HEADER RNA BINDING PROTEIN 10-AUG-22 8APT TITLE CRYSTAL STRUCTURE OF H. INFLUENZAE TRMD IN COMPLEX WITH COMPOUND 13 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA (GUANINE-N(1)-)-METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: M1G-METHYLTRANSFERASE,TRNA [GM37] METHYLTRANSFERASE; COMPND 5 EC: 2.1.1.228; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAEMOPHILUS INFLUENZAE; SOURCE 3 ORGANISM_TAXID: 727; SOURCE 4 STRAIN: PITTGG; SOURCE 5 GENE: TRMD, CGSHIGG_03625; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METHYLTRANSFERASE, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.HALL,R.COWAN,M.D.CARR REVDAT 2 07-FEB-24 8APT 1 REMARK REVDAT 1 14-JUN-23 8APT 0 JRNL AUTH A.J.WILKINSON,N.OOI,J.FINLAYSON,V.E.LEE,D.LYTH,K.S.MASKEW, JRNL AUTH 2 R.NEWMAN,D.ORR,K.ANSELL,K.BIRCHALL,P.CANNING,P.COOMBS, JRNL AUTH 3 L.FUSANI,E.MCIVER,J.PISCO,P.M.IRELAND,C.JENKINS, JRNL AUTH 4 I.H.NORVILLE,S.J.SOUTHERN,R.COWAN,G.HALL,C.KETTLEBOROUGH, JRNL AUTH 5 V.J.SAVAGE,I.R.COOPER JRNL TITL EVALUATING THE DRUGGABILITY OF TRMD, A POTENTIAL JRNL TITL 2 ANTIBACTERIAL TARGET, THROUGH DESIGN AND MICROBIOLOGICAL JRNL TITL 3 PROFILING OF A SERIES OF POTENT TRMD INHIBITORS. JRNL REF BIOORG.MED.CHEM.LETT. V. 90 29331 2023 JRNL REFN ESSN 1464-3405 JRNL PMID 37187252 JRNL DOI 10.1016/J.BMCL.2023.129331 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 28698 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.213 REMARK 3 FREE R VALUE TEST SET COUNT : 2931 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1830 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 205 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1947 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 416 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00200 REMARK 3 B22 (A**2) : 0.00200 REMARK 3 B33 (A**2) : -0.00600 REMARK 3 B12 (A**2) : 0.00100 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): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.102 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.287 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 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): 2027 ; 0.017 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1947 ; 0.002 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2742 ; 1.847 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4489 ; 1.521 ; 1.582 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 248 ; 6.534 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 105 ;34.577 ;21.524 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 354 ;14.019 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;11.995 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 250 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2265 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 450 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 424 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 111 ; 0.252 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 972 ; 0.172 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 302 ; 0.330 ; 0.200 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): 992 ; 2.158 ; 1.620 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 991 ; 2.147 ; 1.618 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1237 ; 2.931 ; 2.416 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1238 ; 2.931 ; 2.419 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1035 ; 3.338 ; 1.933 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1032 ; 3.319 ; 1.929 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1504 ; 4.899 ; 2.757 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1505 ; 4.897 ; 2.759 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8APT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1292124921. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28700 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.380 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : 0.15700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 1.18600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4YVH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350 0.1 M HEPES, PH 7.5 0.1 M REMARK 280 POTASSIUM CITRATE TRIBASIC, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 47.33550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 27.32916 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 59.31933 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 47.33550 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 27.32916 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 59.31933 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 47.33550 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 27.32916 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 59.31933 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 47.33550 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 27.32916 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 59.31933 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 47.33550 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 27.32916 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 59.31933 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 47.33550 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 27.32916 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 59.31933 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 54.65833 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 118.63867 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 54.65833 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 118.63867 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 54.65833 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 118.63867 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 54.65833 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 118.63867 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 54.65833 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 118.63867 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 54.65833 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 118.63867 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: 7500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 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 615 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 654 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 742 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 773 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 794 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 812 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 816 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 LYS A 162 REMARK 465 GLN A 163 REMARK 465 ALA A 164 REMARK 465 SER A 165 REMARK 465 ALA A 166 REMARK 465 GLU A 167 REMARK 465 GLU A 168 REMARK 465 SER A 246 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 402 O HOH A 425 1.10 REMARK 500 HH12 ARG A 154 HG SER A 170 1.30 REMARK 500 HD1 HIS A 244 O HOH A 404 1.43 REMARK 500 O HOH A 616 O HOH A 632 1.43 REMARK 500 HG2 GLU A 18 O HOH A 685 1.47 REMARK 500 HH22 ARG A 114 O HOH A 402 1.49 REMARK 500 HZ2 LYS A 235 O HOH A 406 1.55 REMARK 500 O HOH A 418 O HOH A 572 1.56 REMARK 500 O HOH A 540 O HOH A 588 1.57 REMARK 500 HE22 GLN A 104 O HOH A 413 1.57 REMARK 500 O HOH A 411 O HOH A 548 1.61 REMARK 500 O HOH A 568 O HOH A 651 1.65 REMARK 500 O HOH A 401 O HOH A 604 1.68 REMARK 500 O HOH A 535 O HOH A 670 1.72 REMARK 500 O HOH A 620 O HOH A 693 1.77 REMARK 500 O HOH A 494 O HOH A 633 1.84 REMARK 500 O HOH A 430 O HOH A 687 1.87 REMARK 500 O HOH A 528 O HOH A 568 1.92 REMARK 500 O HOH A 461 O HOH A 666 1.94 REMARK 500 O HOH A 415 O HOH A 562 1.99 REMARK 500 O HOH A 577 O HOH A 660 2.00 REMARK 500 O HOH A 421 O HOH A 612 2.04 REMARK 500 O HOH A 680 O HOH A 760 2.04 REMARK 500 O HOH A 726 O HOH A 775 2.05 REMARK 500 O THR A 191 O HOH A 401 2.08 REMARK 500 O HOH A 405 O HOH A 576 2.10 REMARK 500 O HOH A 442 O HOH A 454 2.12 REMARK 500 O HOH A 463 O HOH A 510 2.13 REMARK 500 NH2 ARG A 114 O HOH A 402 2.16 REMARK 500 O HOH A 442 O HOH A 621 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 414 O HOH A 520 6555 0.85 REMARK 500 H ARG A -3 HG1 THR A 100 3455 1.21 REMARK 500 HH12 ARG A 24 HO7 CIT A 302 3455 1.30 REMARK 500 HE1 HIS A 28 H ALA A 228 3455 1.32 REMARK 500 O HOH A 562 O HOH A 715 6555 1.58 REMARK 500 O HOH A 597 O HOH A 692 17554 1.80 REMARK 500 O HOH A 458 O HOH A 709 6555 1.99 REMARK 500 O HOH A 416 O HOH A 580 11565 2.08 REMARK 500 O HOH A 402 O HOH A 474 6555 2.13 REMARK 500 O HOH A 692 O HOH A 757 17554 2.16 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 18 CD GLU A 18 OE2 0.076 REMARK 500 ARG A 114 NE ARG A 114 CZ -0.094 REMARK 500 GLU A 120 CD GLU A 120 OE2 -0.068 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 24 CG - CD - NE ANGL. DEV. = -13.8 DEGREES REMARK 500 ARG A 24 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 114 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 MET A 146 CG - SD - CE ANGL. DEV. = -12.5 DEGREES REMARK 500 ASP A 231 CB - CG - OD1 ANGL. DEV. = -6.1 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 TYR A 115 -142.56 60.14 REMARK 500 PHE A 171 70.60 41.91 REMARK 500 ASP A 173 13.25 81.91 REMARK 500 ARG A 220 63.03 -151.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 808 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH A 809 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A 810 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 811 DISTANCE = 6.38 ANGSTROMS REMARK 525 HOH A 812 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH A 813 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 814 DISTANCE = 7.34 ANGSTROMS REMARK 525 HOH A 815 DISTANCE = 7.88 ANGSTROMS REMARK 525 HOH A 816 DISTANCE = 8.80 ANGSTROMS DBREF 8APT A 1 246 UNP A5UG04 TRMD_HAEIG 1 246 SEQADV 8APT MET A -19 UNP A5UG04 INITIATING METHIONINE SEQADV 8APT GLY A -18 UNP A5UG04 EXPRESSION TAG SEQADV 8APT SER A -17 UNP A5UG04 EXPRESSION TAG SEQADV 8APT SER A -16 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -15 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -14 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -13 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -12 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -11 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A -10 UNP A5UG04 EXPRESSION TAG SEQADV 8APT SER A -9 UNP A5UG04 EXPRESSION TAG SEQADV 8APT SER A -8 UNP A5UG04 EXPRESSION TAG SEQADV 8APT GLY A -7 UNP A5UG04 EXPRESSION TAG SEQADV 8APT LEU A -6 UNP A5UG04 EXPRESSION TAG SEQADV 8APT VAL A -5 UNP A5UG04 EXPRESSION TAG SEQADV 8APT PRO A -4 UNP A5UG04 EXPRESSION TAG SEQADV 8APT ARG A -3 UNP A5UG04 EXPRESSION TAG SEQADV 8APT GLY A -2 UNP A5UG04 EXPRESSION TAG SEQADV 8APT SER A -1 UNP A5UG04 EXPRESSION TAG SEQADV 8APT HIS A 0 UNP A5UG04 EXPRESSION TAG SEQRES 1 A 266 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 266 LEU VAL PRO ARG GLY SER HIS MET TRP ILE GLY VAL ILE SEQRES 3 A 266 SER LEU PHE PRO GLU MET PHE LYS ALA ILE THR GLU PHE SEQRES 4 A 266 GLY VAL THR GLY ARG ALA VAL LYS HIS ASN LEU LEU LYS SEQRES 5 A 266 VAL GLU CYS TRP ASN PRO ARG ASP PHE THR PHE ASP LYS SEQRES 6 A 266 HIS LYS THR VAL ASP ASP ARG PRO TYR GLY GLY GLY PRO SEQRES 7 A 266 GLY MET LEU MET MET VAL GLN PRO LEU ARG ASP ALA ILE SEQRES 8 A 266 HIS THR ALA LYS ALA ALA ALA GLY GLU GLY ALA LYS VAL SEQRES 9 A 266 ILE TYR LEU SER PRO GLN GLY ARG LYS LEU ASP GLN GLY SEQRES 10 A 266 GLY VAL THR GLU LEU ALA GLN ASN GLN LYS LEU ILE LEU SEQRES 11 A 266 VAL CYS GLY ARG TYR GLU GLY ILE ASP GLU ARG LEU ILE SEQRES 12 A 266 GLN THR GLU ILE ASP GLU GLU TRP SER ILE GLY ASP TYR SEQRES 13 A 266 VAL LEU THR GLY GLY GLU LEU PRO ALA MET THR LEU ILE SEQRES 14 A 266 ASP ALA VAL ALA ARG PHE ILE PRO GLY VAL LEU GLY LYS SEQRES 15 A 266 GLN ALA SER ALA GLU GLU ASP SER PHE ALA ASP GLY LEU SEQRES 16 A 266 LEU ASP CYS PRO HIS TYR THR ARG PRO GLU VAL LEU GLU SEQRES 17 A 266 GLY LEU THR VAL PRO PRO VAL LEU MET SER GLY HIS HIS SEQRES 18 A 266 GLU GLU ILE ARG LYS TRP ARG LEU LYS GLN SER LEU GLN SEQRES 19 A 266 ARG THR TRP LEU ARG ARG PRO GLU LEU LEU GLU GLY LEU SEQRES 20 A 266 ALA LEU THR ASP GLU GLN ARG LYS LEU LEU LYS GLU ALA SEQRES 21 A 266 GLN ALA GLU HIS ASN SER HET NN9 A 301 35 HET CIT A 302 18 HETNAM NN9 6-[[3-(AMINOMETHYL)PHENYL]METHYLAMINO]PYRIDINE-3- HETNAM 2 NN9 CARBOXAMIDE HETNAM CIT CITRIC ACID FORMUL 2 NN9 C14 H16 N4 O FORMUL 3 CIT C6 H8 O7 FORMUL 4 HOH *416(H2 O) HELIX 1 AA1 PHE A 9 MET A 12 5 4 HELIX 2 AA2 PHE A 13 GLU A 18 1 6 HELIX 3 AA3 PHE A 19 HIS A 28 1 10 HELIX 4 AA4 ASN A 37 THR A 42 5 6 HELIX 5 AA5 MET A 63 GLY A 79 1 17 HELIX 6 AA6 ASP A 95 ALA A 103 1 9 HELIX 7 AA7 ASP A 119 ILE A 127 1 9 HELIX 8 AA8 GLY A 141 ARG A 154 1 14 HELIX 9 AA9 PHE A 171 LEU A 175 5 5 HELIX 10 AB1 PRO A 193 SER A 198 5 6 HELIX 11 AB2 HIS A 200 ARG A 220 1 21 HELIX 12 AB3 ARG A 220 GLY A 226 1 7 HELIX 13 AB4 THR A 230 ASN A 245 1 16 SHEET 1 AA1 6 LEU A 31 TRP A 36 0 SHEET 2 AA1 6 MET A 1 ILE A 6 1 N ILE A 3 O LYS A 32 SHEET 3 AA1 6 LYS A 107 VAL A 111 1 O LEU A 110 N GLY A 4 SHEET 4 AA1 6 LYS A 83 LEU A 87 1 N ILE A 85 O ILE A 109 SHEET 5 AA1 6 GLU A 129 SER A 132 1 O GLU A 129 N TYR A 86 SHEET 6 AA1 6 ARG A 92 LYS A 93 1 N ARG A 92 O GLU A 130 SHEET 1 AA2 2 ASP A 50 ASP A 51 0 SHEET 2 AA2 2 LEU A 61 MET A 62 -1 O LEU A 61 N ASP A 51 SHEET 1 AA3 2 VAL A 186 LEU A 187 0 SHEET 2 AA3 2 LEU A 190 THR A 191 -1 O LEU A 190 N LEU A 187 CISPEP 1 ARG A 183 PRO A 184 0 1.81 CRYST1 94.671 94.671 177.958 90.00 90.00 120.00 H 3 2 18 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 0.010563 0.006098 0.000000 0.00000 SCALE2 0.000000 0.012197 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005619 0.00000