HEADER LIGASE 14-FEB-17 5N5U TITLE STRUCTURE OF P-BORONOPHENYLALANYL TRNA SYNTHETASE IN COMPLEX WITH P- TITLE 2 BORONOPHENYLALANINE AND ADENOSINE MONOPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TYROSYL-TRNA SYNTHETASE,TYRRS; COMPND 5 EC: 6.1.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII (STRAIN ATCC SOURCE 3 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440); SOURCE 4 ORGANISM_TAXID: 243232; SOURCE 5 STRAIN: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440; SOURCE 6 GENE: TYRS, MJ0389; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PASK75-BPARS-HIS KEYWDS AMINOACYLATION, LIGASE, NON-NATURAL AMINO ACID, SYNTHETIC BIOLOGY EXPDTA X-RAY DIFFRACTION AUTHOR A.SCHIEFNER,A.SKERRA REVDAT 5 17-JAN-24 5N5U 1 REMARK REVDAT 4 15-NOV-23 5N5U 1 ATOM REVDAT 3 16-MAY-18 5N5U 1 JRNL REVDAT 2 02-MAY-18 5N5U 1 JRNL REVDAT 1 14-FEB-18 5N5U 0 JRNL AUTH A.SCHIEFNER,L.NASTLE,M.LANDGRAF,A.J.REICHERT,A.SKERRA JRNL TITL STRUCTURAL BASIS FOR THE SPECIFIC COTRANSLATIONAL JRNL TITL 2 INCORPORATION OF P-BORONOPHENYLALANINE INTO BIOSYNTHETIC JRNL TITL 3 PROTEINS. JRNL REF BIOCHEMISTRY V. 57 2597 2018 JRNL REFN ISSN 1520-4995 JRNL PMID 29668275 JRNL DOI 10.1021/ACS.BIOCHEM.8B00171 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 41806 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2100 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3035 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2473 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 221 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.09000 REMARK 3 B22 (A**2) : 1.97000 REMARK 3 B33 (A**2) : -0.86000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.16000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.086 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.119 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2609 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2592 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3512 ; 2.051 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6003 ; 1.055 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 320 ; 5.892 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;33.283 ;24.741 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 521 ;14.230 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;16.369 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 385 ; 0.131 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2883 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 546 ; 0.002 ; 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): 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 116 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4470 24.3609 100.9138 REMARK 3 T TENSOR REMARK 3 T11: 0.0515 T22: 0.0136 REMARK 3 T33: 0.0406 T12: -0.0112 REMARK 3 T13: -0.0166 T23: 0.0223 REMARK 3 L TENSOR REMARK 3 L11: 3.4439 L22: 1.7238 REMARK 3 L33: 1.5541 L12: 0.7839 REMARK 3 L13: 1.7007 L23: 0.3848 REMARK 3 S TENSOR REMARK 3 S11: 0.1980 S12: -0.1292 S13: -0.2654 REMARK 3 S21: 0.0741 S22: -0.1016 S23: -0.1149 REMARK 3 S31: 0.2573 S32: -0.0540 S33: -0.0964 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 117 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 3.1197 34.1224 91.4970 REMARK 3 T TENSOR REMARK 3 T11: 0.0455 T22: 0.0165 REMARK 3 T33: 0.0352 T12: -0.0040 REMARK 3 T13: 0.0126 T23: -0.0109 REMARK 3 L TENSOR REMARK 3 L11: 2.2968 L22: 0.9744 REMARK 3 L33: 5.4873 L12: -0.7597 REMARK 3 L13: 2.2967 L23: -0.7567 REMARK 3 S TENSOR REMARK 3 S11: -0.0389 S12: -0.0269 S13: 0.2435 REMARK 3 S21: 0.0094 S22: -0.0607 S23: -0.0686 REMARK 3 S31: -0.4173 S32: 0.0183 S33: 0.0996 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 179 A 225 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2653 34.1227 100.0028 REMARK 3 T TENSOR REMARK 3 T11: 0.0434 T22: 0.0753 REMARK 3 T33: 0.0480 T12: 0.0083 REMARK 3 T13: 0.0067 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 5.3890 L22: 0.0406 REMARK 3 L33: 0.3705 L12: 0.3053 REMARK 3 L13: 1.3262 L23: 0.0958 REMARK 3 S TENSOR REMARK 3 S11: -0.0607 S12: 0.2962 S13: 0.1097 REMARK 3 S21: -0.0327 S22: 0.0138 S23: -0.0095 REMARK 3 S31: -0.0491 S32: 0.0322 S33: 0.0470 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 226 A 309 REMARK 3 ORIGIN FOR THE GROUP (A): 34.4419 38.0979 111.8301 REMARK 3 T TENSOR REMARK 3 T11: 0.0822 T22: 0.0962 REMARK 3 T33: 0.0582 T12: -0.0196 REMARK 3 T13: -0.0413 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 3.6505 L22: 3.6358 REMARK 3 L33: 3.1866 L12: 0.0600 REMARK 3 L13: -0.0195 L23: 1.2265 REMARK 3 S TENSOR REMARK 3 S11: -0.0673 S12: -0.4121 S13: 0.1169 REMARK 3 S21: 0.2394 S22: 0.0132 S23: -0.3875 REMARK 3 S31: -0.1633 S32: 0.3781 S33: 0.0541 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5N5U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1200003098. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8943 REMARK 200 MONOCHROMATOR : SI111 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43906 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 7.430 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.3600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.71700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.180 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.6.1 REMARK 200 STARTING MODEL: 4NDA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 % (W/V) PEG 1000, 0.2 M MGCL2, 0.1 REMARK 280 M SODIUM CACODYLATE, PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 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 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.0 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 -0.80178 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 164.06604 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 310 REMARK 465 HIS A 311 REMARK 465 HIS A 312 REMARK 465 HIS A 313 REMARK 465 HIS A 314 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 NH1 ARG A 9 O HOH A 501 1.96 REMARK 500 O LEU A 98 O HOH A 502 2.14 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 GLU A 243 CD GLU A 243 OE1 -0.079 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 ASP A 113 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 200 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 200 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 223 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 223 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 303 NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 303 NE - CZ - NH2 ANGL. DEV. = 6.2 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 CYS A 231 68.00 -168.72 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 AMP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 7N8 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5N5V RELATED DB: PDB DBREF 5N5U A 1 306 UNP Q57834 SYY_METJA 1 306 SEQADV 5N5U LEU A 6 UNP Q57834 MET 6 ENGINEERED MUTATION SEQADV 5N5U SER A 32 UNP Q57834 TYR 32 ENGINEERED MUTATION SEQADV 5N5U ALA A 65 UNP Q57834 LEU 65 ENGINEERED MUTATION SEQADV 5N5U MET A 70 UNP Q57834 HIS 70 ENGINEERED MUTATION SEQADV 5N5U SER A 158 UNP Q57834 ASP 158 ENGINEERED MUTATION SEQADV 5N5U GLU A 162 UNP Q57834 LEU 162 ENGINEERED MUTATION SEQADV 5N5U ARG A 286 UNP Q57834 ASP 286 ENGINEERED MUTATION SEQADV 5N5U SER A 307 UNP Q57834 EXPRESSION TAG SEQADV 5N5U ALA A 308 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 309 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 310 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 311 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 312 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 313 UNP Q57834 EXPRESSION TAG SEQADV 5N5U HIS A 314 UNP Q57834 EXPRESSION TAG SEQRES 1 A 314 MET ASP GLU PHE GLU LEU ILE LYS ARG ASN THR SER GLU SEQRES 2 A 314 ILE ILE SER GLU GLU GLU LEU ARG GLU VAL LEU LYS LYS SEQRES 3 A 314 ASP GLU LYS SER ALA SER ILE GLY PHE GLU PRO SER GLY SEQRES 4 A 314 LYS ILE HIS LEU GLY HIS TYR LEU GLN ILE LYS LYS MET SEQRES 5 A 314 ILE ASP LEU GLN ASN ALA GLY PHE ASP ILE ILE ILE ALA SEQRES 6 A 314 LEU ALA ASP LEU MET ALA TYR LEU ASN GLN LYS GLY GLU SEQRES 7 A 314 LEU ASP GLU ILE ARG LYS ILE GLY ASP TYR ASN LYS LYS SEQRES 8 A 314 VAL PHE GLU ALA MET GLY LEU LYS ALA LYS TYR VAL TYR SEQRES 9 A 314 GLY SER GLU PHE GLN LEU ASP LYS ASP TYR THR LEU ASN SEQRES 10 A 314 VAL TYR ARG LEU ALA LEU LYS THR THR LEU LYS ARG ALA SEQRES 11 A 314 ARG ARG SER MET GLU LEU ILE ALA ARG GLU ASP GLU ASN SEQRES 12 A 314 PRO LYS VAL ALA GLU VAL ILE TYR PRO ILE MET GLN VAL SEQRES 13 A 314 ASN SER ILE HIS TYR GLU GLY VAL ASP VAL ALA VAL GLY SEQRES 14 A 314 GLY MET GLU GLN ARG LYS ILE HIS MET LEU ALA ARG GLU SEQRES 15 A 314 LEU LEU PRO LYS LYS VAL VAL CYS ILE HIS ASN PRO VAL SEQRES 16 A 314 LEU THR GLY LEU ASP GLY GLU GLY LYS MET SER SER SER SEQRES 17 A 314 LYS GLY ASN PHE ILE ALA VAL ASP ASP SER PRO GLU GLU SEQRES 18 A 314 ILE ARG ALA LYS ILE LYS LYS ALA TYR CYS PRO ALA GLY SEQRES 19 A 314 VAL VAL GLU GLY ASN PRO ILE MET GLU ILE ALA LYS TYR SEQRES 20 A 314 PHE LEU GLU TYR PRO LEU THR ILE LYS ARG PRO GLU LYS SEQRES 21 A 314 PHE GLY GLY ASP LEU THR VAL ASN SER TYR GLU GLU LEU SEQRES 22 A 314 GLU SER LEU PHE LYS ASN LYS GLU LEU HIS PRO MET ARG SEQRES 23 A 314 LEU LYS ASN ALA VAL ALA GLU GLU LEU ILE LYS ILE LEU SEQRES 24 A 314 GLU PRO ILE ARG LYS ARG LEU SER ALA HIS HIS HIS HIS SEQRES 25 A 314 HIS HIS HET AMP A 401 23 HET 7N8 A 402 15 HET CL A 403 1 HET CL A 404 1 HET CL A 405 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM 7N8 4-BORONO-L-PHENYLALANINE HETNAM CL CHLORIDE ION FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 7N8 C9 H12 B N O4 FORMUL 4 CL 3(CL 1-) FORMUL 7 HOH *221(H2 O) HELIX 1 AA1 ASP A 2 ARG A 9 1 8 HELIX 2 AA2 SER A 16 LYS A 25 1 10 HELIX 3 AA3 HIS A 42 ALA A 58 1 17 HELIX 4 AA4 ALA A 67 ASN A 74 1 8 HELIX 5 AA5 GLU A 78 MET A 96 1 19 HELIX 6 AA6 SER A 106 PHE A 108 5 3 HELIX 7 AA7 ASP A 111 THR A 125 1 15 HELIX 8 AA8 THR A 126 MET A 134 1 9 HELIX 9 AA9 VAL A 146 GLY A 163 1 18 HELIX 10 AB1 GLN A 173 LEU A 184 1 12 HELIX 11 AB2 SER A 218 LYS A 228 1 11 HELIX 12 AB3 ASN A 239 LEU A 249 1 11 HELIX 13 AB4 PRO A 258 GLY A 262 5 5 HELIX 14 AB5 SER A 269 ASN A 279 1 11 HELIX 15 AB6 HIS A 283 HIS A 309 1 27 SHEET 1 AA1 6 GLU A 13 ILE A 15 0 SHEET 2 AA1 6 VAL A 189 ASN A 193 -1 O CYS A 190 N ILE A 15 SHEET 3 AA1 6 VAL A 166 GLY A 170 1 N ALA A 167 O VAL A 189 SHEET 4 AA1 6 LYS A 29 PHE A 35 1 N SER A 32 O VAL A 168 SHEET 5 AA1 6 PHE A 60 LEU A 66 1 O ALA A 65 N PHE A 35 SHEET 6 AA1 6 LYS A 101 TYR A 104 1 O LYS A 101 N ILE A 64 SHEET 1 AA2 2 LEU A 253 ILE A 255 0 SHEET 2 AA2 2 LEU A 265 VAL A 267 -1 O LEU A 265 N ILE A 255 CISPEP 1 ILE A 15 SER A 16 0 -13.42 CISPEP 2 TYR A 251 PRO A 252 0 -5.70 SITE 1 AC1 16 PHE A 35 HIS A 42 GLY A 44 HIS A 45 SITE 2 AC1 16 GLN A 48 GLY A 169 GLY A 170 GLU A 172 SITE 3 AC1 16 PRO A 194 VAL A 195 LEU A 196 MET A 205 SITE 4 AC1 16 7N8 A 402 HOH A 514 HOH A 522 HOH A 524 SITE 1 AC2 13 GLY A 34 GLU A 36 ALA A 65 ALA A 67 SITE 2 AC2 13 MET A 70 TYR A 151 GLN A 155 SER A 158 SITE 3 AC2 13 GLU A 162 GLN A 173 AMP A 401 HOH A 591 SITE 4 AC2 13 HOH A 652 SITE 1 AC3 3 ARG A 257 HIS A 283 ARG A 286 SITE 1 AC4 2 VAL A 236 GLU A 237 SITE 1 AC5 2 ARG A 131 HOH A 688 CRYST1 52.582 38.735 82.034 90.00 90.28 90.00 P 1 2 1 2 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 0.019018 0.000000 0.000091 0.00000 SCALE2 0.000000 0.025816 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012190 0.00000