HEADER TRANSCRIPTION 30-MAR-14 4P83 TITLE STRUCTURE OF ENGINEERED PYRR PROTEIN (PURPLE PYRR) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENGINEERED PYRR PROTEIN (PURPLE); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: BACTERIA; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 629395 KEYWDS RNA BINDING PROTEINS, RECONSTRUCTED AMINO ACID SEQUENCE, KEYWDS 2 TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR T.PERICA,Y.KONDO,S.TIWARI,S.MCLAUGHLIN,A.STEWARD,N.REUTER,J.CLARKE, AUTHOR 2 S.A.TEICHMANN REVDAT 4 20-DEC-23 4P83 1 REMARK REVDAT 3 31-DEC-14 4P83 1 JRNL REVDAT 2 24-DEC-14 4P83 1 DBREF REVDAT 1 17-DEC-14 4P83 0 JRNL AUTH T.PERICA,Y.KONDO,S.P.TIWARI,S.H.MCLAUGHLIN,K.R.KEMPLEN, JRNL AUTH 2 X.ZHANG,A.STEWARD,N.REUTER,J.CLARKE,S.A.TEICHMANN JRNL TITL EVOLUTION OF OLIGOMERIC STATE THROUGH ALLOSTERIC PATHWAYS JRNL TITL 2 THAT MIMIC LIGAND BINDING. JRNL REF SCIENCE V. 346 54346 2014 JRNL REFN ESSN 1095-9203 JRNL PMID 25525255 JRNL DOI 10.1126/SCIENCE.1254346 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 29162 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1546 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2111 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5250 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 134 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.83000 REMARK 3 B22 (A**2) : 1.83000 REMARK 3 B33 (A**2) : -3.66000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.448 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.278 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.222 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.453 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5404 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5427 ; 0.012 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7328 ; 1.867 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12411 ; 1.840 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 664 ; 5.782 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 258 ;34.833 ;23.295 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 970 ;20.778 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 71 ;22.082 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 880 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5993 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1150 ; 0.007 ; 0.020 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): 2680 ; 3.953 ; 4.738 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2679 ; 3.951 ; 4.737 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3336 ; 6.166 ; 7.073 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3337 ; 6.166 ; 7.074 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2724 ; 4.516 ; 5.300 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2723 ; 4.516 ; 5.301 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3993 ; 7.052 ; 7.746 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 21808 ;10.782 ;44.849 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 21809 ;10.781 ;44.849 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 5 180 B 5 180 9825 0.16 0.05 REMARK 3 2 A 5 180 C 5 180 9761 0.15 0.05 REMARK 3 3 A 5 180 D 5 180 9981 0.14 0.05 REMARK 3 4 B 5 181 C 5 181 9788 0.16 0.05 REMARK 3 5 B 5 181 D 5 181 9980 0.16 0.05 REMARK 3 6 C 5 181 D 5 181 10133 0.15 0.05 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4P83 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000200903. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29162 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 53.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 11.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 12.10 REMARK 200 R MERGE FOR SHELL (I) : 1.16600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 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: 1A3C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4000, 0.1 M TRIS HCL PH 8.5, REMARK 280 0.2 M MAGNESIUM CHLORIDE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 143.38500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.57500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.57500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 215.07750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.57500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.57500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 71.69250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.57500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.57500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 215.07750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.57500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.57500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 71.69250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 143.38500 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: 8320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 305 LIES ON A SPECIAL POSITION. 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 SER A 2 REMARK 465 ASN A 3 REMARK 465 GLN A 4 REMARK 465 TYR A 73 REMARK 465 ARG A 74 REMARK 465 ASP A 75 REMARK 465 ASP A 76 REMARK 465 LEU A 77 REMARK 465 SER A 78 REMARK 465 VAL A 79 REMARK 465 LYS A 80 REMARK 465 THR A 81 REMARK 465 ASP A 82 REMARK 465 ASP A 83 REMARK 465 ASN A 181 REMARK 465 LYS A 182 REMARK 465 GLY B 1 REMARK 465 SER B 2 REMARK 465 ASN B 3 REMARK 465 GLN B 4 REMARK 465 ARG B 74 REMARK 465 ASP B 75 REMARK 465 ASP B 76 REMARK 465 LEU B 77 REMARK 465 SER B 78 REMARK 465 VAL B 79 REMARK 465 LYS B 80 REMARK 465 THR B 81 REMARK 465 ASP B 82 REMARK 465 LYS B 182 REMARK 465 GLY C 1 REMARK 465 SER C 2 REMARK 465 ASN C 3 REMARK 465 GLN C 4 REMARK 465 GLY C 31 REMARK 465 ILE C 32 REMARK 465 ASP C 76 REMARK 465 LEU C 77 REMARK 465 SER C 78 REMARK 465 VAL C 79 REMARK 465 LYS C 80 REMARK 465 THR C 81 REMARK 465 ASP C 82 REMARK 465 ASP C 83 REMARK 465 LYS C 182 REMARK 465 GLY D 1 REMARK 465 SER D 2 REMARK 465 ASN D 3 REMARK 465 GLN D 4 REMARK 465 ASP D 76 REMARK 465 LEU D 77 REMARK 465 SER D 78 REMARK 465 VAL D 79 REMARK 465 LYS D 80 REMARK 465 THR D 81 REMARK 465 LYS D 182 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 OE1 GLU C 166 ND2 ASN C 173 1.98 REMARK 500 OE1 GLU D 166 OD1 ASN D 173 2.19 REMARK 500 CG2 THR B 71 CG LYS B 89 2.19 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 142 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP B 107 N - CA - CB ANGL. DEV. = -11.3 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 LYS A 41 -171.92 65.19 REMARK 500 PRO A 94 50.85 -91.14 REMARK 500 PHE A 110 -106.74 -121.57 REMARK 500 LYS B 41 -168.72 72.97 REMARK 500 PRO B 94 53.24 -90.11 REMARK 500 PHE B 110 -103.60 -122.95 REMARK 500 LYS C 41 -172.67 67.87 REMARK 500 PRO C 94 50.49 -92.06 REMARK 500 PHE C 110 -104.56 -122.72 REMARK 500 LYS D 41 -170.97 68.91 REMARK 500 ASP D 83 -54.31 -120.52 REMARK 500 ASP D 84 143.23 84.34 REMARK 500 PRO D 94 55.55 -91.05 REMARK 500 PHE D 110 -104.27 -120.85 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 ASP D 84 GLU D 85 142.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P D 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P80 RELATED DB: PDB REMARK 900 RELATED ID: 4P81 RELATED DB: PDB REMARK 900 RELATED ID: 4P82 RELATED DB: PDB REMARK 900 RELATED ID: 4P84 RELATED DB: PDB REMARK 900 RELATED ID: 4P86 RELATED DB: PDB DBREF 4P83 A 1 182 PDB 4P83 4P83 1 182 DBREF 4P83 B 1 182 PDB 4P83 4P83 1 182 DBREF 4P83 C 1 182 PDB 4P83 4P83 1 182 DBREF 4P83 D 1 182 PDB 4P83 4P83 1 182 SEQRES 1 A 182 GLY SER ASN GLN LYS ALA VAL ILE MET ASP GLU GLN ALA SEQRES 2 A 182 ILE ARG ARG ALA LEU THR ARG ILE ALA HIS GLU ILE ILE SEQRES 3 A 182 GLU ARG ASN LYS GLY ILE ASP GLY CYS VAL LEU VAL GLY SEQRES 4 A 182 ILE LYS THR ARG GLY ILE TYR LEU ALA ARG ARG LEU ALA SEQRES 5 A 182 GLU ARG ILE GLU GLN ILE GLU GLY ALA PRO VAL PRO VAL SEQRES 6 A 182 GLY GLU ILE ASP ILE THR LEU TYR ARG ASP ASP LEU SER SEQRES 7 A 182 VAL LYS THR ASP ASP ASP GLU PRO LEU VAL LYS GLY THR SEQRES 8 A 182 ASN VAL PRO PHE PRO VAL THR GLU ARG ASN VAL ILE LEU SEQRES 9 A 182 VAL ASP ASP VAL LEU PHE THR GLY ARG THR VAL ARG ALA SEQRES 10 A 182 GLY MET ASP ALA VAL MET ASP LEU GLY ARG PRO ALA ARG SEQRES 11 A 182 ILE GLN LEU ALA VAL LEU VAL ASP ARG GLY HIS ARG GLU SEQRES 12 A 182 LEU PRO ILE ARG ALA ASP PHE VAL GLY LYS ASN VAL PRO SEQRES 13 A 182 THR SER ARG SER GLU LEU ILE VAL VAL GLU LEU ASP GLU SEQRES 14 A 182 VAL ASP GLN ASN ASP GLN VAL SER ILE HIS GLU ASN LYS SEQRES 1 B 182 GLY SER ASN GLN LYS ALA VAL ILE MET ASP GLU GLN ALA SEQRES 2 B 182 ILE ARG ARG ALA LEU THR ARG ILE ALA HIS GLU ILE ILE SEQRES 3 B 182 GLU ARG ASN LYS GLY ILE ASP GLY CYS VAL LEU VAL GLY SEQRES 4 B 182 ILE LYS THR ARG GLY ILE TYR LEU ALA ARG ARG LEU ALA SEQRES 5 B 182 GLU ARG ILE GLU GLN ILE GLU GLY ALA PRO VAL PRO VAL SEQRES 6 B 182 GLY GLU ILE ASP ILE THR LEU TYR ARG ASP ASP LEU SER SEQRES 7 B 182 VAL LYS THR ASP ASP ASP GLU PRO LEU VAL LYS GLY THR SEQRES 8 B 182 ASN VAL PRO PHE PRO VAL THR GLU ARG ASN VAL ILE LEU SEQRES 9 B 182 VAL ASP ASP VAL LEU PHE THR GLY ARG THR VAL ARG ALA SEQRES 10 B 182 GLY MET ASP ALA VAL MET ASP LEU GLY ARG PRO ALA ARG SEQRES 11 B 182 ILE GLN LEU ALA VAL LEU VAL ASP ARG GLY HIS ARG GLU SEQRES 12 B 182 LEU PRO ILE ARG ALA ASP PHE VAL GLY LYS ASN VAL PRO SEQRES 13 B 182 THR SER ARG SER GLU LEU ILE VAL VAL GLU LEU ASP GLU SEQRES 14 B 182 VAL ASP GLN ASN ASP GLN VAL SER ILE HIS GLU ASN LYS SEQRES 1 C 182 GLY SER ASN GLN LYS ALA VAL ILE MET ASP GLU GLN ALA SEQRES 2 C 182 ILE ARG ARG ALA LEU THR ARG ILE ALA HIS GLU ILE ILE SEQRES 3 C 182 GLU ARG ASN LYS GLY ILE ASP GLY CYS VAL LEU VAL GLY SEQRES 4 C 182 ILE LYS THR ARG GLY ILE TYR LEU ALA ARG ARG LEU ALA SEQRES 5 C 182 GLU ARG ILE GLU GLN ILE GLU GLY ALA PRO VAL PRO VAL SEQRES 6 C 182 GLY GLU ILE ASP ILE THR LEU TYR ARG ASP ASP LEU SER SEQRES 7 C 182 VAL LYS THR ASP ASP ASP GLU PRO LEU VAL LYS GLY THR SEQRES 8 C 182 ASN VAL PRO PHE PRO VAL THR GLU ARG ASN VAL ILE LEU SEQRES 9 C 182 VAL ASP ASP VAL LEU PHE THR GLY ARG THR VAL ARG ALA SEQRES 10 C 182 GLY MET ASP ALA VAL MET ASP LEU GLY ARG PRO ALA ARG SEQRES 11 C 182 ILE GLN LEU ALA VAL LEU VAL ASP ARG GLY HIS ARG GLU SEQRES 12 C 182 LEU PRO ILE ARG ALA ASP PHE VAL GLY LYS ASN VAL PRO SEQRES 13 C 182 THR SER ARG SER GLU LEU ILE VAL VAL GLU LEU ASP GLU SEQRES 14 C 182 VAL ASP GLN ASN ASP GLN VAL SER ILE HIS GLU ASN LYS SEQRES 1 D 182 GLY SER ASN GLN LYS ALA VAL ILE MET ASP GLU GLN ALA SEQRES 2 D 182 ILE ARG ARG ALA LEU THR ARG ILE ALA HIS GLU ILE ILE SEQRES 3 D 182 GLU ARG ASN LYS GLY ILE ASP GLY CYS VAL LEU VAL GLY SEQRES 4 D 182 ILE LYS THR ARG GLY ILE TYR LEU ALA ARG ARG LEU ALA SEQRES 5 D 182 GLU ARG ILE GLU GLN ILE GLU GLY ALA PRO VAL PRO VAL SEQRES 6 D 182 GLY GLU ILE ASP ILE THR LEU TYR ARG ASP ASP LEU SER SEQRES 7 D 182 VAL LYS THR ASP ASP ASP GLU PRO LEU VAL LYS GLY THR SEQRES 8 D 182 ASN VAL PRO PHE PRO VAL THR GLU ARG ASN VAL ILE LEU SEQRES 9 D 182 VAL ASP ASP VAL LEU PHE THR GLY ARG THR VAL ARG ALA SEQRES 10 D 182 GLY MET ASP ALA VAL MET ASP LEU GLY ARG PRO ALA ARG SEQRES 11 D 182 ILE GLN LEU ALA VAL LEU VAL ASP ARG GLY HIS ARG GLU SEQRES 12 D 182 LEU PRO ILE ARG ALA ASP PHE VAL GLY LYS ASN VAL PRO SEQRES 13 D 182 THR SER ARG SER GLU LEU ILE VAL VAL GLU LEU ASP GLU SEQRES 14 D 182 VAL ASP GLN ASN ASP GLN VAL SER ILE HIS GLU ASN LYS HET U5P A 201 21 HET U5P B 201 21 HET U5P C 201 21 HET U5P D 201 21 HETNAM U5P URIDINE-5'-MONOPHOSPHATE FORMUL 5 U5P 4(C9 H13 N2 O9 P) FORMUL 9 HOH *134(H2 O) HELIX 1 AA1 ASP A 10 LYS A 30 1 21 HELIX 2 AA2 LYS A 41 GLY A 60 1 20 HELIX 3 AA3 GLY A 112 GLY A 126 1 15 HELIX 4 AA4 LEU A 167 GLN A 172 1 6 HELIX 5 AA5 ASP B 10 LYS B 30 1 21 HELIX 6 AA6 LYS B 41 GLY B 60 1 20 HELIX 7 AA7 GLY B 112 GLY B 126 1 15 HELIX 8 AA8 LEU B 167 GLN B 172 1 6 HELIX 9 AA9 ASP C 10 ASN C 29 1 20 HELIX 10 AB1 LYS C 41 GLY C 60 1 20 HELIX 11 AB2 GLY C 112 GLY C 126 1 15 HELIX 12 AB3 LEU C 167 GLN C 172 1 6 HELIX 13 AB4 ASP D 10 ASN D 29 1 20 HELIX 14 AB5 LYS D 41 GLY D 60 1 20 HELIX 15 AB6 GLY D 112 GLY D 126 1 15 HELIX 16 AB7 LEU D 167 GLN D 172 1 6 SHEET 1 AA1 3 ALA A 6 MET A 9 0 SHEET 2 AA1 3 GLN A 175 HIS A 179 -1 O VAL A 176 N ILE A 8 SHEET 3 AA1 3 LEU A 162 GLU A 166 -1 N GLU A 166 O GLN A 175 SHEET 1 AA2 6 LEU A 87 ASN A 92 0 SHEET 2 AA2 6 VAL A 65 THR A 71 -1 N ASP A 69 O GLY A 90 SHEET 3 AA2 6 CYS A 35 ILE A 40 1 N LEU A 37 O GLY A 66 SHEET 4 AA2 6 ASN A 101 LEU A 109 1 O ILE A 103 N VAL A 36 SHEET 5 AA2 6 ARG A 130 ASP A 138 1 O GLN A 132 N LEU A 104 SHEET 6 AA2 6 PHE A 150 ASN A 154 1 O PHE A 150 N VAL A 135 SHEET 1 AA3 3 ALA B 6 MET B 9 0 SHEET 2 AA3 3 GLN B 175 GLU B 180 -1 O VAL B 176 N MET B 9 SHEET 3 AA3 3 GLU B 161 GLU B 166 -1 N GLU B 166 O GLN B 175 SHEET 1 AA4 6 PRO B 86 ASN B 92 0 SHEET 2 AA4 6 VAL B 65 LEU B 72 -1 N THR B 71 O LEU B 87 SHEET 3 AA4 6 CYS B 35 ILE B 40 1 N GLY B 39 O GLY B 66 SHEET 4 AA4 6 ASN B 101 LEU B 109 1 O ILE B 103 N VAL B 36 SHEET 5 AA4 6 ARG B 130 ASP B 138 1 O GLN B 132 N LEU B 104 SHEET 6 AA4 6 PHE B 150 ASN B 154 1 O PHE B 150 N VAL B 135 SHEET 1 AA5 3 ALA C 6 MET C 9 0 SHEET 2 AA5 3 GLN C 175 GLU C 180 -1 O VAL C 176 N ILE C 8 SHEET 3 AA5 3 GLU C 161 GLU C 166 -1 N GLU C 166 O GLN C 175 SHEET 1 AA6 6 GLU C 85 ASN C 92 0 SHEET 2 AA6 6 VAL C 65 TYR C 73 -1 N THR C 71 O LEU C 87 SHEET 3 AA6 6 VAL C 36 ILE C 40 1 N LEU C 37 O GLY C 66 SHEET 4 AA6 6 ASN C 101 LEU C 109 1 O ILE C 103 N VAL C 36 SHEET 5 AA6 6 ARG C 130 ASP C 138 1 O GLN C 132 N VAL C 102 SHEET 6 AA6 6 PHE C 150 ASN C 154 1 O PHE C 150 N VAL C 135 SHEET 1 AA7 3 ALA D 6 MET D 9 0 SHEET 2 AA7 3 GLN D 175 HIS D 179 -1 O VAL D 176 N ILE D 8 SHEET 3 AA7 3 LEU D 162 GLU D 166 -1 N GLU D 166 O GLN D 175 SHEET 1 AA8 6 VAL D 88 ASN D 92 0 SHEET 2 AA8 6 VAL D 65 ILE D 70 -1 N GLU D 67 O ASN D 92 SHEET 3 AA8 6 CYS D 35 ILE D 40 1 N GLY D 39 O GLY D 66 SHEET 4 AA8 6 ASN D 101 LEU D 109 1 O ILE D 103 N VAL D 38 SHEET 5 AA8 6 ARG D 130 ASP D 138 1 O GLN D 132 N VAL D 102 SHEET 6 AA8 6 PHE D 150 ASN D 154 1 O PHE D 150 N VAL D 135 SITE 1 AC1 13 LYS A 41 ASP A 106 ASP A 107 VAL A 108 SITE 2 AC1 13 PHE A 110 THR A 111 GLY A 112 ARG A 113 SITE 3 AC1 13 THR A 114 ARG A 139 ILE A 163 HOH A 306 SITE 4 AC1 13 HOH A 317 SITE 1 AC2 16 LYS B 41 ASP B 106 ASP B 107 VAL B 108 SITE 2 AC2 16 PHE B 110 THR B 111 GLY B 112 ARG B 113 SITE 3 AC2 16 THR B 114 ARG B 139 LEU B 162 ILE B 163 SITE 4 AC2 16 HOH B 305 HOH B 317 HOH B 325 HOH B 326 SITE 1 AC3 14 LYS C 41 ASP C 106 ASP C 107 VAL C 108 SITE 2 AC3 14 PHE C 110 THR C 111 GLY C 112 ARG C 113 SITE 3 AC3 14 THR C 114 ARG C 139 LEU C 162 ILE C 163 SITE 4 AC3 14 HOH C 307 HOH C 327 SITE 1 AC4 19 LYS D 41 ARG D 43 TYR D 73 ARG D 74 SITE 2 AC4 19 ASP D 106 ASP D 107 VAL D 108 PHE D 110 SITE 3 AC4 19 THR D 111 GLY D 112 ARG D 113 THR D 114 SITE 4 AC4 19 ARG D 139 LEU D 162 ILE D 163 HOH D 304 SITE 5 AC4 19 HOH D 306 HOH D 310 HOH D 314 CRYST1 77.150 77.150 286.770 90.00 90.00 90.00 P 43 21 2 32 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 0.012962 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012962 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003487 0.00000