HEADER OXIDOREDUCTASE 03-OCT-19 6T0G TITLE CRYSTAL STRUCTURE OF CYP124 IN COMPLEX WITH VITAMIN D3 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, VITAMIND3, D3, VITAMIN, 124, KEYWDS 2 CYP124, CHOLECALCIFEROL, CALCIFEROL, TUBERCULOSIS, MYCOBACTERIUM KEYWDS 3 TUBERCULOSIS EXPDTA X-RAY DIFFRACTION AUTHOR S.BUKHDRUKER,E.MARIN,T.VARAKSA,A.GILEP,N.STRUSHKEVICH,V.BORSHCHEVSKIY REVDAT 5 24-JAN-24 6T0G 1 REMARK REVDAT 4 17-FEB-21 6T0G 1 JRNL REVDAT 3 03-FEB-21 6T0G 1 JRNL REVDAT 2 13-JAN-21 6T0G 1 JRNL REVDAT 1 14-OCT-20 6T0G 0 JRNL AUTH T.VARAKSA,S.BUKHDRUKER,I.GRABOVEC,E.MARIN,A.KAVALEUSKI, JRNL AUTH 2 A.GUSACH,K.KOVALEV,I.MASLOV,A.LUGININA,D.ZABELSKII, JRNL AUTH 3 R.ASTASHKIN,M.SHEVTSOV,S.SMOLSKAYA,A.KAVALEUSKAYA, JRNL AUTH 4 P.SHABUNYA,A.BARANOVSKY,V.DOLGOPALETS,Y.CHARNOU,A.SAVACHKA, JRNL AUTH 5 R.LITVINOVSKAYA,A.HURSKI,E.SHEVCHENKO,A.ROGACHEV,A.MISHIN, JRNL AUTH 6 V.GORDELIY,A.GABRIELIAN,D.E.HURT,B.NIKONENKO,K.MAJOROV, JRNL AUTH 7 A.APT,A.ROSENTHAL,A.GILEP,V.BORSHCHEVSKIY,N.STRUSHKEVICH JRNL TITL METABOLIC FATE OF HUMAN IMMUNOACTIVE STEROLS IN JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS. JRNL REF J.MOL.BIOL. V. 433 66763 2021 JRNL REFN ESSN 1089-8638 JRNL PMID 33359098 JRNL DOI 10.1016/J.JMB.2020.166763 REMARK 2 REMARK 2 RESOLUTION. 1.30 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 99549 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 4944 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 19.7500 - 4.0300 0.98 3242 142 0.1602 0.1701 REMARK 3 2 4.0300 - 3.2000 0.98 3181 158 0.1530 0.1503 REMARK 3 3 3.2000 - 2.8000 0.99 3207 170 0.1581 0.1733 REMARK 3 4 2.8000 - 2.5400 0.99 3188 178 0.1552 0.1801 REMARK 3 5 2.5400 - 2.3600 0.99 3166 172 0.1523 0.1621 REMARK 3 6 2.3600 - 2.2200 1.00 3216 158 0.1394 0.1734 REMARK 3 7 2.2200 - 2.1100 0.97 3149 149 0.1344 0.1645 REMARK 3 8 2.1100 - 2.0200 1.00 3147 189 0.1381 0.1509 REMARK 3 9 2.0200 - 1.9400 1.00 3218 158 0.1374 0.1743 REMARK 3 10 1.9400 - 1.8700 1.00 3223 159 0.1379 0.1816 REMARK 3 11 1.8700 - 1.8200 1.00 3226 142 0.1389 0.1831 REMARK 3 12 1.8200 - 1.7600 1.00 3171 183 0.1509 0.1915 REMARK 3 13 1.7600 - 1.7200 1.00 3158 165 0.1573 0.1973 REMARK 3 14 1.7200 - 1.6800 0.99 3207 176 0.1680 0.2149 REMARK 3 15 1.6800 - 1.6400 0.99 3175 182 0.1649 0.2208 REMARK 3 16 1.6400 - 1.6000 0.98 3159 152 0.1635 0.1982 REMARK 3 17 1.6000 - 1.5700 0.97 3043 162 0.1718 0.2110 REMARK 3 18 1.5700 - 1.5400 0.99 3191 171 0.1780 0.2284 REMARK 3 19 1.5400 - 1.5100 0.99 3183 178 0.1815 0.2208 REMARK 3 20 1.5100 - 1.4900 1.00 3185 161 0.1818 0.2273 REMARK 3 21 1.4900 - 1.4600 0.99 3167 169 0.2002 0.2542 REMARK 3 22 1.4600 - 1.4400 1.00 3195 159 0.2164 0.2649 REMARK 3 23 1.4400 - 1.4200 1.00 3159 182 0.2143 0.2346 REMARK 3 24 1.4200 - 1.4000 0.99 3124 176 0.2166 0.2492 REMARK 3 25 1.4000 - 1.3800 1.00 3184 197 0.2341 0.2949 REMARK 3 26 1.3800 - 1.3600 1.00 3199 165 0.2413 0.2632 REMARK 3 27 1.3600 - 1.3500 0.99 3159 162 0.2424 0.2776 REMARK 3 28 1.3500 - 1.3300 0.99 3206 140 0.2466 0.2851 REMARK 3 29 1.3300 - 1.3100 0.97 3088 153 0.2634 0.2631 REMARK 3 30 1.3100 - 1.3000 0.78 2489 136 0.2711 0.3301 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) : 0.159 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.838 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.31 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 : 0.012 3894 REMARK 3 ANGLE : 1.218 5371 REMARK 3 CHIRALITY : 0.088 572 REMARK 3 PLANARITY : 0.009 726 REMARK 3 DIHEDRAL : 13.741 1454 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 6T0G 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_1292103997. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.984 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20180126 REMARK 200 DATA SCALING SOFTWARE : XSCALE 20180409 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 164106 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.6500 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 (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 15.00 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 (%): 44.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.1M BISTRIS, 0.2M REMARK 280 MAGNESIUM CHLORIDE, PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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: 2550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 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 GLU A 59 CG CD OE1 OE2 REMARK 470 LYS A 132 CD CE NZ REMARK 470 LYS A 352 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 ALA A 50 66.18 -152.96 REMARK 500 LEU A 167 -59.87 -149.52 REMARK 500 LEU A 205 -68.79 -107.54 REMARK 500 ALA A 206 141.18 -170.05 REMARK 500 THR A 271 -68.20 -135.77 REMARK 500 ASP A 296 70.23 -153.30 REMARK 500 SER A 313 69.27 31.38 REMARK 500 PRO A 367 39.77 -86.44 REMARK 500 CYS A 379 116.21 -38.30 REMARK 500 MET A 400 68.44 -151.01 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 A1332 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A1333 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A1334 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A1335 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH A1336 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH A1337 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A1338 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A1339 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A1340 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH A1341 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A1342 DISTANCE = 6.51 ANGSTROMS REMARK 525 HOH A1343 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A1344 DISTANCE = 6.89 ANGSTROMS REMARK 525 HOH A1345 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A1346 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH A1347 DISTANCE = 7.29 ANGSTROMS REMARK 525 HOH A1348 DISTANCE = 7.43 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 VD3 A 502 REMARK 610 PGE A 505 REMARK 610 PGE A 506 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 102.1 REMARK 620 3 HEM A 501 NB 91.1 88.6 REMARK 620 4 HEM A 501 NC 93.5 164.1 88.4 REMARK 620 5 HEM A 501 ND 105.1 89.9 163.7 88.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 752 O REMARK 620 2 HOH A 816 O 94.5 REMARK 620 3 HOH A1071 O 89.9 88.4 REMARK 620 4 HOH A1110 O 86.0 87.9 174.2 REMARK 620 5 HOH A1288 O 175.7 89.5 91.7 92.6 REMARK 620 6 HOH A1314 O 86.7 177.5 89.4 94.4 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 504 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 663 O REMARK 620 2 HOH A 728 O 85.6 REMARK 620 3 HOH A1093 O 80.4 84.8 REMARK 620 4 HOH A1113 O 104.3 91.6 173.9 REMARK 620 5 HOH A1229 O 69.3 148.7 73.1 112.1 REMARK 620 6 HOH A1229 O 82.9 168.2 90.5 94.0 20.9 REMARK 620 7 HOH A1324 O 172.7 87.2 100.1 74.7 117.9 104.3 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 VD3 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 506 DBREF 6T0G A 1 428 UNP P9WPP3 CP124_MYCTU 1 428 SEQADV 6T0G MET A -6 UNP P9WPP3 INITIATING METHIONINE SEQADV 6T0G HIS A -5 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0G HIS A -4 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0G HIS A -3 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0G HIS A -2 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0G HIS A -1 UNP P9WPP3 EXPRESSION TAG SEQADV 6T0G 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 43 HET VD3 A 502 20 HET MG A 503 1 HET MG A 504 1 HET PGE A 505 3 HET PGE A 506 3 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM VD3 (1S,3Z)-3-[(2E)-2-[(1R,3AR,7AS)-7A-METHYL-1-[(2R)-6- HETNAM 2 VD3 METHYLHEPTAN-2-YL]-2,3,3A,5,6,7-HEXAHYDRO-1H-INDEN-4- HETNAM 3 VD3 YLIDENE]ETHYLI DENE]-4-METHYLIDENE-CYCLOHEXAN-1-OL HETNAM MG MAGNESIUM ION HETNAM PGE TRIETHYLENE GLYCOL HETSYN HEM HEME HETSYN VD3 VITAMIN D3 FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 VD3 C27 H44 O FORMUL 4 MG 2(MG 2+) FORMUL 6 PGE 2(C6 H14 O4) FORMUL 8 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 ARG A 83 1 10 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 ILE A 137 1 8 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 SER A 295 1 10 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 HEM A 501 1555 1555 2.35 LINK MG MG A 503 O HOH A 752 1555 1555 2.14 LINK MG MG A 503 O HOH A 816 1555 1555 2.10 LINK MG MG A 503 O HOH A1071 1555 1555 2.12 LINK MG MG A 503 O HOH A1110 1555 1555 2.08 LINK MG MG A 503 O HOH A1288 1555 1555 2.18 LINK MG MG A 503 O HOH A1314 1555 1555 2.07 LINK MG MG A 504 O HOH A 663 1555 1555 2.15 LINK MG MG A 504 O HOH A 728 1555 1555 2.08 LINK MG MG A 504 O HOH A1093 1555 1555 2.18 LINK MG MG A 504 O HOH A1113 1555 1555 2.05 LINK MG MG A 504 O AHOH A1229 1555 1555 2.54 LINK MG MG A 504 O BHOH A1229 1555 1555 2.09 LINK MG MG A 504 O HOH A1324 1555 1555 2.07 CISPEP 1 TYR A 91 PRO A 92 0 8.28 CISPEP 2 ASP A 115 PRO A 116 0 8.58 CISPEP 3 ASN A 364 PRO A 365 0 -3.87 SITE 1 AC1 22 ILE A 111 HIS A 118 ARG A 122 LEU A 264 SITE 2 AC1 22 ALA A 267 GLY A 268 THR A 271 THR A 272 SITE 3 AC1 22 VAL A 315 ARG A 320 TYR A 343 GLY A 370 SITE 4 AC1 22 PHE A 371 GLY A 372 HIS A 377 CYS A 379 SITE 5 AC1 22 GLY A 381 VD3 A 502 HOH A 685 HOH A 740 SITE 6 AC1 22 HOH A 742 HOH A 807 SITE 1 AC2 4 ASN A 93 THR A 95 ILE A 197 HEM A 501 SITE 1 AC3 6 HOH A 752 HOH A 816 HOH A1071 HOH A1110 SITE 2 AC3 6 HOH A1288 HOH A1314 SITE 1 AC4 6 HOH A 663 HOH A 728 HOH A1093 HOH A1113 SITE 2 AC4 6 HOH A1229 HOH A1324 SITE 1 AC5 5 HIS A 84 PRO A 85 ASP A 86 ILE A 87 SITE 2 AC5 5 PGE A 506 SITE 1 AC6 3 HIS A 84 ILE A 87 PGE A 505 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