HEADER RNA BINDING PROTEIN 10-AUG-22 8APW TITLE CRYSTAL STRUCTURE OF H. INFLUENZAE TRMD IN COMPLEX WITH COMPOUND 30 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 8APW 1 REMARK REVDAT 1 14-JUN-23 8APW 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) : 47.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28536 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) : 0.168 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.651 REMARK 3 FREE R VALUE TEST SET COUNT : 2754 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) : 1873 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1965 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00200 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): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.113 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.074 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.422 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2049 ; 0.026 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1964 ; 0.003 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2773 ; 2.445 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4533 ; 1.593 ; 1.580 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 250 ; 6.648 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;34.476 ;21.574 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 358 ;14.870 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;12.605 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 253 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2288 ; 0.018 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 451 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 440 ; 0.242 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 133 ; 0.264 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 983 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 252 ; 0.418 ; 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): 1000 ; 3.914 ; 2.318 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 999 ; 3.912 ; 2.316 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1247 ; 5.161 ; 3.447 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1248 ; 5.159 ; 3.450 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1049 ; 5.419 ; 2.723 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1050 ; 5.416 ; 2.722 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1525 ; 7.212 ; 3.899 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1526 ; 7.210 ; 3.900 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 8APW 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_1292124900. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-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 : 28538 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.228 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.1000 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 : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.01900 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 (%): 52.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 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 47.18350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 27.24141 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 59.42967 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 47.18350 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 27.24141 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 59.42967 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 47.18350 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 27.24141 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 59.42967 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 47.18350 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 27.24141 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 59.42967 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 47.18350 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 27.24141 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 59.42967 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 47.18350 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 27.24141 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 59.42967 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 54.48281 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 118.85933 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 54.48281 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 118.85933 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 54.48281 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 118.85933 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 54.48281 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 118.85933 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 54.48281 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 118.85933 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 54.48281 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 118.85933 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: 7430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22940 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 736 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 790 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 791 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 792 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 810 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 817 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 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 504 O HOH A 628 1.01 REMARK 500 HG2 GLU A 18 O HOH A 722 1.10 REMARK 500 O HOH A 562 O HOH A 637 1.17 REMARK 500 O HOH A 515 O HOH A 700 1.31 REMARK 500 O HOH A 579 O HOH A 673 1.49 REMARK 500 HG2 GLN A 96 O HOH A 506 1.52 REMARK 500 O HOH A 644 O HOH A 675 1.53 REMARK 500 HH TYR A 54 O HOH A 507 1.56 REMARK 500 O HOH A 672 O HOH A 723 1.57 REMARK 500 HG1 THR A 139 O HOH A 504 1.57 REMARK 500 HE ARG A 234 O HOH A 511 1.58 REMARK 500 O HOH A 711 O HOH A 714 1.61 REMARK 500 O HOH A 726 O HOH A 762 1.62 REMARK 500 O HOH A 501 O HOH A 704 1.63 REMARK 500 O HOH A 512 O HOH A 722 1.65 REMARK 500 O HOH A 510 O HOH A 697 1.70 REMARK 500 O HOH A 526 O HOH A 671 1.71 REMARK 500 O HOH A 692 O HOH A 807 1.73 REMARK 500 O HOH A 762 O HOH A 786 1.74 REMARK 500 O HOH A 721 O HOH A 722 1.78 REMARK 500 O HOH A 570 O HOH A 712 1.78 REMARK 500 O ASN A 245 O HOH A 501 1.80 REMARK 500 O HOH A 630 O HOH A 692 1.89 REMARK 500 O HOH A 508 O HOH A 527 1.92 REMARK 500 O HOH A 514 O HOH A 719 1.92 REMARK 500 O HOH A 572 O HOH A 600 1.94 REMARK 500 O HOH A 543 O HOH A 720 1.94 REMARK 500 CG GLU A 18 O HOH A 722 1.96 REMARK 500 O HOH A 538 O HOH A 789 1.98 REMARK 500 O HOH A 582 O HOH A 751 1.99 REMARK 500 O HOH A 596 O HOH A 695 2.03 REMARK 500 O HOH A 578 O HOH A 708 2.07 REMARK 500 O HOH A 603 O HOH A 694 2.10 REMARK 500 O HOH A 743 O HOH A 808 2.11 REMARK 500 OG SER A 170 O HOH A 502 2.12 REMARK 500 O HOH A 589 O HOH A 707 2.12 REMARK 500 O HOH A 602 O HOH A 739 2.12 REMARK 500 O HOH A 672 O HOH A 727 2.13 REMARK 500 NH2 ARG A 114 O HOH A 503 2.16 REMARK 500 O HOH A 586 O HOH A 804 2.18 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 687 O HOH A 716 6555 1.11 REMARK 500 H ARG A -3 HG1 THR A 100 3455 1.12 REMARK 500 HH12 ARG A 24 HO7 CIT A 401 3455 1.21 REMARK 500 HE1 HIS A 28 H ALA A 228 3455 1.25 REMARK 500 O HOH A 671 O HOH A 767 6555 1.45 REMARK 500 O HOH A 518 O HOH A 518 6555 1.78 REMARK 500 O HOH A 563 O HOH A 712 17554 1.81 REMARK 500 O HOH A 503 O HOH A 579 6555 1.96 REMARK 500 O HOH A 805 O HOH A 809 5665 2.09 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 11 CD GLU A 11 OE1 0.102 REMARK 500 GLU A 18 CD GLU A 18 OE2 0.114 REMARK 500 GLY A 23 C GLY A 23 O 0.097 REMARK 500 HIS A 28 CE1 HIS A 28 NE2 -0.085 REMARK 500 GLU A 34 CD GLU A 34 OE1 -0.100 REMARK 500 GLU A 101 CD GLU A 101 OE2 -0.067 REMARK 500 ARG A 114 NE ARG A 114 CZ -0.149 REMARK 500 GLU A 120 CD GLU A 120 OE2 -0.120 REMARK 500 GLU A 130 CD GLU A 130 OE1 -0.142 REMARK 500 GLU A 167 CD GLU A 167 OE1 -0.101 REMARK 500 GLU A 168 CD GLU A 168 OE1 0.100 REMARK 500 GLY A 226 C GLY A 226 O 0.106 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 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 114 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 MET A 146 CG - SD - CE ANGL. DEV. = -21.2 DEGREES REMARK 500 GLU A 168 CB - CA - C ANGL. DEV. = 14.9 DEGREES REMARK 500 ARG A 215 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP A 231 CB - CG - OD1 ANGL. DEV. = -7.7 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 TYR A 115 -144.40 60.43 REMARK 500 ASP A 169 -155.18 -92.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 39 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 75 -11.18 REMARK 500 GLU A 116 -11.47 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 817 DISTANCE = 6.40 ANGSTROMS DBREF 8APW A 1 246 UNP A5UG04 TRMD_HAEIG 1 246 SEQADV 8APW MET A -19 UNP A5UG04 INITIATING METHIONINE SEQADV 8APW GLY A -18 UNP A5UG04 EXPRESSION TAG SEQADV 8APW SER A -17 UNP A5UG04 EXPRESSION TAG SEQADV 8APW SER A -16 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -15 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -14 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -13 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -12 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -11 UNP A5UG04 EXPRESSION TAG SEQADV 8APW HIS A -10 UNP A5UG04 EXPRESSION TAG SEQADV 8APW SER A -9 UNP A5UG04 EXPRESSION TAG SEQADV 8APW SER A -8 UNP A5UG04 EXPRESSION TAG SEQADV 8APW GLY A -7 UNP A5UG04 EXPRESSION TAG SEQADV 8APW LEU A -6 UNP A5UG04 EXPRESSION TAG SEQADV 8APW VAL A -5 UNP A5UG04 EXPRESSION TAG SEQADV 8APW PRO A -4 UNP A5UG04 EXPRESSION TAG SEQADV 8APW ARG A -3 UNP A5UG04 EXPRESSION TAG SEQADV 8APW GLY A -2 UNP A5UG04 EXPRESSION TAG SEQADV 8APW SER A -1 UNP A5UG04 EXPRESSION TAG SEQADV 8APW 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 CIT A 401 18 HET NL1 A 402 41 HETNAM CIT CITRIC ACID HETNAM NL1 1-[2-OXIDANYLIDENE-2-(PIPERIDIN-4-YLAMINO) HETNAM 2 NL1 ETHYL]PYRROLO[2,3-B]PYRIDINE-5-CARBOXAMIDE FORMUL 2 CIT C6 H8 O7 FORMUL 3 NL1 C15 H19 N5 O2 FORMUL 4 HOH *317(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 SER A 170 GLY A 174 5 5 HELIX 10 AB1 PRO A 193 SER A 198 1 6 HELIX 11 AB2 HIS A 200 ARG A 220 1 21 HELIX 12 AB3 PRO A 221 GLY A 226 1 6 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 TRP A 131 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 0.92 CRYST1 94.367 94.367 178.289 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 0.010597 0.006118 0.000000 0.00000 SCALE2 0.000000 0.012236 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005609 0.00000