HEADER HYDROLASE 23-OCT-14 4RNA TITLE CRYSTAL STRUCTURE OF PLPRO FROM MIDDLE EAST RESPIRATORY SYNDROME TITLE 2 (MERS) CORONAVIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PAPAIN-LIKE PROTEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1482-1803; COMPND 5 EC: 3.4.22.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN BETACORONAVIRUS 2C EMC/2012; SOURCE 3 ORGANISM_TAXID: 1235996; SOURCE 4 GENE: ORF1AB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 STAR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS MERS, CORONAVIRUS, PAPAIN-LIKE PROTEASE, PLPRO, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.LEI,B.D.SANTARSIERO,H.LEE,M.E.JOHNSON REVDAT 5 06-DEC-23 4RNA 1 REMARK REVDAT 4 20-SEP-23 4RNA 1 REMARK SEQADV LINK REVDAT 3 22-NOV-17 4RNA 1 REMARK REVDAT 2 01-JUL-15 4RNA 1 JRNL REVDAT 1 25-MAR-15 4RNA 0 JRNL AUTH H.LEE,H.LEI,B.D.SANTARSIERO,J.L.GATUZ,S.CAO,A.J.RICE, JRNL AUTH 2 K.PATEL,M.Z.SZYPULINSKI,I.OJEDA,A.K.GHOSH,M.E.JOHNSON JRNL TITL INHIBITOR RECOGNITION SPECIFICITY OF MERS-COV PAPAIN-LIKE JRNL TITL 2 PROTEASE MAY DIFFER FROM THAT OF SARS-COV. JRNL REF ACS CHEM.BIOL. V. 10 1456 2015 JRNL REFN ISSN 1554-8929 JRNL PMID 25746232 JRNL DOI 10.1021/CB500917M REMARK 2 REMARK 2 RESOLUTION. 1.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 31482 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1681 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1955 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.4070 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.4290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2504 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 204 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.55000 REMARK 3 B22 (A**2) : 3.51000 REMARK 3 B33 (A**2) : -2.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.67000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.126 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.127 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2590 ; 0.019 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3520 ; 2.209 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 324 ; 6.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;38.498 ;23.909 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 440 ;16.167 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;24.939 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 404 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1914 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4RNA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000087557. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DIAMOND(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33172 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.794 REMARK 200 RESOLUTION RANGE LOW (A) : 19.731 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.270 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.07900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.7140 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 1.34800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.600 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: PDB ENTRY 4PT5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.056 M SODIUM PHOSPHATE MONOBASIC REMARK 280 MONOHYDRATE, 1.344 M POTASSIUM PHOSPHATE, PH 8.0, 20% GLYCEROL, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 49.44950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.39000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 49.44950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.39000 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: 5590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 -1 REMARK 465 PRO A 0 REMARK 465 GLN A 1 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 565 O HOH A 630 1.80 REMARK 500 O HOH A 544 O HOH A 643 1.80 REMARK 500 O HOH A 561 O HOH A 642 1.81 REMARK 500 OD1 ASP A 144 O HOH A 624 1.87 REMARK 500 O HOH A 550 O HOH A 597 1.89 REMARK 500 O HOH A 539 O HOH A 576 1.89 REMARK 500 O HOH A 529 O HOH A 701 1.97 REMARK 500 O HOH A 561 O HOH A 587 2.00 REMARK 500 O HOH A 580 O HOH A 688 2.02 REMARK 500 O HOH A 663 O HOH A 668 2.03 REMARK 500 O HOH A 553 O HOH A 643 2.10 REMARK 500 O HOH A 597 O HOH A 609 2.10 REMARK 500 O HOH A 554 O HOH A 670 2.17 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 566 O HOH A 703 2555 1.62 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 TRP A 93 CE2 TRP A 93 CD2 0.073 REMARK 500 TRP A 243 CE2 TRP A 243 CD2 0.081 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 168 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 168 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 GLY A 277 N - CA - C ANGL. DEV. = 16.7 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 LEU A 30 -58.12 -140.04 REMARK 500 VAL A 276 50.89 36.35 REMARK 500 THR A 308 -85.97 -120.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 276 GLY A 277 141.82 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 191 SG REMARK 620 2 CYS A 194 SG 109.2 REMARK 620 3 CYS A 226 SG 112.5 109.8 REMARK 620 4 CYS A 228 SG 108.1 110.3 106.8 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PT5 RELATED DB: PDB DBREF 4RNA A 1 322 UNP K4LC41 K4LC41_9BETC 1482 1803 SEQADV 4RNA GLY A -1 UNP K4LC41 EXPRESSION TAG SEQADV 4RNA PRO A 0 UNP K4LC41 EXPRESSION TAG SEQRES 1 A 324 GLY PRO GLN LEU THR ILE GLU VAL LEU VAL THR VAL ASP SEQRES 2 A 324 GLY VAL ASN PHE ARG THR VAL VAL LEU ASN ASN LYS ASN SEQRES 3 A 324 THR TYR ARG SER GLN LEU GLY CYS VAL PHE PHE ASN GLY SEQRES 4 A 324 ALA ASP ILE SER ASP THR ILE PRO ASP GLU LYS GLN ASN SEQRES 5 A 324 GLY HIS SER LEU TYR LEU ALA ASP ASN LEU THR ALA ASP SEQRES 6 A 324 GLU THR LYS ALA LEU LYS GLU LEU TYR GLY PRO VAL ASP SEQRES 7 A 324 PRO THR PHE LEU HIS ARG PHE TYR SER LEU LYS ALA ALA SEQRES 8 A 324 VAL HIS GLY TRP LYS MET VAL VAL OCS ASP LYS VAL ARG SEQRES 9 A 324 SER LEU LYS LEU SER ASP ASN ASN CSS TYR LEU ASN ALA SEQRES 10 A 324 VAL ILE MET THR LEU ASP LEU LEU LYS ASP ILE LYS PHE SEQRES 11 A 324 VAL ILE PRO ALA LEU GLN HIS ALA PHE MET LYS HIS LYS SEQRES 12 A 324 GLY GLY ASP SER THR ASP PHE ILE ALA LEU ILE MET ALA SEQRES 13 A 324 TYR GLY ASN CYS THR PHE GLY ALA PRO ASP ASP ALA SER SEQRES 14 A 324 ARG LEU LEU HIS THR VAL LEU ALA LYS ALA GLU LEU CYS SEQRES 15 A 324 CYS SER ALA ARG MET VAL TRP ARG GLU TRP CYS ASN VAL SEQRES 16 A 324 CYS GLY ILE LYS ASP VAL VAL LEU GLN GLY LEU LYS ALA SEQRES 17 A 324 CYS CYS TYR VAL GLY VAL GLN THR VAL GLU ASP LEU ARG SEQRES 18 A 324 ALA ARG MET THR TYR VAL CYS GLN CYS GLY GLY GLU ARG SEQRES 19 A 324 HIS ARG GLN LEU VAL GLU HIS THR THR PRO TRP LEU LEU SEQRES 20 A 324 LEU SER GLY THR PRO ASN GLU LYS LEU VAL THR THR SER SEQRES 21 A 324 THR ALA PRO ASP PHE VAL ALA PHE ASN VAL PHE GLN GLY SEQRES 22 A 324 ILE GLU THR ALA VAL GLY HIS TYR VAL HIS ALA ARG LEU SEQRES 23 A 324 LYS GLY GLY LEU ILE LEU LYS PHE ASP SER GLY THR VAL SEQRES 24 A 324 SER LYS THR SER ASP TRP LYS CYS LYS VAL THR ASP VAL SEQRES 25 A 324 LEU PHE PRO GLY GLN LYS TYR SER SER ASP CYS ASN MODRES 4RNA OCS A 98 CYS CYSTEINESULFONIC ACID MODRES 4RNA CSS A 111 CYS S-MERCAPTOCYSTEINE HET OCS A 98 9 HET CSS A 111 7 HET ZN A 401 1 HET PO4 A 402 5 HET PO4 A 403 5 HET PO4 A 404 5 HET PO4 A 405 5 HETNAM OCS CYSTEINESULFONIC ACID HETNAM CSS S-MERCAPTOCYSTEINE HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION FORMUL 1 OCS C3 H7 N O5 S FORMUL 1 CSS C3 H7 N O2 S2 FORMUL 2 ZN ZN 2+ FORMUL 3 PO4 4(O4 P 3-) FORMUL 7 HOH *204(H2 O) HELIX 1 1 THR A 25 LEU A 30 1 6 HELIX 2 2 ASP A 46 ASN A 50 5 5 HELIX 3 3 THR A 61 GLY A 73 1 13 HELIX 4 4 THR A 78 HIS A 91 1 14 HELIX 5 5 ASN A 110 ASP A 121 1 12 HELIX 6 6 ILE A 130 GLY A 142 1 13 HELIX 7 7 SER A 145 ASN A 157 1 13 HELIX 8 8 ASP A 165 ALA A 175 1 11 HELIX 9 9 LEU A 204 ALA A 206 5 3 HELIX 10 10 THR A 214 ALA A 220 1 7 SHEET 1 A 5 ARG A 16 ASN A 21 0 SHEET 2 A 5 THR A 3 THR A 9 -1 N VAL A 8 O ARG A 16 SHEET 3 A 5 SER A 53 LEU A 56 1 O LEU A 54 N LEU A 7 SHEET 4 A 5 VAL A 33 PHE A 35 -1 N PHE A 34 O TYR A 55 SHEET 5 A 5 ALA A 38 ASP A 39 -1 O ALA A 38 N PHE A 35 SHEET 1 B 2 MET A 95 OCS A 98 0 SHEET 2 B 2 VAL A 101 LEU A 104 -1 O SER A 103 N VAL A 96 SHEET 1 C 2 ILE A 126 PHE A 128 0 SHEET 2 C 2 ALA A 177 LEU A 179 -1 O GLU A 178 N LYS A 127 SHEET 1 D 4 GLY A 195 GLN A 202 0 SHEET 2 D 4 ARG A 184 CYS A 191 -1 N MET A 185 O LEU A 201 SHEET 3 D 4 GLU A 231 THR A 240 -1 O THR A 240 N ARG A 184 SHEET 4 D 4 MET A 222 VAL A 225 -1 N MET A 222 O ARG A 234 SHEET 1 E 4 GLY A 195 GLN A 202 0 SHEET 2 E 4 ARG A 184 CYS A 191 -1 N MET A 185 O LEU A 201 SHEET 3 E 4 GLU A 231 THR A 240 -1 O THR A 240 N ARG A 184 SHEET 4 E 4 LYS A 316 SER A 318 -1 O TYR A 317 N HIS A 239 SHEET 1 F 7 CYS A 208 VAL A 210 0 SHEET 2 F 7 TRP A 243 THR A 256 1 O LEU A 245 N TYR A 209 SHEET 3 F 7 ASP A 302 PRO A 313 -1 O TRP A 303 N VAL A 255 SHEET 4 F 7 ALA A 265 GLN A 270 -1 N ALA A 265 O LEU A 311 SHEET 5 F 7 HIS A 278 LYS A 285 -1 O HIS A 278 N GLN A 270 SHEET 6 F 7 LEU A 288 PHE A 292 -1 O LEU A 290 N ARG A 283 SHEET 7 F 7 VAL A 297 THR A 300 -1 O SER A 298 N LYS A 291 LINK C VAL A 97 N OCS A 98 1555 1555 1.34 LINK C OCS A 98 N ASP A 99 1555 1555 1.35 LINK C ASN A 110 N CSS A 111 1555 1555 1.35 LINK C CSS A 111 N TYR A 112 1555 1555 1.34 LINK SG CYS A 191 ZN ZN A 401 1555 1555 2.38 LINK SG CYS A 194 ZN ZN A 401 1555 1555 2.25 LINK SG CYS A 226 ZN ZN A 401 1555 1555 2.44 LINK SG CYS A 228 ZN ZN A 401 1555 1555 2.32 SITE 1 AC1 4 CYS A 191 CYS A 194 CYS A 226 CYS A 228 SITE 1 AC2 8 VAL A 90 TRP A 93 MET A 95 SER A 145 SITE 2 AC2 8 THR A 146 ILE A 149 HOH A 547 HOH A 569 SITE 1 AC3 6 ASN A 59 TRP A 187 TYR A 209 ASP A 217 SITE 2 AC3 6 ALA A 220 ARG A 234 SITE 1 AC4 6 GLN A 213 LYS A 253 VAL A 255 PHE A 263 SITE 2 AC4 6 VAL A 307 ASN A 322 SITE 1 AC5 6 ASP A 58 ASN A 59 LEU A 60 TYR A 209 SITE 2 AC5 6 VAL A 210 HOH A 589 CRYST1 98.899 48.780 87.464 90.00 121.52 90.00 C 1 2 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 0.010111 0.000000 0.006202 0.00000 SCALE2 0.000000 0.020500 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013412 0.00000