HEADER ISOMERASE 11-MAR-10 3M4I TITLE CRYSTAL STRUCTURE OF THE SECOND PART OF THE MYCOBACTERIUM TUBERCULOSIS TITLE 2 DNA GYRASE REACTION CORE: THE TOPRIM DOMAIN AT 1.95 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GYRASE SUBUNIT B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TOPRIM DOMAIN (C-TERMINAL DOMAIN); COMPND 5 EC: 5.99.1.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: HR37RV; SOURCE 5 GENE: GYRB, MT0005, MTCY10H4.03, RV0005; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSF-2 EK/LIC KEYWDS DNA GYRASE, GYRB, TOPRIM, TYPE II TOPOISOMERASE, TUBERCULOSIS, KEYWDS 2 QUINOLONE BINDING SITE, DNA BINDING SITE, ATP-BINDING, ISOMERASE, KEYWDS 3 NUCLEOTIDE-BINDING, TOPOISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.PITON,S.PETRELLA,A.AUBRY,C.MAYER REVDAT 2 01-NOV-23 3M4I 1 REMARK SEQADV REVDAT 1 29-SEP-10 3M4I 0 JRNL AUTH J.PITON,S.PETRELLA,M.DELARUE,G.ANDRE-LEROUX,V.JARLIER, JRNL AUTH 2 A.AUBRY,C.MAYER JRNL TITL STRUCTURAL INSIGHTS INTO THE QUINOLONE RESISTANCE MECHANISM JRNL TITL 2 OF MYCOBACTERIUM TUBERCULOSIS DNA GYRASE. JRNL REF PLOS ONE V. 5 12245 2010 JRNL REFN ESSN 1932-6203 JRNL PMID 20805881 JRNL DOI 10.1371/JOURNAL.PONE.0012245 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.9.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 20517 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 1009 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.06 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2877 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2113 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2727 REMARK 3 BIN R VALUE (WORKING SET) : 0.2084 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.21 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1482 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 147 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.85080 REMARK 3 B22 (A**2) : 0.85080 REMARK 3 B33 (A**2) : -1.70150 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.291 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.151 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.132 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.140 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.126 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1513 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 2043 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 536 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 41 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 215 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1513 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 197 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 1779 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.41 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.82 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: A 448 A 654 REMARK 3 ORIGIN FOR THE GROUP (A): -7.2823 -7.9956 -14.8011 REMARK 3 T TENSOR REMARK 3 T11: -0.1425 T22: 0.0812 REMARK 3 T33: -0.0689 T12: -0.0120 REMARK 3 T13: 0.0084 T23: -0.0414 REMARK 3 L TENSOR REMARK 3 L11: 0.8775 L22: 1.7048 REMARK 3 L33: 3.3292 L12: -0.0822 REMARK 3 L13: -0.5128 L23: 0.8882 REMARK 3 S TENSOR REMARK 3 S11: -0.0104 S12: 0.4122 S13: -0.1807 REMARK 3 S21: 0.0283 S22: 0.0500 S23: 0.0264 REMARK 3 S31: 0.2399 S32: -0.0404 S33: -0.0396 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: NULL REMARK 3 ORIGIN FOR THE GROUP (A): 17.0264 8.2075 -12.7187 REMARK 3 T TENSOR REMARK 3 T11: -0.0947 T22: 0.0658 REMARK 3 T33: -0.0729 T12: -0.0172 REMARK 3 T13: 0.0096 T23: 0.0410 REMARK 3 L TENSOR REMARK 3 L11: 7.6879 L22: 1.9659 REMARK 3 L33: 1.8912 L12: 1.9308 REMARK 3 L13: -1.9873 L23: -0.4969 REMARK 3 S TENSOR REMARK 3 S11: 0.0992 S12: 0.1485 S13: 0.3535 REMARK 3 S21: 0.1036 S22: -0.0856 S23: 0.0406 REMARK 3 S31: 0.0503 S32: -0.0557 S33: -0.0136 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: NULL REMARK 3 ORIGIN FOR THE GROUP (A): -2.3060 -1.4238 -5.2022 REMARK 3 T TENSOR REMARK 3 T11: -0.1133 T22: -0.0152 REMARK 3 T33: -0.0657 T12: 0.0004 REMARK 3 T13: 0.0441 T23: -0.0109 REMARK 3 L TENSOR REMARK 3 L11: 3.3460 L22: 0.3469 REMARK 3 L33: 6.6203 L12: 1.8547 REMARK 3 L13: 2.3685 L23: -0.4764 REMARK 3 S TENSOR REMARK 3 S11: 0.0160 S12: 0.1843 S13: 0.0948 REMARK 3 S21: 0.0227 S22: 0.0905 S23: 0.0011 REMARK 3 S31: 0.0019 S32: 0.2438 S33: -0.1065 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3M4I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000058097. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980000 REMARK 200 MONOCHROMATOR : CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 OPTICS : KIRKPATRICK-BAEZ PAIR OF BIMORPH REMARK 200 MIRRORS PLUS CHANNEL CUT REMARK 200 CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL 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 : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20626 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 29.390 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : 0.08000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : 0.58700 REMARK 200 R SYM FOR SHELL (I) : 0.62900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1AB4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, TRIS, PEG 4000, REMARK 280 CACL2, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 95.23100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 26.40750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 26.40750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 142.84650 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 26.40750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 26.40750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 47.61550 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 26.40750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.40750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 142.84650 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 26.40750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.40750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.61550 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 95.23100 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: 2330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 434 REMARK 465 ALA A 435 REMARK 465 HIS A 436 REMARK 465 HIS A 437 REMARK 465 HIS A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 REMARK 465 HIS A 441 REMARK 465 VAL A 442 REMARK 465 ASP A 443 REMARK 465 ASP A 444 REMARK 465 ASP A 445 REMARK 465 ASP A 446 REMARK 465 LYS A 447 REMARK 465 GLY A 465 REMARK 465 SER A 466 REMARK 465 ALA A 467 REMARK 465 LYS A 468 REMARK 465 SER A 469 REMARK 465 GLY A 470 REMARK 465 ARG A 471 REMARK 465 ASP A 472 REMARK 465 SER A 473 REMARK 465 LYS A 484 REMARK 465 ILE A 485 REMARK 465 ILE A 486 REMARK 465 ASN A 487 REMARK 465 VAL A 488 REMARK 465 GLU A 489 REMARK 465 LYS A 490 REMARK 465 ALA A 491 REMARK 465 ASP A 655 REMARK 465 VAL A 656 REMARK 465 ASP A 657 REMARK 465 ALA A 658 REMARK 465 ARG A 659 REMARK 465 ARG A 660 REMARK 465 SER A 661 REMARK 465 PHE A 662 REMARK 465 ILE A 663 REMARK 465 THR A 664 REMARK 465 ARG A 665 REMARK 465 ASN A 666 REMARK 465 ALA A 667 REMARK 465 LYS A 668 REMARK 465 ASP A 669 REMARK 465 VAL A 670 REMARK 465 ARG A 671 REMARK 465 PHE A 672 REMARK 465 LEU A 673 REMARK 465 ASP A 674 REMARK 465 VAL A 675 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 492 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 495 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 498 CG CD CE NZ REMARK 470 ARG A 575 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 611 CG CD CE NZ 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 HIS A 514 -119.95 53.40 REMARK 500 ARG A 631 152.54 -46.64 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 MPD A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IG0 RELATED DB: PDB REMARK 900 TOPRIM DOMAIN AT 2.1 ANG RESOLUTION REMARK 900 RELATED ID: 3IFZ RELATED DB: PDB REMARK 900 BREAKAGE-REUNION DOMAIN AT 2.7 ANG RESOLUTION REMARK 900 RELATED ID: 2ZJT RELATED DB: PDB REMARK 900 TOPRIM DOMAIN AT 2.8 ANG RESOLUTION DBREF 3M4I A 448 675 UNP P0C5C5 GYRB_MYCTU 448 675 SEQADV 3M4I MET A 434 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I ALA A 435 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 436 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 437 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 438 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 439 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 440 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I HIS A 441 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I VAL A 442 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I ASP A 443 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I ASP A 444 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I ASP A 445 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I ASP A 446 UNP P0C5C5 EXPRESSION TAG SEQADV 3M4I LYS A 447 UNP P0C5C5 EXPRESSION TAG SEQRES 1 A 242 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 A 242 LYS THR ASP PRO ARG LYS SER GLU LEU TYR VAL VAL GLU SEQRES 3 A 242 GLY ASP SER ALA GLY GLY SER ALA LYS SER GLY ARG ASP SEQRES 4 A 242 SER MET PHE GLN ALA ILE LEU PRO LEU ARG GLY LYS ILE SEQRES 5 A 242 ILE ASN VAL GLU LYS ALA ARG ILE ASP ARG VAL LEU LYS SEQRES 6 A 242 ASN THR GLU VAL GLN ALA ILE ILE THR ALA LEU GLY THR SEQRES 7 A 242 GLY ILE HIS ASP GLU PHE ASP ILE GLY LYS LEU ARG TYR SEQRES 8 A 242 HIS LYS ILE VAL LEU MET ALA ASP ALA ASP VAL ASP GLY SEQRES 9 A 242 GLN HIS ILE SER THR LEU LEU LEU THR LEU LEU PHE ARG SEQRES 10 A 242 PHE MET ARG PRO LEU ILE GLU ASN GLY HIS VAL PHE LEU SEQRES 11 A 242 ALA GLN PRO PRO LEU TYR LYS LEU LYS TRP GLN ARG SER SEQRES 12 A 242 ASP PRO GLU PHE ALA TYR SER ASP ARG GLU ARG ASP GLY SEQRES 13 A 242 LEU LEU GLU ALA GLY LEU LYS ALA GLY LYS LYS ILE ASN SEQRES 14 A 242 LYS GLU ASP GLY ILE GLN ARG TYR LYS GLY LEU GLY GLU SEQRES 15 A 242 MET ASP ALA LYS GLU LEU TRP GLU THR THR MET ASP PRO SEQRES 16 A 242 SER VAL ARG VAL LEU ARG GLN VAL THR LEU ASP ASP ALA SEQRES 17 A 242 ALA ALA ALA ASP GLU LEU PHE SER ILE LEU MET GLY GLU SEQRES 18 A 242 ASP VAL ASP ALA ARG ARG SER PHE ILE THR ARG ASN ALA SEQRES 19 A 242 LYS ASP VAL ARG PHE LEU ASP VAL HET MPD A 1 8 HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 2 MPD C6 H14 O2 FORMUL 3 HOH *147(H2 O) HELIX 1 1 ASP A 449 ARG A 451 5 3 HELIX 2 2 ARG A 492 LEU A 497 1 6 HELIX 3 3 ASN A 499 GLY A 510 1 12 HELIX 4 4 ILE A 513 PHE A 517 5 5 HELIX 5 5 ASP A 518 LEU A 522 5 5 HELIX 6 6 ASP A 534 MET A 552 1 19 HELIX 7 7 ARG A 553 ASN A 558 1 6 HELIX 8 8 SER A 583 GLY A 598 1 16 HELIX 9 9 GLY A 612 MET A 616 5 5 HELIX 10 10 ASP A 617 MET A 626 1 10 HELIX 11 11 THR A 637 GLU A 654 1 18 SHEET 1 A 5 PHE A 475 LEU A 481 0 SHEET 2 A 5 SER A 453 GLU A 459 1 N TYR A 456 O ALA A 477 SHEET 3 A 5 LYS A 526 MET A 530 1 O MET A 530 N GLU A 459 SHEET 4 A 5 VAL A 561 ALA A 564 1 O PHE A 562 N LEU A 529 SHEET 5 A 5 LEU A 633 GLN A 635 -1 O ARG A 634 N LEU A 563 SHEET 1 B 3 GLU A 579 ALA A 581 0 SHEET 2 B 3 TYR A 569 LEU A 571 -1 N LEU A 571 O GLU A 579 SHEET 3 B 3 ILE A 607 ARG A 609 -1 O GLN A 608 N LYS A 570 CISPEP 1 GLU A 459 GLY A 460 0 -2.17 SITE 1 AC1 8 PRO A 450 ARG A 451 ILE A 519 LEU A 522 SITE 2 AC1 8 TYR A 524 HIS A 525 ASN A 602 GLU A 604 CRYST1 52.815 52.815 190.462 90.00 90.00 90.00 P 43 21 2 8 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 0.018934 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018934 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005250 0.00000