618 - 2.1000 0.96 2755 140 0.2432 0.2930 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.390 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.93 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 6W5L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1000247670. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 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 : AIMLESS 0.7.3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35582 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 38.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.71400 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 2.8.2 REMARK 200 STARTING MODEL: 3UR9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% (W/V) PEG 3350, 0.1M TRIS, 200 MM REMARK 280 AMMONIUM ACETATE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 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 GLY A 174 REMARK 465 GLU A 175 REMARK 465 GLY A 176 REMARK 465 GLU A 177 REMARK 465 THR A 178 REMARK 465 ALA A 179 REMARK 465 LEU A 180 REMARK 465 GLU A 181 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 THR B 123 REMARK 465 GLY B 124 REMARK 465 ALA B 125 REMARK 465 ASN B 126 REMARK 465 ALA B 127 REMARK 465 LYS B 128 REMARK 465 GLY B 129 REMARK 465 MET B 130 REMARK 465 ASP B 131 REMARK 465 GLY B 174 REMARK 465 GLU B 175 REMARK 465 GLY B 176 REMARK 465 GLU B 177 REMARK 465 THR B 178 REMARK 465 ALA B 179 REMARK 465 LEU B 180 REMARK 465 GLU B 181 REMARK 465 HIS C -6 REMARK 465 HIS C -5 REMARK 465 HIS C -4 REMARK 465 HIS C -3 REMARK 465 HIS C -2 REMARK 465 HIS C -1 REMARK 465 THR C 123 REMARK 465 GLY C 124 REMARK 465 ALA C 125 REMARK 465 ASN C 126 REMARK 465 ALA C 127 REMARK 465 LYS C 128 REMARK 465 GLY C 129 REMARK 465 MET C 130 REMARK 465 ASP C 131 REMARK 465 LYS C 162 REMARK 465 SER C 163 REMARK 465 GLY C 164 REMARK 465 GLY C 174 REMARK 465 GLU C 175 REMARK 465 GLY C 176 REMARK 465 GLU C 177 REMARK 465 THR C 178 REMARK 465 ALA C 179 REMARK 465 LEU C 180 REMARK 465 GLU C 181 REMARK 465 HIS D -6 REMARK 465 HIS D -5 REMARK 465 HIS D -4 REMARK 465 HIS D -3 REMARK 465 HIS D -2 REMARK 465 THR D 123 REMARK 465 GLY D 124 REMARK 465 ALA D 125 REMARK 465 ASN D 126 REMARK 465 ALA D 127 REMARK 465 LYS D 128 REMARK 465 GLY D 129 REMARK 465 MET D 130 REMARK 465 GLY D 174 REMARK 465 GLU D 175 REMARK 465 GLY D 176 REMARK 465 GLU D 177 REMARK 465 THR D 178 REMARK 465 ALA D 179 REMARK 465 LEU D 180 REMARK 465 GLU D 181 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 37 CG CD CE NZ REMARK 470 GLU A 38 CG CD OE1 OE2 REMARK 470 GLU A 75 CG CD OE1 OE2 REMARK 470 ARG A 100 NE CZ NH1 NH2 REMARK 470 MET A 120 SD CE REMARK 470 LYS A 162 CD CE NZ REMARK 470 HIS B -1 CG ND1 CD2 CE1 NE2 REMARK 470 HIS B 0 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 37 CG CD CE NZ REMARK 470 GLU B 38 CG CD OE1 OE2 REMARK 470 GLU B 75 CG CD OE1 OE2 REMARK 470 GLU B 79 CD OE1 OE2 REMARK 470 ARG B 112 CG CD NE CZ NH1 NH2 REMARK 470 MET B 120 CG SD CE REMARK 470 ARG B 147 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 149 CG OD1 ND2 REMARK 470 LYS B 162 CG CD CE NZ REMARK 470 LYS C 11 CG CD CE NZ REMARK 470 LYS C 37 CG CD CE NZ REMARK 470 GLU C 38 CG CD OE1 OE2 REMARK 470 LEU C 44 CG CD1 CD2 REMARK 470 LYS C 62 CG CD CE NZ REMARK 470 GLU C 75 CG CD OE1 OE2 REMARK 470 GLU C 79 CG CD OE1 OE2 REMARK 470 ARG C 100 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 108 CD NE CZ NH1 NH2 REMARK 470 ARG C 112 NE CZ NH1 NH2 REMARK 470 MET C 120 CG SD CE REMARK 470 LEU C 132 CG CD1 CD2 REMARK 470 ARG C 147 CG CD NE CZ NH1 NH2 REMARK 470 ASN C 149 CG OD1 ND2 REMARK 470 LYS D 37 CG CD CE NZ REMARK 470 GLU D 75 CG CD OE1 OE2 REMARK 470 ARG D 100 NE CZ NH1 NH2 REMARK 470 MET D 120 SD CE REMARK 470 ASN D 149 CG OD1 ND2 REMARK 470 LYS D 162 CG CD CE NZ REMARK 470 ASN D 165 CG OD1 ND2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 CYS A 139 CA - CB - SG ANGL. DEV. = 6.9 DEGREES 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 12 117.33 -167.40 REMARK 500 ASN A 149 46.62 -140.63 REMARK 500 PHE B 12 118.87 -160.24 REMARK 500 ALA B 52 133.75 176.67 REMARK 500 LYS B 63 101.63 -59.63 REMARK 500 MET B 107 150.45 179.34 REMARK 500 ASN B 149 38.06 -94.69 REMARK 500 ALA C 52 128.61 -171.72 REMARK 500 PRO C 66 0.16 -69.72 REMARK 500 PHE D 12 122.27 -170.38 REMARK 500 ALA D 52 137.04 -173.91 REMARK 500 ASN D 149 30.81 -91.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 T0D A 201 REMARK 610 T0D B 201 REMARK 610 T0D C 201 REMARK 610 T0D D 201 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue T0D A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide T0D B 201 and CYS B REMARK 800 139 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide T0D C 201 and CYS C REMARK 800 139 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide T0D D 201 and CYS D REMARK 800 139 DBREF 6W5L A 1 181 UNP Q83883 POLG_NVN68 1101 1281 DBREF 6W5L B 1 181 UNP Q83883 POLG_NVN68 1101 1281 DBREF 6W5L C 1 181 UNP Q83883 POLG_NVN68 1101 1281 DBREF 6W5L D 1 181 UNP Q83883 POLG_NVN68 1101 1281 SEQADV 6W5L HIS A -6 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A -5 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A -4 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A -3 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A -2 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A -1 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS A 0 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -6 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -5 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -4 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -3 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -2 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B -1 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS B 0 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -6 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -5 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -4 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -3 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -2 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C -1 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS C 0 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -6 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -5 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -4 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -3 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -2 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D -1 UNP Q83883 EXPRESSION TAG SEQADV 6W5L HIS D 0 UNP Q83883 EXPRESSION TAG SEQRES 1 A 188 HIS HIS HIS HIS HIS HIS HIS ALA PRO PRO THR LEU TRP SEQRES 2 A 188 SER ARG VAL THR LYS PHE GLY SER GLY TRP GLY PHE TRP SEQRES 3 A 188 VAL SER PRO THR VAL PHE ILE THR THR THR HIS VAL VAL SEQRES 4 A 188 PRO THR GLY VAL LYS GLU PHE PHE GLY GLU PRO LEU SER SEQRES 5 A 188 SER ILE ALA ILE HIS GLN ALA GLY GLU PHE THR GLN PHE SEQRES 6 A 188 ARG PHE SER LYS LYS MET ARG PRO ASP LEU THR GLY MET SEQRES 7 A 188 VAL LEU GLU GLU GLY CYS PRO GLU GLY THR VAL CYS SER SEQRES 8 A 188 VAL LEU ILE LYS ARG ASP SER GLY GLU LEU LEU PRO LEU SEQRES 9 A 188 ALA VAL ARG MET GLY ALA ILE ALA SER MET ARG ILE GLN SEQRES 10 A 188 GLY ARG LEU VAL HIS GLY GLN SER GLY MET LEU LEU THR SEQRES 11 A 188 GLY ALA ASN ALA LYS GLY MET ASP LEU GLY THR ILE PRO SEQRES 12 A 188 GLY ASP CYS GLY ALA PRO TYR VAL HIS LYS ARG GLY ASN SEQRES 13 A 188 ASP TRP VAL VAL CYS GLY VAL HIS ALA ALA ALA THR LYS SEQRES 14 A 188 SER GLY ASN THR VAL VAL CYS ALA VAL GLN ALA GLY GLU SEQRES 15 A 188 GLY GLU THR ALA LEU GLU SEQRES 1 B 188 HIS HIS HIS HIS HIS HIS HIS ALA PRO PRO THR LEU TRP SEQRES 2 B 188 SER ARG VAL THR LYS PHE GLY SER GLY TRP GLY PHE TRP SEQRES 3 B 188 VAL SER PRO THR VAL PHE ILE THR THR THR HIS VAL VAL SEQRES 4 B 188 PRO THR GLY VAL LYS GLU PHE PHE GLY GLU PRO LEU SER SEQRES 5 B 188 SER ILE ALA ILE HIS GLN ALA GLY GLU PHE THR GLN PHE SEQRES 6 B 188 ARG PHE SER LYS LYS MET ARG PRO ASP LEU THR GLY MET SEQRES 7 B 188 VAL LEU GLU GLU GLY CYS PRO GLU GLY THR VAL CYS SER SEQRES 8 B 188 VAL LEU ILE LYS ARG ASP SER GLY GLU LEU LEU PRO LEU SEQRES 9 B 188 ALA VAL ARG MET GLY ALA ILE ALA SER MET ARG ILE GLN SEQRES 10 B 188 GLY ARG LEU VAL HIS GLY GLN SER GLY MET LEU LEU THR SEQRES 11 B 188 GLY ALA ASN ALA LYS GLY MET ASP LEU GLY THR ILE PRO SEQRES 12 B 188 GLY ASP CYS GLY ALA PRO TYR VAL HIS LYS ARG GLY ASN SEQRES 13 B 188 ASP TRP VAL VAL CYS GLY VAL HIS ALA ALA ALA THR LYS SEQRES 14 B 188 SER GLY ASN THR VAL VAL CYS ALA VAL GLN ALA GLY GLU SEQRES 15 B 188 GLY GLU THR ALA LEU GLU SEQRES 1 C 188 HIS HIS HIS HIS HIS HIS HIS ALA PRO PRO THR LEU TRP SEQRES 2 C 188 SER ARG VAL THR LYS PHE GLY SER GLY TRP GLY PHE TRP SEQRES 3 C 188 VAL SER PRO THR VAL PHE ILE THR THR THR HIS VAL VAL SEQRES 4 C 188 PRO THR GLY VAL LYS GLU PHE PHE GLY GLU PRO LEU SER SEQRES 5 C 188 SER ILE ALA ILE HIS GLN ALA GLY GLU PHE THR GLN PHE SEQRES 6 C 188 ARG PHE SER LYS LYS MET ARG PRO ASP LEU THR GLY MET SEQRES 7 C 188 VAL LEU GLU GLU GLY CYS PRO GLU GLY THR VAL CYS SER SEQRES 8 C 188 VAL LEU ILE LYS ARG ASP SER GLY GLU LEU LEU PRO LEU SEQRES 9 C 188 ALA VAL ARG MET GLY ALA ILE ALA SER MET ARG ILE GLN SEQRES 10 C 188 GLY ARG LEU VAL HIS GLY GLN SER GLY MET LEU LEU THR SEQRES 11 C 188 GLY ALA ASN ALA LYS GLY MET ASP LEU GLY THR ILE PRO SEQRES 12 C 188 GLY ASP CYS GLY ALA PRO TYR VAL HIS LYS ARG GLY ASN SEQRES 13 C 188 ASP TRP VAL VAL CYS GLY VAL HIS ALA ALA ALA THR LYS SEQRES 14 C 188 SER GLY ASN THR VAL VAL CYS ALA VAL GLN ALA GLY GLU SEQRES 15 C 188 GLY GLU THR ALA LEU GLU SEQRES 1 D 188 HIS HIS HIS HIS HIS HIS HIS ALA PRO PRO THR LEU TRP SEQRES 2 D 188 SER ARG VAL THR LYS PHE GLY SER GLY TRP GLY PHE TRP SEQRES 3 D 188 VAL SER PRO THR VAL PHE ILE THR THR THR HIS VAL VAL SEQRES 4 D 188 PRO THR GLY VAL LYS GLU PHE PHE GLY GLU PRO LEU SER SEQRES 5 D 188 SER ILE ALA ILE HIS GLN ALA GLY GLU PHE THR GLN PHE SEQRES 6 D 188 ARG PHE SER LYS LYS MET ARG PRO ASP LEU THR GLY MET SEQRES 7 D 188 VAL LEU GLU GLU GLY CYS PRO GLU GLY THR VAL CYS SER SEQRES 8 D 188 VAL LEU ILE LYS ARG ASP SER GLY GLU LEU LEU PRO LEU SEQRES 9 D 188 ALA VAL ARG MET GLY ALA ILE ALA SER MET ARG ILE GLN SEQRES 10 D 188 GLY ARG LEU VAL HIS GLY GLN SER GLY MET LEU LEU THR SEQRES 11 D 188 GLY ALA ASN ALA LYS GLY MET ASP LEU GLY THR ILE PRO SEQRES 12 D 188 GLY ASP CYS GLY ALA PRO TYR VAL HIS LYS ARG GLY ASN SEQRES 13 D 188 ASP TRP VAL VAL CYS GLY VAL HIS ALA ALA ALA THR LYS SEQRES 14 D 188 SER GLY ASN THR VAL VAL CYS ALA VAL GLN ALA GLY GLU SEQRES 15 D 188 GLY GLU THR ALA LEU GLU HET T0D A 201 33 HET T0D B 201 33 HET T0D C 201 33 HET T0D D 201 33 HETNAM T0D (2~{S})-~{N}-[(1~{R})-1-[BIS($L^{1}-OXIDANYL)-METHOXY- HETNAM 2 T0D $L^{5}-SULFANYL]-1-OXIDANYL-3-[(3~{R})-2- HETNAM 3 T0D OXIDANYLIDENEPYRROLIDIN-3-YL]PROPAN-2-YL]-2-[[[2-(3- HETNAM 4 T0D CHLOROPHENYL)-2-METHYL-PROPOXY]-OXIDANYLIDENE- HETNAM 5 T0D METHYL]AMINO]-4-METHYL-PENTANAMIDE FORMUL 5 T0D 4(C26 H38 CL N3 O9 S) FORMUL 9 HOH *81(H2 O) HELIX 1 AA1 PRO A 2 SER A 7 1 6 HELIX 2 AA2 HIS A 30 VAL A 32 5 3 HELIX 3 AA3 PRO B 2 SER B 7 1 6 HELIX 4 AA4 HIS B 30 VAL B 32 5 3 HELIX 5 AA5 PRO C 2 ARG C 8 1 7 HELIX 6 AA6 HIS C 30 VAL C 32 5 3 HELIX 7 AA7 PRO C 43 SER C 45 5 3 HELIX 8 AA8 PRO D 2 SER D 7 1 6 HELIX 9 AA9 HIS D 30 VAL D 32 5 3 HELIX 10 AB1 PRO D 43 SER D 45 5 3 SHEET 1 AA1 5 VAL A 9 PHE A 12 0 SHEET 2 AA1 5 GLY A 15 TRP A 19 -1 O GLY A 15 N PHE A 12 SHEET 3 AA1 5 VAL A 24 THR A 28 -1 O ILE A 26 N PHE A 18 SHEET 4 AA1 5 PHE A 55 PHE A 60 -1 O THR A 56 N THR A 27 SHEET 5 AA1 5 ILE A 47 ALA A 52 -1 N HIS A 50 O GLN A 57 SHEET 1 AA2 2 GLU A 38 PHE A 39 0 SHEET 2 AA2 2 GLU A 42 PRO A 43 -1 O GLU A 42 N PHE A 39 SHEET 1 AA3 8 VAL A 72 LEU A 73 0 SHEET 2 AA3 8 ASP A 150 ALA A 160 1 O VAL A 153 N VAL A 72 SHEET 3 AA3 8 THR A 166 ALA A 170 -1 O VAL A 168 N ALA A 159 SHEET 4 AA3 8 ARG A 112 LEU A 121 -1 N GLY A 119 O VAL A 167 SHEET 5 AA3 8 LEU A 94 ILE A 109 -1 N GLY A 102 O SER A 118 SHEET 6 AA3 8 VAL A 82 LYS A 88 -1 N ILE A 87 O LEU A 95 SHEET 7 AA3 8 PRO A 142 ARG A 147 -1 O VAL A 144 N SER A 84 SHEET 8 AA3 8 ASP A 150 ALA A 160 -1 O GLY A 155 N TYR A 143 SHEET 1 AA4 5 VAL B 9 PHE B 12 0 SHEET 2 AA4 5 GLY B 15 TRP B 19 -1 O GLY B 17 N THR B 10 SHEET 3 AA4 5 VAL B 24 THR B 28 -1 O ILE B 26 N PHE B 18 SHEET 4 AA4 5 PHE B 55 PHE B 60 -1 O PHE B 58 N PHE B 25 SHEET 5 AA4 5 ILE B 47 ALA B 52 -1 N HIS B 50 O GLN B 57 SHEET 1 AA5 2 GLU B 38 PHE B 39 0 SHEET 2 AA5 2 GLU B 42 PRO B 43 -1 O GLU B 42 N PHE B 39 SHEET 1 AA6 8 VAL B 72 LEU B 73 0 SHEET 2 AA6 8 TRP B 151 ALA B 160 1 O VAL B 153 N VAL B 72 SHEET 3 AA6 8 THR B 166 ALA B 170 -1 O VAL B 168 N ALA B 159 SHEET 4 AA6 8 ARG B 112 LEU B 121 -1 N GLY B 119 O VAL B 167 SHEET 5 AA6 8 LEU B 94 ILE B 109 -1 N GLY B 102 O SER B 118 SHEET 6 AA6 8 VAL B 82 LYS B 88 -1 N CYS B 83 O VAL B 99 SHEET 7 AA6 8 PRO B 142 LYS B 146 -1 O VAL B 144 N SER B 84 SHEET 8 AA6 8 TRP B 151 ALA B 160 -1 O CYS B 154 N TYR B 143 SHEET 1 AA7 5 VAL C 9 PHE C 12 0 SHEET 2 AA7 5 GLY C 15 TRP C 19 -1 O GLY C 15 N PHE C 12 SHEET 3 AA7 5 VAL C 24 THR C 28 -1 O ILE C 26 N PHE C 18 SHEET 4 AA7 5 PHE C 55 PHE C 60 -1 O PHE C 58 N PHE C 25 SHEET 5 AA7 5 ILE C 47 ALA C 52 -1 N HIS C 50 O GLN C 57 SHEET 1 AA8 8 VAL C 72 LEU C 73 0 SHEET 2 AA8 8 ASP C 150 ALA C 160 1 O VAL C 153 N VAL C 72 SHEET 3 AA8 8 THR C 166 ALA C 170 -1 O VAL C 168 N ALA C 159 SHEET 4 AA8 8 ARG C 112 LEU C 121 -1 N GLY C 119 O VAL C 167 SHEET 5 AA8 8 LEU C 94 ILE C 109 -1 N GLY C 102 O SER C 118 SHEET 6 AA8 8 VAL C 82 LYS C 88 -1 N CYS C 83 O VAL C 99 SHEET 7 AA8 8 PRO C 142 ARG C 147 -1 O VAL C 144 N SER C 84 SHEET 8 AA8 8 ASP C 150 ALA C 160 -1 O GLY C 155 N TYR C 143 SHEET 1 AA9 5 VAL D 9 PHE D 12 0 SHEET 2 AA9 5 GLY D 15 TRP D 19 -1 O GLY D 17 N THR D 10 SHEET 3 AA9 5 VAL D 24 THR D 28 -1 O ILE D 26 N PHE D 18 SHEET 4 AA9 5 PHE D 55 PHE D 60 -1 O PHE D 58 N PHE D 25 SHEET 5 AA9 5 ILE D 47 ALA D 52 -1 N ALA D 48 O ARG D 59 SHEET 1 AB1 8 VAL D 72 LEU D 73 0 SHEET 2 AB1 8 ASP D 150 ALA D 160 1 O VAL D 153 N VAL D 72 SHEET 3 AB1 8 THR D 166 ALA D 170 -1 O VAL D 168 N ALA D 159 SHEET 4 AB1 8 ARG D 112 LEU D 121 -1 N GLY D 119 O VAL D 167 SHEET 5 AB1 8 LEU D 94 ILE D 109 -1 N MET D 107 O VAL D 114 SHEET 6 AB1 8 VAL D 82 LYS D 88 -1 N ILE D 87 O LEU D 95 SHEET 7 AB1 8 PRO D 142 ARG D 147 -1 O VAL D 144 N SER D 84 SHEET 8 AB1 8 ASP D 150 ALA D 160 -1 O GLY D 155 N TYR D 143 LINK SG CYS A 139 C22 T0D A 201 1555 1555 1.79 LINK SG CYS B 139 C22 T0D B 201 1555 1555 1.80 LINK SG CYS C 139 C22 T0D C 201 1555 1555 1.80 LINK SG CYS D 139 C22 T0D D 201 1555 1555 1.80 SITE 1 AC1 14 HIS A 30 ILE A 109 GLN A 110 ARG A 112 SITE 2 AC1 14 THR A 134 PRO A 136 CYS A 139 HIS A 157 SITE 3 AC1 14 ALA A 158 ALA A 159 ALA A 160 THR A 161 SITE 4 AC1 14 LYS A 162 VAL A 168 SITE 1 AC2 18 GLY B 15 TRP B 16 HIS B 30 VAL B 31 SITE 2 AC2 18 ILE B 109 GLN B 110 THR B 134 ILE B 135 SITE 3 AC2 18 PRO B 136 GLY B 137 ASP B 138 GLY B 140 SITE 4 AC2 18 ALA B 141 HIS B 157 ALA B 158 ALA B 159 SITE 5 AC2 18 ALA B 160 HOH B 308 SITE 1 AC3 16 GLY C 15 TRP C 16 HIS C 30 VAL C 31 SITE 2 AC3 16 GLN C 110 THR C 134 PRO C 136 GLY C 137 SITE 3 AC3 16 ASP C 138 GLY C 140 ALA C 141 HIS C 157 SITE 4 AC3 16 ALA C 158 ALA C 159 ALA C 160 HOH C 306 SITE 1 AC4 21 GLY D 15 TRP D 16 HIS D 30 VAL D 31 SITE 2 AC4 21 ILE D 109 GLN D 110 ARG D 112 THR D 134 SITE 3 AC4 21 GLY D 137 ASP D 138 GLY D 140 ALA D 141 SITE 4 AC4 21 HIS D 157 ALA D 158 ALA D 159 ALA D 160 SITE 5 AC4 21 LYS D 162 VAL D 168 HOH D 308 HOH D 314 SITE 6 AC4 21 HOH D 324 CRYST1 37.435 37.859 115.535 91.65 96.44 95.44 P 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 0.026713 0.002543 0.003118 0.00000 SCALE2 0.000000 0.026533 0.001058 0.00000 SCALE3 0.000000 0.000000 0.008717 0.00000