HEADER LIGASE 03-FEB-15 5AGT TITLE CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM TITLE 2 TUBERCULOSIS IN COMPLEX WITH THE ADDUCT (S)-3-(AMINOMETHYL)-4-CHLORO- TITLE 3 7-ETHOXYBENZO[C][1,2]OXABOROL-1(3H)-OL-AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUCINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EDITING DOMAIN (CP1) RESIDUES 309-513; COMPND 5 SYNONYM: LEUCYL-TRNA SYNTHETASE, LEURS; COMPND 6 EC: 6.1.1.4; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 ATCC: 25618; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: DE3 RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM-11 KEYWDS LIGASE, LEUCINE-TRNA LIGASE ACTIVITY, ATP + L- LEUCINE + TRNA(LEU) KEYWDS 2 GIVES AMP + DIPHOSPHATE + L-LEUCYL- TRNA(LEU) AMINOACYL-TRNA EDITING KEYWDS 3 ACTIVITY, AMINOACYL-TRNA SYNTHETASE, PROTEIN BIOSYNTHESIS, NOVEL KEYWDS 4 BORON INHIBITORS OF LEURS EXPDTA X-RAY DIFFRACTION AUTHOR A.PALENCIA,X.LI,M.R.K.ALLEY,C.DING,E.E.EASOM,V.HERNANDEZ,M.MEEWAN, AUTHOR 2 M.MOHAN,F.L.ROCK,S.G.FRANZBLAU,Y.WANG,A.J.LENAERTS,T.PARISH, AUTHOR 3 C.B.COOPER,M.G.WATERS,Z.MA,A.MENDOZA,D.BARROS,S.CUSACK,J.J.PLATTNER REVDAT 4 10-JAN-24 5AGT 1 REMARK REVDAT 3 05-OCT-16 5AGT 1 JRNL REVDAT 2 24-AUG-16 5AGT 1 JRNL REVDAT 1 02-MAR-16 5AGT 0 JRNL AUTH A.PALENCIA,X.LI,W.BU,W.CHOI,C.Z.DING,E.E.EASOM,L.FENG, JRNL AUTH 2 V.HERNANDEZ,P.HOUSTON,L.LIU,M.MEEWAN,M.MOHAN,F.L.ROCK, JRNL AUTH 3 H.SEXTON,S.ZHANG,Y.ZHOU,B.WAN,Y.WANG,S.G.FRANZBLAU, JRNL AUTH 4 L.WOOLHISER,V.GRUPPO,A.J.LENAERTS,T.O'MALLEY,T.PARISH, JRNL AUTH 5 C.B.COOPER,M.G.WATERS,Z.MA,T.R.IOERGER,J.C.SACCHETTINI, JRNL AUTH 6 J.RULLAS,I.ANGULO-BARTUREN,E.PEREZ-HERRAN,A.MENDOZA, JRNL AUTH 7 D.BARROS,S.CUSACK,J.J.PLATTNER,M.R.K.ALLEY JRNL TITL DISCOVERY OF NOVEL ORAL PROTEIN SYNTHESIS INHIBITORS OF JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS THAT TARGET LEUCYL-TRNA JRNL TITL 3 SYNTHETASE. JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 60 6271 2016 JRNL REFN ISSN 0066-4804 JRNL PMID 27503647 JRNL DOI 10.1128/AAC.01339-16 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 35309 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1841 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2534 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1414 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 306 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.26000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : -0.15000 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): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.071 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.976 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1582 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1057 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2174 ; 1.624 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2558 ; 0.871 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 207 ; 5.736 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 69 ;27.872 ;22.464 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 227 ;12.399 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;11.802 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 238 ; 0.161 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1805 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 348 ; 0.001 ; 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): 980 ; 0.601 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 404 ; 0.135 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1568 ; 1.120 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 602 ; 1.741 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 597 ; 2.760 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 5AGT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1290062940. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93950 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35309 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.69000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2AJG REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PH 5.5, 17% W/V PEG REMARK 280 10000, 0.2 M AMMONIUM ACETATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 21.91500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.44000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.94000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.44000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.91500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.94000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 282 REMARK 465 LYS A 283 REMARK 465 HIS A 284 REMARK 465 HIS A 285 REMARK 465 HIS A 286 REMARK 465 HIS A 287 REMARK 465 HIS A 288 REMARK 465 HIS A 289 REMARK 465 PRO A 290 REMARK 465 MET A 291 REMARK 465 SER A 292 REMARK 465 ASP A 293 REMARK 465 TYR A 294 REMARK 465 ASP A 295 REMARK 465 ILE A 296 REMARK 465 PRO A 297 REMARK 465 THR A 298 REMARK 465 THR A 299 REMARK 465 GLU A 300 REMARK 465 ASN A 301 REMARK 465 LEU A 302 REMARK 465 TYR A 303 REMARK 465 PHE A 304 REMARK 465 GLN A 305 REMARK 465 GLY A 306 REMARK 465 ALA A 307 REMARK 465 MET A 308 REMARK 465 GLY A 309 REMARK 465 ARG A 310 REMARK 465 SER A 311 REMARK 465 THR A 312 REMARK 465 ALA A 323 REMARK 465 SER A 324 REMARK 465 ASP A 325 REMARK 465 ASP A 326 REMARK 465 GLY A 327 REMARK 465 PHE A 328 REMARK 465 GLU A 329 REMARK 465 GLU A 401 REMARK 465 SER A 402 REMARK 465 ARG A 403 REMARK 465 GLU A 404 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 ASP A 485 -115.46 47.35 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 A2143 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH A2187 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH A2219 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A2227 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH A2274 DISTANCE = 6.15 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 MET A 1516 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A2H A 1514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MET A 1516 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1515 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AGR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM REMARK 900 TUBERCULOSIS IN COMPLEX WITH THE ADDUCT AN4452-AMP REMARK 900 RELATED ID: 5AGS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM REMARK 900 TUBERCULOSIS IN COMPLEX WITH THE ADDUCT AN5634-AMP REMARK 999 REMARK 999 SEQUENCE REMARK 999 CONTAIN A N-TERM TAG BELONGING TO EXPRESSION VECTOR PETM- REMARK 999 11 DBREF 5AGT A 309 513 UNP P9WFV1 SYL_MYCTU 309 513 SEQADV 5AGT MET A 282 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT LYS A 283 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 284 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 285 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 286 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 287 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 288 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT HIS A 289 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT PRO A 290 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT MET A 291 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT SER A 292 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT ASP A 293 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT TYR A 294 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT ASP A 295 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT ILE A 296 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT PRO A 297 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT THR A 298 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT THR A 299 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT GLU A 300 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT ASN A 301 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT LEU A 302 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT TYR A 303 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT PHE A 304 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT GLN A 305 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT GLY A 306 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT ALA A 307 UNP P9WFV1 EXPRESSION TAG SEQADV 5AGT MET A 308 UNP P9WFV1 EXPRESSION TAG SEQRES 1 A 232 MET LYS HIS HIS HIS HIS HIS HIS PRO MET SER ASP TYR SEQRES 2 A 232 ASP ILE PRO THR THR GLU ASN LEU TYR PHE GLN GLY ALA SEQRES 3 A 232 MET GLY ARG SER THR GLY ALA VAL ALA LEU PHE SER ALA SEQRES 4 A 232 ARG ALA ALA SER ASP ASP GLY PHE GLU VAL ASP ILE GLU SEQRES 5 A 232 VAL PHE THR THR ARG PRO ASP THR LEU PHE GLY ALA THR SEQRES 6 A 232 TYR LEU VAL LEU ALA PRO GLU HIS ASP LEU VAL ASP GLU SEQRES 7 A 232 LEU VAL ALA ALA SER TRP PRO ALA GLY VAL ASN PRO LEU SEQRES 8 A 232 TRP THR TYR GLY GLY GLY THR PRO GLY GLU ALA ILE ALA SEQRES 9 A 232 ALA TYR ARG ARG ALA ILE ALA ALA LYS SER ASP LEU GLU SEQRES 10 A 232 ARG GLN GLU SER ARG GLU LYS THR GLY VAL PHE LEU GLY SEQRES 11 A 232 SER TYR ALA ILE ASN PRO ALA ASN GLY GLU PRO VAL PRO SEQRES 12 A 232 ILE PHE ILE ALA ASP TYR VAL LEU ALA GLY TYR GLY THR SEQRES 13 A 232 GLY ALA ILE MET ALA VAL PRO GLY HIS ASP GLN ARG ASP SEQRES 14 A 232 TRP ASP PHE ALA ARG ALA PHE GLY LEU PRO ILE VAL GLU SEQRES 15 A 232 VAL ILE ALA GLY GLY ASN ILE SER GLU SER ALA TYR THR SEQRES 16 A 232 GLY ASP GLY ILE LEU VAL ASN SER ASP TYR LEU ASN GLY SEQRES 17 A 232 MET SER VAL PRO ALA ALA LYS ARG ALA ILE VAL ASP ARG SEQRES 18 A 232 LEU GLU SER ALA GLY ARG GLY ARG ALA ARG ILE HET MET A1516 8 HET A2H A1514 38 HET GOL A1515 6 HETNAM MET METHIONINE HETNAM A2H 4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1, HETNAM 2 A2H 2]OXABOROL-1-OL MODIFIED ADENOSINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MET C5 H11 N O2 S FORMUL 3 A2H C20 H22 B CL N6 O9 P 3- FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *306(H2 O) HELIX 1 1 ARG A 338 ALA A 345 5 8 HELIX 2 2 LEU A 356 VAL A 361 1 6 HELIX 3 3 ASN A 370 THR A 374 5 5 HELIX 4 4 THR A 379 ALA A 392 1 14 HELIX 5 5 SER A 395 GLN A 400 1 6 HELIX 6 6 ASP A 447 GLY A 458 1 12 HELIX 7 7 SER A 484 ASN A 488 5 5 HELIX 8 8 SER A 491 GLY A 507 1 17 SHEET 1 AA 2 ASP A 331 THR A 336 0 SHEET 2 AA 2 ALA A 314 ALA A 320 -1 O ALA A 314 N THR A 336 SHEET 1 AB 6 ALA A 439 ALA A 442 0 SHEET 2 AB 6 TYR A 347 LEU A 350 -1 O TYR A 347 N ALA A 442 SHEET 3 AB 6 PRO A 422 ILE A 427 1 O PRO A 424 N LEU A 348 SHEET 4 AB 6 VAL A 408 ILE A 415 -1 O VAL A 408 N ILE A 427 SHEET 5 AB 6 ALA A 314 ALA A 320 -1 O SER A 319 N ILE A 415 SHEET 6 AB 6 GLY A 509 ALA A 511 -1 O ARG A 510 N VAL A 315 SHEET 1 AC 6 ALA A 439 ALA A 442 0 SHEET 2 AC 6 TYR A 347 LEU A 350 -1 O TYR A 347 N ALA A 442 SHEET 3 AC 6 PRO A 422 ILE A 427 1 O PRO A 424 N LEU A 348 SHEET 4 AC 6 VAL A 408 ILE A 415 -1 O VAL A 408 N ILE A 427 SHEET 5 AC 6 ALA A 314 ALA A 320 -1 O SER A 319 N ILE A 415 SHEET 6 AC 6 ASP A 331 THR A 336 -1 O ILE A 332 N PHE A 318 SHEET 1 AD 2 GLY A 509 ALA A 511 0 SHEET 2 AD 2 ALA A 314 ALA A 320 -1 O VAL A 315 N ARG A 510 SHEET 1 AE 2 ILE A 465 ALA A 466 0 SHEET 2 AE 2 ILE A 480 LEU A 481 -1 O ILE A 480 N ALA A 466 SITE 1 AC1 23 PHE A 335 THR A 336 THR A 337 ARG A 338 SITE 2 AC1 23 THR A 341 TYR A 430 VAL A 431 LEU A 432 SITE 3 AC1 23 TYR A 435 ILE A 440 MET A 441 HIS A 446 SITE 4 AC1 23 ASP A 447 ARG A 449 ASP A 450 HOH A2024 SITE 5 AC1 23 HOH A2129 HOH A2149 HOH A2150 HOH A2294 SITE 6 AC1 23 HOH A2295 HOH A2296 HOH A2297 SITE 1 AC2 5 PRO A 417 ALA A 506 HOH A2302 HOH A2303 SITE 2 AC2 5 HOH A2304 SITE 1 AC3 7 THR A 346 GLU A 421 PRO A 422 VAL A 423 SITE 2 AC3 7 PRO A 460 HOH A2033 HOH A2301 CRYST1 43.830 61.880 76.880 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.022815 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016160 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013007 0.00000