HEADER OXIDOREDUCTASE 03-OCT-19 6T0J TITLE CRYSTAL STRUCTURE OF CYP124 IN COMPLEX WITH SQ109 COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHYL-BRANCHED LIPID OMEGA-HYDROXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CHOLEST-4-EN-3-ONE C26-MONOOXYGENASE,CHOLEST-4-EN-3-ONE C26- COMPND 5 MONOOXYGENASE [(25R)-3-OXOCHOLEST-4-EN-26-OATE FORMING],CHOLESTEROL COMPND 6 C26-MONOOXYGENASE,CHOLESTEROL C26-MONOOXYGENASE [(25R)-3BETA- COMPND 7 HYDROXYCHOLEST-5-EN-26-OATE FORMING],CYTOCHROME P450 124,STEROID C26- COMPND 8 MONOOXYGENASE,STEROID C27-MONOOXYGENASE; COMPND 9 EC: 1.14.15.14,1.14.15.28; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 STRAIN: ATCC 25618 / H37RV; SOURCE 6 GENE: CYP124, RV2266, MTCY339.44C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYTOCHROME, P450, CYP, OXIDOREDUCTASE, SQ109, SQ, 109, MMPL3, KEYWDS 2 TUBERCULOSIS, MYCOBACTERIUM TUBERCULOSIS, ANTITUBERCULOSIS, DRUG, KEYWDS 3 SUBSTRATE EXPDTA X-RAY DIFFRACTION AUTHOR S.BUKHDRUKER,E.MARIN,T.VARAKSA,A.GILEP,N.STRUSHKEVICH,V.BORSHCHEVSKIY REVDAT 6 02-SEP-26 6T0J 1 REMARK REVDAT 5 24-JAN-24 6T0J 1 REMARK REVDAT 4 17-FEB-21 6T0J 1 SITE ATOM REVDAT 3 04-NOV-20 6T0J 1 JRNL REVDAT 2 28-OCT-20 6T0J 1 JRNL REVDAT 1 14-OCT-20 6T0J 0 JRNL AUTH S.BUKHDRUKER,T.VARAKSA,I.GRABOVEC,E.MARIN,P.SHABUNYA, JRNL AUTH 2 M.KADUKOVA,S.GRUDININ,A.KAVALEUSKI,A.GUSACH,A.GILEP, JRNL AUTH 3 V.BORSHCHEVSKIY,N.STRUSHKEVICH JRNL TITL HYDROXYLATION OF ANTITUBERCULAR DRUG CANDIDATE, SQ109, BY JRNL TITL 2 MYCOBACTERIAL CYTOCHROME P450. JRNL REF INT J MOL SCI V. 21 2020 JRNL REFN ESSN 1422-0067 JRNL PMID 33081390 JRNL DOI 10.3390/IJMS21207683 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 111134 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 5509 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.5400 - 3.8900 0.97 3620 163 0.1432 0.1620 REMARK 3 2 3.8900 - 3.0800 0.99 3609 175 0.1200 0.1267 REMARK 3 3 3.0800 - 2.7000 0.99 3551 197 0.1248 0.1696 REMARK 3 4 2.7000 - 2.4500 0.99 3608 184 0.1220 0.1456 REMARK 3 5 2.4500 - 2.2700 0.99 3589 180 0.1199 0.1566 REMARK 3 6 2.2700 - 2.1400 0.96 3455 165 0.1162 0.1549 REMARK 3 7 2.1400 - 2.0300 0.98 3520 195 0.1187 0.1719 REMARK 3 8 2.0300 - 1.9400 0.99 3569 197 0.1186 0.1631 REMARK 3 9 1.9400 - 1.8700 1.00 3579 177 0.1238 0.1646 REMARK 3 10 1.8700 - 1.8000 0.99 3603 165 0.1352 0.1859 REMARK 3 11 1.8000 - 1.7500 0.99 3539 191 0.1438 0.1797 REMARK 3 12 1.7500 - 1.7000 0.99 3549 196 0.1573 0.1728 REMARK 3 13 1.7000 - 1.6500 0.99 3531 194 0.1626 0.2003 REMARK 3 14 1.6500 - 1.6100 0.98 3502 185 0.1708 0.2141 REMARK 3 15 1.6100 - 1.5800 0.95 3400 181 0.1775 0.2267 REMARK 3 16 1.5800 - 1.5400 0.98 3500 186 0.1823 0.2327 REMARK 3 17 1.5400 - 1.5100 0.98 3526 199 0.1831 0.2272 REMARK 3 18 1.5100 - 1.4800 0.99 3537 184 0.1857 0.2149 REMARK 3 19 1.4800 - 1.4600 0.99 3550 178 0.1870 0.2535 REMARK 3 20 1.4600 - 1.4300 0.99 3525 183 0.1908 0.2364 REMARK 3 21 1.4300 - 1.4100 0.99 3554 197 0.1954 0.2383 REMARK 3 22 1.4100 - 1.3900 0.99 3516 215 0.1949 0.2288 REMARK 3 23 1.3900 - 1.3700 0.99 3528 188 0.1995 0.2556 REMARK 3 24 1.3700 - 1.3500 0.99 3507 178 0.2131 0.2444 REMARK 3 25 1.3500 - 1.3300 0.98 3581 161 0.2295 0.2778 REMARK 3 26 1.3300 - 1.3100 0.95 3399 190 0.2442 0.2907 REMARK 3 27 1.3100 - 1.3000 0.97 3468 179 0.2537 0.3305 REMARK 3 28 1.3000 - 1.2800 0.97 3475 175 0.2588 0.2605 REMARK 3 29 1.2800 - 1.2700 0.98 3520 181 0.2669 0.2687 REMARK 3 30 1.2700 - 1.2500 0.90 3215 170 0.3133 0.3483 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.153 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.169 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 4208 REMARK 3 ANGLE : 1.143 5822 REMARK 3 CHIRALITY : 0.074 603 REMARK 3 PLANARITY : 0.007 784 REMARK 3 DIHEDRAL : 14.371 1589 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6T0J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104000. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.972 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20180409 REMARK 200 DATA SCALING SOFTWARE : XSCALE 20180409 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 162381 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 4.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 30.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 28.90 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 6T0F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, 0.3 M MAGNESIUM FORMATE, REMARK 280 PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 37.55500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 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 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 -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 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 MET A 1 CG SD CE REMARK 470 GLU A 102 CG CD OE1 OE2 REMARK 470 ARG A 127 CZ NH1 NH2 REMARK 470 LYS A 132 CD CE NZ REMARK 470 ARG A 159 CZ NH1 NH2 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 ALA A 50 64.97 -154.94 REMARK 500 ALA A 50 64.97 -151.35 REMARK 500 LEU A 167 -58.42 -147.25 REMARK 500 LEU A 205 -69.02 -107.56 REMARK 500 THR A 271 -70.54 -134.32 REMARK 500 ASP A 296 67.69 -157.04 REMARK 500 SER A 313 68.42 32.90 REMARK 500 PRO A 367 45.64 -82.05 REMARK 500 CYS A 379 120.19 -38.30 REMARK 500 MET A 400 68.11 -152.17 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 A1344 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A1345 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A1346 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A1347 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A1348 DISTANCE = 6.09 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 379 SG REMARK 620 2 HEM A 501 NA 102.0 REMARK 620 3 HEM A 501 NB 92.5 89.7 REMARK 620 4 HEM A 501 NC 94.2 163.6 87.3 REMARK 620 5 HEM A 501 ND 104.6 87.1 162.9 91.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 379 SG REMARK 620 2 HEM A 501 NA 97.0 REMARK 620 3 HEM A 501 NB 88.9 87.7 REMARK 620 4 HEM A 501 NC 92.9 169.4 88.8 REMARK 620 5 HEM A 501 ND 102.2 86.9 168.2 94.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 506 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 706 O REMARK 620 2 HOH A 838 O 94.6 REMARK 620 3 HOH A1122 O 93.3 89.1 REMARK 620 4 HOH A1174 O 82.9 92.8 175.8 REMARK 620 5 HOH A1300 O 173.5 83.3 92.8 91.1 REMARK 620 6 HOH A1334 O 85.5 179.8 91.0 87.1 96.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 513 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 684 O REMARK 620 2 HOH A 903 O 88.0 REMARK 620 3 HOH A1153 O 85.1 76.9 REMARK 620 4 HOH A1159 O 100.9 93.1 168.3 REMARK 620 5 HOH A1187 O 53.2 138.5 84.7 106.9 REMARK 620 6 HOH A1187 O 70.3 156.2 91.3 100.2 17.9 REMARK 620 7 HOH A1342 O 175.2 93.3 90.7 83.6 124.1 107.6 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RWZ A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 513 DBREF 6T0J A 1 428 UNP P9WPP3 CP124_MYCTU 1 428 SEQADV 6T0J MET A -6 UNP P9WPP3 INITIATING METHIONINE SEQADV 6T0J HIS A -5 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0J HIS A -4 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0J HIS A -3 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0J HIS A -2 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0J HIS A -1 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0J HIS A 0 UNP P9WPP3 EXPRESSION TAG SEQRES 1 A 435 MET HIS HIS HIS HIS HIS HIS MET GLY LEU ASN THR ALA SEQRES 2 A 435 ILE ALA THR ARG VAL ASN GLY THR PRO PRO PRO GLU VAL SEQRES 3 A 435 PRO ILE ALA ASP ILE GLU LEU GLY SER LEU ASP PHE TRP SEQRES 4 A 435 ALA LEU ASP ASP ASP VAL ARG ASP GLY ALA PHE ALA THR SEQRES 5 A 435 LEU ARG ARG GLU ALA PRO ILE SER PHE TRP PRO THR ILE SEQRES 6 A 435 GLU LEU PRO GLY PHE VAL ALA GLY ASN GLY HIS TRP ALA SEQRES 7 A 435 LEU THR LYS TYR ASP ASP VAL PHE TYR ALA SER ARG HIS SEQRES 8 A 435 PRO ASP ILE PHE SER SER TYR PRO ASN ILE THR ILE ASN SEQRES 9 A 435 ASP GLN THR PRO GLU LEU ALA GLU TYR PHE GLY SER MET SEQRES 10 A 435 ILE VAL LEU ASP ASP PRO ARG HIS GLN ARG LEU ARG SER SEQRES 11 A 435 ILE VAL SER ARG ALA PHE THR PRO LYS VAL VAL ALA ARG SEQRES 12 A 435 ILE GLU ALA ALA VAL ARG ASP ARG ALA HIS ARG LEU VAL SEQRES 13 A 435 SER SER MET ILE ALA ASN ASN PRO ASP ARG GLN ALA ASP SEQRES 14 A 435 LEU VAL SER GLU LEU ALA GLY PRO LEU PRO LEU GLN ILE SEQRES 15 A 435 ILE CYS ASP MET MET GLY ILE PRO LYS ALA ASP HIS GLN SEQRES 16 A 435 ARG ILE PHE HIS TRP THR ASN VAL ILE LEU GLY PHE GLY SEQRES 17 A 435 ASP PRO ASP LEU ALA THR ASP PHE ASP GLU PHE MET GLN SEQRES 18 A 435 VAL SER ALA ASP ILE GLY ALA TYR ALA THR ALA LEU ALA SEQRES 19 A 435 GLU ASP ARG ARG VAL ASN HIS HIS ASP ASP LEU THR SER SEQRES 20 A 435 SER LEU VAL GLU ALA GLU VAL ASP GLY GLU ARG LEU SER SEQRES 21 A 435 SER ARG GLU ILE ALA SER PHE PHE ILE LEU LEU VAL VAL SEQRES 22 A 435 ALA GLY ASN GLU THR THR ARG ASN ALA ILE THR HIS GLY SEQRES 23 A 435 VAL LEU ALA LEU SER ARG TYR PRO GLU GLN ARG ASP ARG SEQRES 24 A 435 TRP TRP SER ASP PHE ASP GLY LEU ALA PRO THR ALA VAL SEQRES 25 A 435 GLU GLU ILE VAL ARG TRP ALA SER PRO VAL VAL TYR MET SEQRES 26 A 435 ARG ARG THR LEU THR GLN ASP ILE GLU LEU ARG GLY THR SEQRES 27 A 435 LYS MET ALA ALA GLY ASP LYS VAL SER LEU TRP TYR CYS SEQRES 28 A 435 SER ALA ASN ARG ASP GLU SER LYS PHE ALA ASP PRO TRP SEQRES 29 A 435 THR PHE ASP LEU ALA ARG ASN PRO ASN PRO HIS LEU GLY SEQRES 30 A 435 PHE GLY GLY GLY GLY ALA HIS PHE CYS LEU GLY ALA ASN SEQRES 31 A 435 LEU ALA ARG ARG GLU ILE ARG VAL ALA PHE ASP GLU LEU SEQRES 32 A 435 ARG ARG GLN MET PRO ASP VAL VAL ALA THR GLU GLU PRO SEQRES 33 A 435 ALA ARG LEU LEU SER GLN PHE ILE HIS GLY ILE LYS THR SEQRES 34 A 435 LEU PRO VAL THR TRP SER HET HEM A 501 86 HET RWZ A 502 48 HET GOL A 503 6 HET GOL A 504 12 HET TRS A 505 8 HET MG A 506 1 HET FMT A 507 3 HET FMT A 508 3 HET FMT A 509 3 HET GOL A 510 12 HET FMT A 511 3 HET GOL A 512 12 HET MG A 513 1 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM RWZ N-[(2Z)-3,7-DIMETHYLOCTA-2,6-DIEN-1-YL]-N'-[(1R,3S,5R, HETNAM 2 RWZ 7R)-TRICYCLO[3.3.1.1~3,7~]DEC-2-YL]ETHANE-1,2-DIAMINE HETNAM GOL GLYCEROL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM MG MAGNESIUM ION HETNAM FMT FORMIC ACID HETSYN HEM HEME HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TRS TRIS BUFFER FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 RWZ C22 H38 N2 FORMUL 4 GOL 4(C3 H8 O3) FORMUL 6 TRS C4 H12 N O3 1+ FORMUL 7 MG 2(MG 2+) FORMUL 8 FMT 4(C H2 O2) FORMUL 15 HOH *748(H2 O) HELIX 1 AA1 PRO A 20 ILE A 24 5 5 HELIX 2 AA2 SER A 28 ALA A 33 1 6 HELIX 3 AA3 ASP A 35 ALA A 50 1 16 HELIX 4 AA4 LYS A 74 HIS A 84 1 11 HELIX 5 AA5 THR A 100 GLY A 108 1 9 HELIX 6 AA6 SER A 109 LEU A 113 5 5 HELIX 7 AA7 PRO A 116 SER A 126 1 11 HELIX 8 AA8 ARG A 127 PHE A 129 5 3 HELIX 9 AA9 THR A 130 ARG A 136 1 7 HELIX 10 AB1 ILE A 137 ASN A 156 1 20 HELIX 11 AB2 LEU A 163 LEU A 167 1 5 HELIX 12 AB3 GLY A 169 GLY A 181 1 13 HELIX 13 AB4 PRO A 183 ALA A 185 5 3 HELIX 14 AB5 ASP A 186 LEU A 198 1 13 HELIX 15 AB6 ASP A 208 ASN A 233 1 26 HELIX 16 AB7 ASP A 237 ALA A 245 1 9 HELIX 17 AB8 SER A 253 GLU A 270 1 18 HELIX 18 AB9 THR A 271 TYR A 286 1 16 HELIX 19 AC1 TYR A 286 ASP A 296 1 11 HELIX 20 AC2 ASP A 296 SER A 313 1 18 HELIX 21 AC3 TYR A 343 ASN A 347 1 5 HELIX 22 AC4 GLY A 381 MET A 400 1 20 SHEET 1 AA1 5 ILE A 52 TRP A 55 0 SHEET 2 AA1 5 HIS A 69 LEU A 72 -1 O ALA A 71 N SER A 53 SHEET 3 AA1 5 LYS A 338 TRP A 342 1 O SER A 340 N LEU A 72 SHEET 4 AA1 5 TYR A 317 LEU A 322 -1 N MET A 318 O LEU A 341 SHEET 5 AA1 5 PHE A 88 SER A 89 -1 N SER A 89 O THR A 321 SHEET 1 AA2 3 GLN A 160 ASP A 162 0 SHEET 2 AA2 3 PRO A 424 THR A 426 -1 O VAL A 425 N ALA A 161 SHEET 3 AA2 3 VAL A 404 ALA A 405 -1 N VAL A 404 O THR A 426 SHEET 1 AA3 2 GLU A 246 VAL A 247 0 SHEET 2 AA3 2 GLU A 250 ARG A 251 -1 O GLU A 250 N VAL A 247 SHEET 1 AA4 2 ILE A 326 LEU A 328 0 SHEET 2 AA4 2 THR A 331 MET A 333 -1 O THR A 331 N LEU A 328 SHEET 1 AA5 2 ALA A 410 ARG A 411 0 SHEET 2 AA5 2 ILE A 420 THR A 422 -1 O LYS A 421 N ALA A 410 LINK SG CYS A 379 FE AHEM A 501 1555 1555 2.36 LINK SG CYS A 379 FE BHEM A 501 1555 1555 2.47 LINK MG MG A 506 O HOH A 706 1555 1555 2.18 LINK MG MG A 506 O HOH A 838 1555 1555 2.05 LINK MG MG A 506 O HOH A1122 1555 1555 1.96 LINK MG MG A 506 O HOH A1174 1555 1555 2.06 LINK MG MG A 506 O HOH A1300 1555 1555 2.20 LINK MG MG A 506 O HOH A1334 1555 1555 2.01 LINK MG MG A 513 O AHOH A 684 1555 1555 2.32 LINK MG MG A 513 O HOH A 903 1555 1555 2.05 LINK MG MG A 513 O AHOH A1153 1555 1555 2.30 LINK MG MG A 513 O HOH A1159 1555 1555 1.94 LINK MG MG A 513 O AHOH A1187 1555 1555 2.51 LINK MG MG A 513 O BHOH A1187 1555 1555 2.05 LINK MG MG A 513 O HOH A1342 1555 1555 2.00 CISPEP 1 TYR A 91 PRO A 92 0 8.97 CISPEP 2 ASP A 115 PRO A 116 0 7.20 CISPEP 3 ASN A 364 PRO A 365 0 -1.57 SITE 1 AC1 24 ILE A 111 HIS A 118 ARG A 122 LEU A 264 SITE 2 AC1 24 ALA A 267 GLY A 268 THR A 271 THR A 272 SITE 3 AC1 24 VAL A 315 ARG A 320 TYR A 343 GLY A 370 SITE 4 AC1 24 PHE A 371 GLY A 372 HIS A 377 CYS A 379 SITE 5 AC1 24 LEU A 380 GLY A 381 ALA A 385 RWZ A 502 SITE 6 AC1 24 HOH A 675 HOH A 749 HOH A 755 HOH A 828 SITE 1 AC2 11 LEU A 60 PHE A 63 THR A 95 ASN A 97 SITE 2 AC2 11 PHE A 107 ILE A 197 LEU A 198 PHE A 200 SITE 3 AC2 11 MET A 318 HEM A 501 HOH A 879 SITE 1 AC3 5 ASP A 355 THR A 358 ASP A 360 ARG A 363 SITE 2 AC3 5 HOH A 643 SITE 1 AC4 5 PRO A 92 GLN A 99 HOH A 636 HOH A1037 SITE 2 AC4 5 HOH A1246 SITE 1 AC5 9 GLU A 306 ASN A 366 PRO A 367 HIS A 368 SITE 2 AC5 9 PHE A 371 PHE A 378 ARG A 386 HOH A 843 SITE 3 AC5 9 HOH A 883 SITE 1 AC6 6 HOH A 706 HOH A 838 HOH A1122 HOH A1174 SITE 2 AC6 6 HOH A1300 HOH A1334 SITE 1 AC7 5 GLY A 13 ASP A 355 PRO A 356 TRP A 357 SITE 2 AC7 5 THR A 358 SITE 1 AC8 3 HOH A 647 HOH A 699 HOH A 822 SITE 1 AC9 3 GLU A 327 ARG A 329 GLY A 330 SITE 1 AD1 8 ARG A 48 GLU A 49 PRO A 51 ARG A 329 SITE 2 AD1 8 HOH A 601 HOH A 634 HOH A 936 HOH A 979 SITE 1 AD2 2 GLU A 350 PHE A 353 SITE 1 AD3 10 MET A 1 GLU A 105 TYR A 106 GLY A 220 SITE 2 AD3 10 THR A 224 SER A 254 ARG A 255 ALA A 258 SITE 3 AD3 10 HOH A 753 HOH A 902 SITE 1 AD4 6 HOH A 684 HOH A 903 HOH A1153 HOH A1159 SITE 2 AD4 6 HOH A1187 HOH A1342 CRYST1 51.540 75.110 56.590 90.00 106.84 90.00 P 1 21 1 2 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.019402 0.000000 0.005873 0.00000 SCALE2 0.000000 0.013314 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018463 0.00000 CONECT 3395 3947 3948 CONECT 3863 3871 3925 CONECT 3864 3872 3926 CONECT 3865 3877 3891 CONECT 3866 3878 3892 CONECT 3867 3897 3905 CONECT 3868 3898 3906 CONECT 3869 3911 3919 CONECT 3870 3912 3920 CONECT 3871 3863 3873 3939 CONECT 3872 3864 3874 3940 CONECT 3873 3871 3875 3881 CONECT 3874 3872 3876 3882 CONECT 3875 3873 3877 3879 CONECT 3876 3874 3878 3880 CONECT 3877 3865 3875 3939 CONECT 3878 3866 3876 3940 CONECT 3879 3875 CONECT 3880 3876 CONECT 3881 3873 3883 CONECT 3882 3874 3884 CONECT 3883 3881 3885 CONECT 3884 3882 3886 CONECT 3885 3883 3887 3889 CONECT 3886 3884 3888 3890 CONECT 3887 3885 CONECT 3888 3886 CONECT 3889 3885 CONECT 3890 3886 CONECT 3891 3865 3893 3941 CONECT 3892 3866 3894 3942 CONECT 3893 3891 3895 3899 CONECT 3894 3892 3896 3900 CONECT 3895 3893 3897 3901 CONECT 3896 3894 3898 3902 CONECT 3897 3867 3895 3941 CONECT 3898 3868 3896 3942 CONECT 3899 3893 CONECT 3900 3894 CONECT 3901 3895 3903 CONECT 3902 3896 3904 CONECT 3903 3901 CONECT 3904 3902 CONECT 3905 3867 3907 3943 CONECT 3906 3868 3908 3944 CONECT 3907 3905 3909 3913 CONECT 3908 3906 3910 3914 CONECT 3909 3907 3911 3915 CONECT 3910 3908 3912 3916 CONECT 3911 3869 3909 3943 CONECT 3912 3870 3910 3944 CONECT 3913 3907 CONECT 3914 3908 CONECT 3915 3909 3917 CONECT 3916 3910 3918 CONECT 3917 3915 CONECT 3918 3916 CONECT 3919 3869 3921 3945 CONECT 3920 3870 3922 3946 CONECT 3921 3919 3923 3927 CONECT 3922 3920 3924 3928 CONECT 3923 3921 3925 3929 CONECT 3924 3922 3926 3930 CONECT 3925 3863 3923 3945 CONECT 3926 3864 3924 3946 CONECT 3927 3921 CONECT 3928 3922 CONECT 3929 3923 3931 CONECT 3930 3924 3932 CONECT 3931 3929 3933 CONECT 3932 3930 3934 CONECT 3933 3931 3935 3937 CONECT 3934 3932 3936 3938 CONECT 3935 3933 CONECT 3936 3934 CONECT 3937 3933 CONECT 3938 3934 CONECT 3939 3871 3877 3947 CONECT 3940 3872 3878 3948 CONECT 3941 3891 3897 3947 CONECT 3942 3892 3898 3948 CONECT 3943 3905 3911 3947 CONECT 3944 3906 3912 3948 CONECT 3945 3919 3925 3947 CONECT 3946 3920 3926 3948 CONECT 3947 3395 3939 3941 3943 CONECT 3947 3945 CONECT 3948 3395 3940 3942 3944 CONECT 3948 3946 CONECT 3949 3983 CONECT 3950 3984 CONECT 3951 3983 CONECT 3952 3984 CONECT 3953 3985 CONECT 3954 3986 CONECT 3955 3959 3983 CONECT 3956 3960 3984 CONECT 3957 3961 3985 CONECT 3958 3962 3986 CONECT 3959 3955 3967 CONECT 3960 3956 3968 CONECT 3961 3957 3979 CONECT 3962 3958 3980 CONECT 3963 3965 3979 CONECT 3964 3966 3980 CONECT 3965 3963 3981 CONECT 3966 3964 3982 CONECT 3967 3959 3985 CONECT 3968 3960 3986 CONECT 3969 3987 3989 CONECT 3970 3988 3990 CONECT 3971 3987 3991 CONECT 3972 3988 3992 CONECT 3973 3989 3991 CONECT 3974 3990 3992 CONECT 3975 3987 3993 CONECT 3976 3988 3994 CONECT 3977 3989 3993 CONECT 3978 3990 3994 CONECT 3979 3961 3963 CONECT 3980 3962 3964 CONECT 3981 3965 3995 CONECT 3982 3966 3996 CONECT 3983 3949 3951 3955 CONECT 3984 3950 3952 3956 CONECT 3985 3953 3957 3967 CONECT 3986 3954 3958 3968 CONECT 3987 3969 3971 3975 CONECT 3988 3970 3972 3976 CONECT 3989 3969 3973 3977 CONECT 3990 3970 3974 3978 CONECT 3991 3971 3973 3995 CONECT 3992 3972 3974 3996 CONECT 3993 3975 3977 3995 CONECT 3994 3976 3978 3996 CONECT 3995 3981 3991 3993 CONECT 3996 3982 3992 3994 CONECT 3997 3998 3999 CONECT 3998 3997 CONECT 3999 3997 4000 4001 CONECT 4000 3999 CONECT 4001 3999 4002 CONECT 4002 4001 CONECT 4003 4005 4007 CONECT 4004 4006 4008 CONECT 4005 4003 CONECT 4006 4004 CONECT 4007 4003 4009 4011 CONECT 4008 4004 4010 4012 CONECT 4009 4007 CONECT 4010 4008 CONECT 4011 4007 4013 CONECT 4012 4008 4014 CONECT 4013 4011 CONECT 4014 4012 CONECT 4015 4016 4017 4018 4019 CONECT 4016 4015 4020 CONECT 4017 4015 4021 CONECT 4018 4015 4022 CONECT 4019 4015 CONECT 4020 4016 CONECT 4021 4017 CONECT 4022 4018 CONECT 4023 4179 4321 4640 4698 CONECT 4023 4839 4875 CONECT 4024 4025 4026 CONECT 4025 4024 CONECT 4026 4024 CONECT 4027 4028 4029 CONECT 4028 4027 CONECT 4029 4027 CONECT 4030 4031 4032 CONECT 4031 4030 CONECT 4032 4030 CONECT 4033 4035 4037 CONECT 4034 4036 4038 CONECT 4035 4033 CONECT 4036 4034 CONECT 4037 4033 4039 4041 CONECT 4038 4034 4040 4042 CONECT 4039 4037 CONECT 4040 4038 CONECT 4041 4037 4043 CONECT 4042 4038 4044 CONECT 4043 4041 CONECT 4044 4042 CONECT 4045 4046 4047 CONECT 4046 4045 CONECT 4047 4045 CONECT 4048 4050 4052 CONECT 4049 4051 4053 CONECT 4050 4048 CONECT 4051 4049 CONECT 4052 4048 4054 4056 CONECT 4053 4049 4055 4057 CONECT 4054 4052 CONECT 4055 4053 CONECT 4056 4052 4058 CONECT 4057 4053 4059 CONECT 4058 4056 CONECT 4059 4057 CONECT 4060 4156 4392 4676 4683 CONECT 4060 4711 4712 4884 CONECT 4156 4060 CONECT 4179 4023 CONECT 4321 4023 CONECT 4392 4060 CONECT 4640 4023 CONECT 4676 4060 CONECT 4683 4060 CONECT 4698 4023 CONECT 4711 4060 CONECT 4712 4060 CONECT 4839 4023 CONECT 4875 4023 CONECT 4884 4060 MASTER 380 0 13 22 14 0 30 6 4231 1 216 34 END