HEADER ANTIMICROBIAL PROTEIN 01-JUN-22 8A1M TITLE CRYSTAL STRUCTURE OF THE TRANSPEPTIDASE LDTMT2 FROM MYCOBACTERIUM TITLE 2 TUBERCULOSIS IN COMPLEX WITH MALEIMIDE ANALOGUE 4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: L,D-TRANSPEPTIDASE 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: LDT 2,LDT(MT2); COMPND 5 EC: 2.3.2.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: LDTB, MT2594, V735_02606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS L, D-TRANSPEPTIDASE, LDTMT2, INHIBITOR, COVALENT, ANTIMICROBIAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.DE MUNNIK,P.A.LANG,J.BREM,C.J.SCHOFIELD REVDAT 3 07-FEB-24 8A1M 1 REMARK REVDAT 2 02-AUG-23 8A1M 1 JRNL REVDAT 1 14-JUN-23 8A1M 0 JRNL AUTH M.DE MUNNIK,P.A.LANG,F.DE DIOS ANTON,M.CACHO,R.H.BATES, JRNL AUTH 2 J.BREM,B.RODRIGUEZ MIQUEL,C.J.SCHOFIELD JRNL TITL HIGH-THROUGHPUT SCREEN WITH THE L,D-TRANSPEPTIDASE LDT MT2 JRNL TITL 2 OF MYCOBACTERIUM TUBERCULOSIS REVEALS NOVEL CLASSES OF JRNL TITL 3 COVALENTLY REACTING INHIBITORS. JRNL REF CHEM SCI V. 14 7262 2023 JRNL REFN ISSN 2041-6520 JRNL PMID 37416715 JRNL DOI 10.1039/D2SC06858C REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 38115 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1948 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 48.6600 - 5.5400 1.00 2686 140 0.1971 0.1980 REMARK 3 2 5.5400 - 4.4000 1.00 2642 150 0.1501 0.1776 REMARK 3 3 4.4000 - 3.8400 0.95 2494 128 0.1842 0.2109 REMARK 3 4 3.8400 - 3.4900 0.93 2477 122 0.2337 0.2762 REMARK 3 5 3.4900 - 3.2400 0.98 2529 151 0.2349 0.2551 REMARK 3 6 3.2400 - 3.0500 0.99 2621 129 0.2254 0.2695 REMARK 3 7 3.0500 - 2.9000 1.00 2596 139 0.2361 0.2676 REMARK 3 8 2.9000 - 2.7700 0.99 2612 151 0.2563 0.3197 REMARK 3 9 2.7700 - 2.6700 0.99 2563 159 0.2890 0.3523 REMARK 3 10 2.6700 - 2.5700 0.99 2593 135 0.2861 0.3333 REMARK 3 11 2.5700 - 2.4900 0.99 2597 145 0.2755 0.2814 REMARK 3 12 2.4900 - 2.4200 0.99 2586 134 0.2836 0.3243 REMARK 3 13 2.4200 - 2.3600 0.99 2566 124 0.2939 0.3840 REMARK 3 14 2.3600 - 2.3000 0.99 2605 141 0.3024 0.3288 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.020 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.25 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 55 THROUGH 144 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.3915-110.7413 0.2600 REMARK 3 T TENSOR REMARK 3 T11: 0.3020 T22: 0.4296 REMARK 3 T33: 0.3484 T12: 0.0323 REMARK 3 T13: 0.0401 T23: 0.0306 REMARK 3 L TENSOR REMARK 3 L11: 2.3543 L22: 6.7377 REMARK 3 L33: 8.7868 L12: 1.0293 REMARK 3 L13: -0.2380 L23: 2.3835 REMARK 3 S TENSOR REMARK 3 S11: 0.0043 S12: -0.0161 S13: -0.0071 REMARK 3 S21: 0.0557 S22: -0.0834 S23: 0.3761 REMARK 3 S31: 0.1625 S32: -0.3040 S33: 0.0411 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 145 THROUGH 407 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1777 -94.1104 44.4794 REMARK 3 T TENSOR REMARK 3 T11: 0.3862 T22: 0.2434 REMARK 3 T33: 0.3604 T12: 0.0200 REMARK 3 T13: 0.0298 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 1.7724 L22: 1.0535 REMARK 3 L33: 3.0671 L12: 0.1195 REMARK 3 L13: 0.1708 L23: 0.0021 REMARK 3 S TENSOR REMARK 3 S11: 0.0463 S12: -0.1146 S13: 0.0521 REMARK 3 S21: -0.1334 S22: -0.0482 S23: -0.1136 REMARK 3 S31: -0.3420 S32: 0.1941 S33: -0.0020 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 57 THROUGH 122 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7600 -77.8327 -33.5959 REMARK 3 T TENSOR REMARK 3 T11: 0.2697 T22: 0.2207 REMARK 3 T33: 0.3426 T12: 0.0236 REMARK 3 T13: 0.0272 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 5.6575 L22: 7.8226 REMARK 3 L33: 6.3482 L12: 3.1584 REMARK 3 L13: 0.3854 L23: -1.8085 REMARK 3 S TENSOR REMARK 3 S11: 0.2176 S12: -0.1873 S13: 0.3913 REMARK 3 S21: 0.1809 S22: -0.1291 S23: 0.0248 REMARK 3 S31: -0.1240 S32: -0.0850 S33: -0.0650 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 123 THROUGH 212 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.1922 -89.2646 -14.0748 REMARK 3 T TENSOR REMARK 3 T11: 0.3052 T22: 0.5020 REMARK 3 T33: 0.3712 T12: 0.1053 REMARK 3 T13: 0.0221 T23: 0.0168 REMARK 3 L TENSOR REMARK 3 L11: 0.2182 L22: 2.1895 REMARK 3 L33: 4.5171 L12: -0.7347 REMARK 3 L13: 0.3201 L23: -1.3257 REMARK 3 S TENSOR REMARK 3 S11: -0.1248 S12: -0.1918 S13: -0.0103 REMARK 3 S21: 0.2527 S22: 0.3885 S23: 0.1395 REMARK 3 S31: 0.1946 S32: 0.0423 S33: -0.2311 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 213 THROUGH 289 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.1841 -91.4305 9.0922 REMARK 3 T TENSOR REMARK 3 T11: 0.6033 T22: 0.4897 REMARK 3 T33: 0.4637 T12: 0.2366 REMARK 3 T13: -0.0991 T23: -0.0177 REMARK 3 L TENSOR REMARK 3 L11: 1.0576 L22: 0.3431 REMARK 3 L33: 7.0985 L12: 0.5977 REMARK 3 L13: -0.3635 L23: 0.4147 REMARK 3 S TENSOR REMARK 3 S11: -0.0158 S12: -0.1414 S13: -0.0385 REMARK 3 S21: 0.3501 S22: 0.1214 S23: -0.1418 REMARK 3 S31: 0.1030 S32: 0.0202 S33: -0.0570 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 290 THROUGH 334 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.3534 -97.8164 14.6973 REMARK 3 T TENSOR REMARK 3 T11: 0.8158 T22: 0.7331 REMARK 3 T33: 0.4987 T12: 0.1949 REMARK 3 T13: -0.0246 T23: -0.0406 REMARK 3 L TENSOR REMARK 3 L11: 3.9244 L22: 0.3027 REMARK 3 L33: 0.0305 L12: 1.0241 REMARK 3 L13: -0.0007 L23: 0.0460 REMARK 3 S TENSOR REMARK 3 S11: 0.2563 S12: 0.2547 S13: -0.3794 REMARK 3 S21: 0.0637 S22: -0.1276 S23: 0.1156 REMARK 3 S31: -0.0361 S32: -0.5109 S33: -0.1409 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 335 THROUGH 368 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.3050 -94.7156 25.3026 REMARK 3 T TENSOR REMARK 3 T11: 0.9413 T22: 0.7466 REMARK 3 T33: 0.4270 T12: 0.1697 REMARK 3 T13: -0.0147 T23: 0.0546 REMARK 3 L TENSOR REMARK 3 L11: 5.1073 L22: 3.8192 REMARK 3 L33: 0.0628 L12: 1.3532 REMARK 3 L13: -0.2077 L23: -0.4275 REMARK 3 S TENSOR REMARK 3 S11: 0.1151 S12: -0.4859 S13: -0.2146 REMARK 3 S21: 0.4222 S22: -0.0776 S23: 0.3935 REMARK 3 S31: 0.0892 S32: -0.5293 S33: -0.0101 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 369 THROUGH 407 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.6102 -99.7791 8.3017 REMARK 3 T TENSOR REMARK 3 T11: 0.6855 T22: 0.6522 REMARK 3 T33: 0.4794 T12: 0.3612 REMARK 3 T13: -0.0916 T23: -0.0271 REMARK 3 L TENSOR REMARK 3 L11: 2.1199 L22: 3.3836 REMARK 3 L33: 4.8981 L12: 1.0587 REMARK 3 L13: -1.1683 L23: 1.7995 REMARK 3 S TENSOR REMARK 3 S11: 0.2365 S12: 0.2359 S13: -0.2123 REMARK 3 S21: 0.1730 S22: -0.0564 S23: -0.4205 REMARK 3 S31: 0.3992 S32: 0.0306 S33: -0.2074 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 8A1M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1292123404. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JUL-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38184 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 48.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.13300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 1.21900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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: 6RRM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM NITRATE, 20% PEG 3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 47.53500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 GLN A 54 REMARK 465 ALA A 408 REMARK 465 GLN B 54 REMARK 465 SER B 55 REMARK 465 ASP B 56 REMARK 465 ALA B 408 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 LEU A 57 CG CD1 CD2 REMARK 470 VAL A 59 CG2 REMARK 470 LYS A 61 CG CD CE NZ REMARK 470 VAL A 71 CG1 CG2 REMARK 470 VAL A 87 CG1 REMARK 470 ARG A 99 NE CZ NH1 NH2 REMARK 470 LEU A 105 CD1 REMARK 470 ARG A 122 NH1 NH2 REMARK 470 ARG A 123 CZ NH1 NH2 REMARK 470 LEU A 133 CD1 REMARK 470 LEU A 141 CD1 CD2 REMARK 470 LYS A 189 CD CE NZ REMARK 470 LEU A 203 CD1 REMARK 470 LYS A 299 CG CD CE NZ REMARK 470 LEU B 57 CG CD1 CD2 REMARK 470 LEU B 58 CG CD1 CD2 REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 ARG B 123 CZ NH1 NH2 REMARK 470 LEU B 133 CG CD1 CD2 REMARK 470 LYS B 186 NZ REMARK 470 LYS B 189 CG CD CE NZ REMARK 470 LEU B 203 CD1 REMARK 470 LYS B 217 CG CD CE NZ REMARK 470 LYS B 282 NZ REMARK 470 THR B 285 CG2 REMARK 470 VAL B 294 CG1 REMARK 470 LYS B 299 CD CE NZ REMARK 470 ILE B 301 CD1 REMARK 470 THR B 307 OG1 CG2 REMARK 470 ASN B 313 CG OD1 ND2 REMARK 470 THR B 320 OG1 CG2 REMARK 470 VAL B 322 CG2 REMARK 470 VAL B 342 CG1 CG2 REMARK 470 VAL B 369 CG1 CG2 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 MET A 280 -159.54 -102.88 REMARK 500 ASN A 313 53.14 -92.17 REMARK 500 HIS A 347 -60.02 -138.67 REMARK 500 THR A 350 11.83 -148.18 REMARK 500 ASN A 405 44.43 -144.33 REMARK 500 ASN B 227 62.50 -104.80 REMARK 500 MET B 280 -166.23 -100.24 REMARK 500 HIS B 347 -56.85 -135.99 REMARK 500 THR B 350 -4.14 -140.16 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 B 775 DISTANCE = 6.31 ANGSTROMS REMARK 525 HOH B 776 DISTANCE = 6.32 ANGSTROMS REMARK 525 HOH B 777 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH B 778 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH B 779 DISTANCE = 7.40 ANGSTROMS DBREF 8A1M A 56 408 UNP O53223 LDT2_MYCTO 56 408 DBREF 8A1M B 56 408 UNP O53223 LDT2_MYCTO 56 408 SEQADV 8A1M GLN A 54 UNP O53223 EXPRESSION TAG SEQADV 8A1M SER A 55 UNP O53223 EXPRESSION TAG SEQADV 8A1M GLN B 54 UNP O53223 EXPRESSION TAG SEQADV 8A1M SER B 55 UNP O53223 EXPRESSION TAG SEQRES 1 A 355 GLN SER ASP LEU LEU VAL PRO LYS LEU THR ALA SER VAL SEQRES 2 A 355 THR ASP GLY ALA VAL GLY VAL THR VAL ASP ALA PRO VAL SEQRES 3 A 355 SER VAL THR ALA ALA ASP GLY VAL LEU ALA ALA VAL THR SEQRES 4 A 355 MET VAL ASN ASP ASN GLY ARG PRO VAL ALA GLY ARG LEU SEQRES 5 A 355 SER PRO ASP GLY LEU ARG TRP SER THR THR GLU GLN LEU SEQRES 6 A 355 GLY TYR ASN ARG ARG TYR THR LEU ASN ALA THR ALA LEU SEQRES 7 A 355 GLY LEU GLY GLY ALA ALA THR ARG GLN LEU THR PHE GLN SEQRES 8 A 355 THR SER SER PRO ALA HIS LEU THR MET PRO TYR VAL MET SEQRES 9 A 355 PRO GLY ASP GLY GLU VAL VAL GLY VAL GLY GLU PRO VAL SEQRES 10 A 355 ALA ILE ARG PHE ASP GLU ASN ILE ALA ASP ARG GLY ALA SEQRES 11 A 355 ALA GLU LYS ALA ILE LYS ILE THR THR ASN PRO PRO VAL SEQRES 12 A 355 GLU GLY ALA PHE TYR TRP LEU ASN ASN ARG GLU VAL ARG SEQRES 13 A 355 TRP ARG PRO GLU HIS PHE TRP LYS PRO GLY THR ALA VAL SEQRES 14 A 355 ASP VAL ALA VAL ASN THR TYR GLY VAL ASP LEU GLY GLU SEQRES 15 A 355 GLY MET PHE GLY GLU ASP ASN VAL GLN THR HIS PHE THR SEQRES 16 A 355 ILE GLY ASP GLU VAL ILE ALA THR ALA ASP ASP ASN THR SEQRES 17 A 355 LYS ILE LEU THR VAL ARG VAL ASN GLY GLU VAL VAL LYS SEQRES 18 A 355 SER MET PRO THR SER MET GLY LYS ASP SER THR PRO THR SEQRES 19 A 355 ALA ASN GLY ILE TYR ILE VAL GLY SER ARG TYR LYS HIS SEQRES 20 A 355 ILE ILE MET ASP SER SER THR TYR GLY VAL PRO VAL ASN SEQRES 21 A 355 SER PRO ASN GLY TYR ARG THR ASP VAL ASP TRP ALA THR SEQRES 22 A 355 GLN ILE SER TYR SER GLY VAL PHE VAL HIS SER ALA PRO SEQRES 23 A 355 TRP SER VAL GLY ALA GLN GLY HIS THR ASN THR SER HIS SEQRES 24 A 355 GLY CYS LEU ASN VAL SER PRO SER ASN ALA GLN TRP PHE SEQRES 25 A 355 TYR ASP HIS VAL LYS ARG GLY ASP ILE VAL GLU VAL VAL SEQRES 26 A 355 ASN THR VAL GLY GLY THR LEU PRO GLY ILE ASP GLY LEU SEQRES 27 A 355 GLY ASP TRP ASN ILE PRO TRP ASP GLN TRP ARG ALA GLY SEQRES 28 A 355 ASN ALA LYS ALA SEQRES 1 B 355 GLN SER ASP LEU LEU VAL PRO LYS LEU THR ALA SER VAL SEQRES 2 B 355 THR ASP GLY ALA VAL GLY VAL THR VAL ASP ALA PRO VAL SEQRES 3 B 355 SER VAL THR ALA ALA ASP GLY VAL LEU ALA ALA VAL THR SEQRES 4 B 355 MET VAL ASN ASP ASN GLY ARG PRO VAL ALA GLY ARG LEU SEQRES 5 B 355 SER PRO ASP GLY LEU ARG TRP SER THR THR GLU GLN LEU SEQRES 6 B 355 GLY TYR ASN ARG ARG TYR THR LEU ASN ALA THR ALA LEU SEQRES 7 B 355 GLY LEU GLY GLY ALA ALA THR ARG GLN LEU THR PHE GLN SEQRES 8 B 355 THR SER SER PRO ALA HIS LEU THR MET PRO TYR VAL MET SEQRES 9 B 355 PRO GLY ASP GLY GLU VAL VAL GLY VAL GLY GLU PRO VAL SEQRES 10 B 355 ALA ILE ARG PHE ASP GLU ASN ILE ALA ASP ARG GLY ALA SEQRES 11 B 355 ALA GLU LYS ALA ILE LYS ILE THR THR ASN PRO PRO VAL SEQRES 12 B 355 GLU GLY ALA PHE TYR TRP LEU ASN ASN ARG GLU VAL ARG SEQRES 13 B 355 TRP ARG PRO GLU HIS PHE TRP LYS PRO GLY THR ALA VAL SEQRES 14 B 355 ASP VAL ALA VAL ASN THR TYR GLY VAL ASP LEU GLY GLU SEQRES 15 B 355 GLY MET PHE GLY GLU ASP ASN VAL GLN THR HIS PHE THR SEQRES 16 B 355 ILE GLY ASP GLU VAL ILE ALA THR ALA ASP ASP ASN THR SEQRES 17 B 355 LYS ILE LEU THR VAL ARG VAL ASN GLY GLU VAL VAL LYS SEQRES 18 B 355 SER MET PRO THR SER MET GLY LYS ASP SER THR PRO THR SEQRES 19 B 355 ALA ASN GLY ILE TYR ILE VAL GLY SER ARG TYR LYS HIS SEQRES 20 B 355 ILE ILE MET ASP SER SER THR TYR GLY VAL PRO VAL ASN SEQRES 21 B 355 SER PRO ASN GLY TYR ARG THR ASP VAL ASP TRP ALA THR SEQRES 22 B 355 GLN ILE SER TYR SER GLY VAL PHE VAL HIS SER ALA PRO SEQRES 23 B 355 TRP SER VAL GLY ALA GLN GLY HIS THR ASN THR SER HIS SEQRES 24 B 355 GLY CYS LEU ASN VAL SER PRO SER ASN ALA GLN TRP PHE SEQRES 25 B 355 TYR ASP HIS VAL LYS ARG GLY ASP ILE VAL GLU VAL VAL SEQRES 26 B 355 ASN THR VAL GLY GLY THR LEU PRO GLY ILE ASP GLY LEU SEQRES 27 B 355 GLY ASP TRP ASN ILE PRO TRP ASP GLN TRP ARG ALA GLY SEQRES 28 B 355 ASN ALA LYS ALA HET KUL A 501 18 HET EDO A 502 4 HET DMS A 503 4 HET DMS A 504 4 HET GOL A 505 6 HET EDO A 506 4 HET DMS A 507 4 HET NA A 508 1 HET NA A 509 1 HET CL A 510 1 HET CL A 511 1 HET CL A 512 1 HET CL A 513 1 HET KUL B 501 18 HET DMS B 502 4 HET DMS B 503 4 HET EDO B 504 4 HET NA B 505 1 HETNAM KUL 1-(2-FLUORANYL-5-METHYLSULFONYL-PHENYL)PYRROLIDINE-2,5- HETNAM 2 KUL DIONE HETNAM EDO 1,2-ETHANEDIOL HETNAM DMS DIMETHYL SULFOXIDE HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETSYN KUL 1-(2-FLUORO-5-METHYLSULFONYLPHENYL)PYRROLE-2,5-DIONE HETSYN 2 KUL (REACTED FORM OF) HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 KUL 2(C11 H10 F N O4 S) FORMUL 4 EDO 3(C2 H6 O2) FORMUL 5 DMS 5(C2 H6 O S) FORMUL 7 GOL C3 H8 O3 FORMUL 10 NA 3(NA 1+) FORMUL 12 CL 4(CL 1-) FORMUL 21 HOH *381(H2 O) HELIX 1 AA1 ASP A 180 ALA A 187 1 8 HELIX 2 AA2 SER A 306 GLY A 309 5 4 HELIX 3 AA3 PRO A 339 VAL A 342 5 4 HELIX 4 AA4 SER A 358 VAL A 369 1 12 HELIX 5 AA5 GLY A 392 ILE A 396 5 5 HELIX 6 AA6 PRO A 397 GLY A 404 1 8 HELIX 7 AA7 ASP B 180 ALA B 187 1 8 HELIX 8 AA8 SER B 306 GLY B 309 5 4 HELIX 9 AA9 PRO B 339 VAL B 342 5 4 HELIX 10 AB1 SER B 358 VAL B 369 1 12 HELIX 11 AB2 GLY B 392 ILE B 396 5 5 HELIX 12 AB3 PRO B 397 GLY B 404 1 8 SHEET 1 AA1 4 LYS A 61 ALA A 64 0 SHEET 2 AA1 4 SER A 80 ALA A 84 -1 O THR A 82 N THR A 63 SHEET 3 AA1 4 ARG A 111 THR A 114 -1 O TRP A 112 N VAL A 81 SHEET 4 AA1 4 GLY A 103 LEU A 105 -1 N ARG A 104 O SER A 113 SHEET 1 AA2 3 VAL A 87 VAL A 94 0 SHEET 2 AA2 3 ARG A 123 GLY A 132 -1 O THR A 125 N VAL A 94 SHEET 3 AA2 3 GLY A 135 GLN A 144 -1 O LEU A 141 N LEU A 126 SHEET 1 AA3 2 HIS A 150 THR A 152 0 SHEET 2 AA3 2 MET A 237 GLY A 239 1 O PHE A 238 N HIS A 150 SHEET 1 AA4 4 PRO A 154 MET A 157 0 SHEET 2 AA4 4 VAL A 170 PHE A 174 -1 O ARG A 173 N TYR A 155 SHEET 3 AA4 4 GLU A 207 PRO A 212 -1 O TRP A 210 N VAL A 170 SHEET 4 AA4 4 GLY A 198 TRP A 202 -1 N TYR A 201 O ARG A 209 SHEET 1 AA5 4 VAL A 163 VAL A 164 0 SHEET 2 AA5 4 VAL A 243 ILE A 249 1 O THR A 248 N VAL A 164 SHEET 3 AA5 4 ALA A 221 VAL A 226 -1 N VAL A 224 O THR A 245 SHEET 4 AA5 4 ILE A 188 ASN A 193 -1 N ASN A 193 O ALA A 221 SHEET 1 AA6 5 GLU A 271 PRO A 277 0 SHEET 2 AA6 5 ILE A 263 VAL A 268 -1 N LEU A 264 O MET A 276 SHEET 3 AA6 5 VAL A 253 ASP A 258 -1 N THR A 256 O THR A 265 SHEET 4 AA6 5 ILE A 374 VAL A 378 1 O GLU A 376 N ALA A 257 SHEET 5 AA6 5 GLY A 290 ILE A 293 -1 N TYR A 292 O VAL A 375 SHEET 1 AA7 4 ARG A 297 ASP A 304 0 SHEET 2 AA7 4 ARG A 319 GLN A 327 -1 O ALA A 325 N TYR A 298 SHEET 3 AA7 4 PHE A 334 SER A 337 -1 O SER A 337 N ASP A 323 SHEET 4 AA7 4 LEU A 355 VAL A 357 1 O LEU A 355 N PHE A 334 SHEET 1 AA8 4 LYS B 61 ALA B 64 0 SHEET 2 AA8 4 SER B 80 ALA B 84 -1 O THR B 82 N THR B 63 SHEET 3 AA8 4 ARG B 111 THR B 114 -1 O TRP B 112 N VAL B 81 SHEET 4 AA8 4 GLY B 103 LEU B 105 -1 N ARG B 104 O SER B 113 SHEET 1 AA9 3 VAL B 87 VAL B 94 0 SHEET 2 AA9 3 ARG B 123 GLY B 132 -1 O THR B 129 N ALA B 89 SHEET 3 AA9 3 GLY B 135 GLN B 144 -1 O ALA B 137 N ALA B 130 SHEET 1 AB1 2 HIS B 150 THR B 152 0 SHEET 2 AB1 2 MET B 237 GLY B 239 1 O PHE B 238 N HIS B 150 SHEET 1 AB2 4 PRO B 154 MET B 157 0 SHEET 2 AB2 4 VAL B 170 PHE B 174 -1 O ARG B 173 N TYR B 155 SHEET 3 AB2 4 GLU B 207 PRO B 212 -1 O TRP B 210 N VAL B 170 SHEET 4 AB2 4 GLY B 198 TRP B 202 -1 N TYR B 201 O ARG B 209 SHEET 1 AB3 4 VAL B 163 VAL B 164 0 SHEET 2 AB3 4 VAL B 243 ILE B 249 1 O THR B 248 N VAL B 164 SHEET 3 AB3 4 ALA B 221 VAL B 226 -1 N VAL B 226 O VAL B 243 SHEET 4 AB3 4 ILE B 188 ASN B 193 -1 N LYS B 189 O ALA B 225 SHEET 1 AB4 5 GLU B 271 PRO B 277 0 SHEET 2 AB4 5 ILE B 263 VAL B 268 -1 N VAL B 268 O GLU B 271 SHEET 3 AB4 5 VAL B 253 ASP B 258 -1 N THR B 256 O THR B 265 SHEET 4 AB4 5 ILE B 374 VAL B 378 1 O GLU B 376 N ALA B 257 SHEET 5 AB4 5 GLY B 290 ILE B 293 -1 N TYR B 292 O VAL B 375 SHEET 1 AB5 4 ARG B 297 ASP B 304 0 SHEET 2 AB5 4 ARG B 319 GLN B 327 -1 O TRP B 324 N LYS B 299 SHEET 3 AB5 4 PHE B 334 SER B 337 -1 O VAL B 335 N THR B 326 SHEET 4 AB5 4 LEU B 355 VAL B 357 1 O LEU B 355 N PHE B 334 LINK SG CYS A 354 C10 KUL A 501 1555 1555 1.79 LINK SG CYS B 354 C10 KUL B 501 1555 1555 1.79 CISPEP 1 MET A 157 PRO A 158 0 0.68 CISPEP 2 ASN A 193 PRO A 194 0 1.48 CISPEP 3 MET B 157 PRO B 158 0 2.05 CISPEP 4 MET B 157 PRO B 158 0 -1.60 CISPEP 5 ASN B 193 PRO B 194 0 1.23 CRYST1 61.700 95.070 75.450 90.00 92.22 90.00 P 1 21 1 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 0.016207 0.000000 0.000628 0.00000 SCALE2 0.000000 0.010519 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013264 0.00000