HEADER ANTIMICROBIAL PROTEIN 01-JUN-22 8A1N TITLE CRYSTAL STRUCTURE OF THE TRANSPEPTIDASE LDTMT2 FROM MYCOBACTERIUM TITLE 2 TUBERCULOSIS IN COMPLEX WITH FUMARYL AMIDE ANALOGUE 13 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, INHIBITOR, COVALENT, ANTIMICROBIAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.DE MUNNIK,P.A.LANG,J.BREM,C.J.SCHOFIELD REVDAT 3 07-FEB-24 8A1N 1 REMARK REVDAT 2 02-AUG-23 8A1N 1 JRNL REVDAT 1 14-JUN-23 8A1N 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. 2.05 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 53603 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.750 REMARK 3 FREE R VALUE TEST SET COUNT : 2547 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 75.2900 - 5.3700 0.99 2884 160 0.1937 0.2110 REMARK 3 2 5.3700 - 4.2600 1.00 2886 134 0.1410 0.1736 REMARK 3 3 4.2600 - 3.7200 1.00 2860 134 0.1575 0.2193 REMARK 3 4 3.7200 - 3.3800 1.00 2858 122 0.1830 0.2154 REMARK 3 5 3.3800 - 3.1400 1.00 2890 102 0.1897 0.2197 REMARK 3 6 3.1400 - 2.9500 1.00 2832 143 0.2031 0.2704 REMARK 3 7 2.9500 - 2.8100 1.00 2844 137 0.2123 0.2969 REMARK 3 8 2.8100 - 2.6800 1.00 2816 167 0.2158 0.3301 REMARK 3 9 2.6800 - 2.5800 1.00 2822 147 0.2146 0.2514 REMARK 3 10 2.5800 - 2.4900 1.00 2820 146 0.2135 0.2406 REMARK 3 11 2.4900 - 2.4100 1.00 2844 141 0.2138 0.2931 REMARK 3 12 2.4100 - 2.3500 1.00 2808 145 0.2170 0.2523 REMARK 3 13 2.3500 - 2.2800 1.00 2832 134 0.2252 0.2482 REMARK 3 14 2.2800 - 2.2300 1.00 2866 133 0.2602 0.3009 REMARK 3 15 2.2300 - 2.1800 1.00 2822 141 0.2451 0.2919 REMARK 3 16 2.1800 - 2.1300 1.00 2790 181 0.2640 0.2967 REMARK 3 17 2.1300 - 2.0900 1.00 2776 150 0.2645 0.3129 REMARK 3 18 2.0900 - 2.0500 0.98 2806 130 0.2696 0.3057 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.620 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.37 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 58 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.3543-111.0884 1.2651 REMARK 3 T TENSOR REMARK 3 T11: 0.2981 T22: 0.4743 REMARK 3 T33: 0.3372 T12: 0.0650 REMARK 3 T13: -0.0269 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 2.6652 L22: 3.2210 REMARK 3 L33: 4.7479 L12: 1.6670 REMARK 3 L13: -1.4095 L23: 2.0677 REMARK 3 S TENSOR REMARK 3 S11: 0.0270 S12: -0.1566 S13: -0.1891 REMARK 3 S21: -0.1703 S22: -0.1511 S23: 0.0290 REMARK 3 S31: 0.0344 S32: -0.3408 S33: 0.1989 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.0546-105.3855 6.3927 REMARK 3 T TENSOR REMARK 3 T11: 0.2463 T22: 0.4913 REMARK 3 T33: 0.3631 T12: 0.0429 REMARK 3 T13: -0.0004 T23: 0.0180 REMARK 3 L TENSOR REMARK 3 L11: 0.0555 L22: 3.0760 REMARK 3 L33: 8.8499 L12: 0.0273 REMARK 3 L13: -0.5453 L23: 3.3224 REMARK 3 S TENSOR REMARK 3 S11: 0.0041 S12: 0.1651 S13: 0.0162 REMARK 3 S21: -0.3938 S22: 0.3452 S23: -0.0199 REMARK 3 S31: -0.2660 S32: 0.0967 S33: -0.3259 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 158 THROUGH 289 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.9036 -96.5561 39.6721 REMARK 3 T TENSOR REMARK 3 T11: 0.2394 T22: 0.2091 REMARK 3 T33: 0.3066 T12: 0.0495 REMARK 3 T13: 0.0057 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.9864 L22: 0.9568 REMARK 3 L33: 3.6381 L12: 0.1367 REMARK 3 L13: 0.6672 L23: 0.6729 REMARK 3 S TENSOR REMARK 3 S11: 0.1241 S12: -0.0168 S13: -0.0506 REMARK 3 S21: -0.0578 S22: 0.0007 S23: -0.0404 REMARK 3 S31: 0.0494 S32: 0.0518 S33: -0.1229 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 290 THROUGH 407 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.7270 -91.0246 52.6381 REMARK 3 T TENSOR REMARK 3 T11: 0.2468 T22: 0.2358 REMARK 3 T33: 0.2435 T12: -0.0048 REMARK 3 T13: 0.0168 T23: -0.0165 REMARK 3 L TENSOR REMARK 3 L11: 2.8207 L22: 1.3717 REMARK 3 L33: 2.7709 L12: -0.4295 REMARK 3 L13: 0.8641 L23: -0.6284 REMARK 3 S TENSOR REMARK 3 S11: 0.0899 S12: -0.2623 S13: 0.1642 REMARK 3 S21: 0.0338 S22: -0.1188 S23: -0.1368 REMARK 3 S31: -0.1606 S32: 0.2509 S33: 0.0299 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 58 THROUGH 122 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7046 -77.8063 -33.3018 REMARK 3 T TENSOR REMARK 3 T11: 0.1915 T22: 0.2310 REMARK 3 T33: 0.3059 T12: 0.0198 REMARK 3 T13: 0.0015 T23: -0.0434 REMARK 3 L TENSOR REMARK 3 L11: 2.3191 L22: 7.6082 REMARK 3 L33: 4.7868 L12: 1.7082 REMARK 3 L13: 0.6833 L23: -2.2215 REMARK 3 S TENSOR REMARK 3 S11: 0.1295 S12: -0.2831 S13: 0.1682 REMARK 3 S21: 0.1250 S22: -0.2222 S23: 0.0440 REMARK 3 S31: -0.1307 S32: -0.0996 S33: 0.0820 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 123 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.4257 -84.0668 -31.0033 REMARK 3 T TENSOR REMARK 3 T11: 0.1852 T22: 0.4054 REMARK 3 T33: 0.3295 T12: 0.0135 REMARK 3 T13: -0.0332 T23: 0.0190 REMARK 3 L TENSOR REMARK 3 L11: 0.1894 L22: 3.1693 REMARK 3 L33: 5.5678 L12: 0.5495 REMARK 3 L13: -0.7217 L23: -2.4327 REMARK 3 S TENSOR REMARK 3 S11: -0.0444 S12: 0.0282 S13: 0.0697 REMARK 3 S21: -0.3107 S22: 0.3100 S23: 0.1925 REMARK 3 S31: 0.1280 S32: -0.2707 S33: -0.1643 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 158 THROUGH 289 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7275 -91.9221 3.3365 REMARK 3 T TENSOR REMARK 3 T11: 0.3682 T22: 0.4445 REMARK 3 T33: 0.3552 T12: 0.1576 REMARK 3 T13: -0.0255 T23: -0.0167 REMARK 3 L TENSOR REMARK 3 L11: 0.4663 L22: 0.1504 REMARK 3 L33: 4.3920 L12: 0.3160 REMARK 3 L13: 0.5569 L23: 0.3580 REMARK 3 S TENSOR REMARK 3 S11: 0.1004 S12: 0.1900 S13: -0.0453 REMARK 3 S21: 0.1100 S22: 0.1430 S23: -0.0719 REMARK 3 S31: 0.2235 S32: 0.5542 S33: -0.2315 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 290 THROUGH 407 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.1147 -97.2760 15.9926 REMARK 3 T TENSOR REMARK 3 T11: 0.4970 T22: 0.3811 REMARK 3 T33: 0.3450 T12: 0.1323 REMARK 3 T13: -0.0973 T23: -0.0328 REMARK 3 L TENSOR REMARK 3 L11: 2.3023 L22: 1.2311 REMARK 3 L33: 2.5274 L12: -0.2670 REMARK 3 L13: 0.2299 L23: 0.4615 REMARK 3 S TENSOR REMARK 3 S11: 0.3108 S12: 0.2539 S13: -0.3175 REMARK 3 S21: 0.0452 S22: -0.2171 S23: 0.0175 REMARK 3 S31: 0.4920 S32: -0.0254 S33: -0.0898 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 8A1N 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_1292123401. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-21 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 : 53680 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 75.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.82100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 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 (%): 56.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 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 47.31650 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 SER A 55 REMARK 465 ASP A 56 REMARK 465 LEU A 57 REMARK 465 ALA A 408 REMARK 465 GLN B 54 REMARK 465 SER B 55 REMARK 465 ASP B 56 REMARK 465 LEU B 57 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 58 CD1 CD2 REMARK 470 LYS A 61 CE NZ REMARK 470 VAL A 66 CG1 REMARK 470 VAL A 71 CG1 CG2 REMARK 470 ARG A 99 CD NE CZ NH1 NH2 REMARK 470 ARG A 123 CZ NH1 NH2 REMARK 470 LEU A 133 CD1 REMARK 470 LEU A 141 CD2 REMARK 470 LYS A 186 NZ REMARK 470 LYS A 189 CE NZ REMARK 470 LYS A 299 CD CE NZ REMARK 470 ASN A 313 CG OD1 ND2 REMARK 470 LYS A 407 CE NZ REMARK 470 LEU B 58 CD1 CD2 REMARK 470 VAL B 59 CG1 CG2 REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 THR B 63 CG2 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 NZ REMARK 470 LYS B 217 CE NZ REMARK 470 GLU B 271 OE1 OE2 REMARK 470 ARG B 297 NH1 NH2 REMARK 470 LYS B 299 CD CE NZ REMARK 470 ASN B 313 OD1 ND2 REMARK 470 VAL B 322 CG1 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 ASN A 204 -167.49 -164.05 REMARK 500 ASN A 227 68.42 -105.86 REMARK 500 HIS A 347 -56.14 -143.12 REMARK 500 ASN A 405 40.12 -152.91 REMARK 500 MET B 280 -168.40 -104.86 REMARK 500 TYR B 318 149.82 -172.50 REMARK 500 HIS B 347 -52.56 -132.83 REMARK 500 ASN B 405 40.60 -142.68 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 884 DISTANCE = 6.11 ANGSTROMS DBREF 8A1N A 56 408 UNP O53223 LDT2_MYCTO 56 408 DBREF 8A1N B 56 408 UNP O53223 LDT2_MYCTO 56 408 SEQADV 8A1N GLN A 54 UNP O53223 EXPRESSION TAG SEQADV 8A1N SER A 55 UNP O53223 EXPRESSION TAG SEQADV 8A1N GLN B 54 UNP O53223 EXPRESSION TAG SEQADV 8A1N 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 KUS A 501 14 HET GOL A 502 6 HET DMS A 503 4 HET DMS A 504 4 HET NA A 505 1 HET NA A 506 1 HET EDO B 501 4 HET DMS B 502 4 HET EDO B 503 4 HETNAM KUS (Z)-N-(4-CHLOROPHENYL)-4-OXIDANYLIDENE-BUT-2-ENAMIDE HETNAM GOL GLYCEROL HETNAM DMS DIMETHYL SULFOXIDE HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN KUS N1-(4-CHLOROPHENYL)-2-BUTENEDIAMIDE (REACTED FORM OF) HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 KUS C10 H8 CL N O2 FORMUL 4 GOL C3 H8 O3 FORMUL 5 DMS 3(C2 H6 O S) FORMUL 7 NA 2(NA 1+) FORMUL 9 EDO 2(C2 H6 O2) FORMUL 12 HOH *599(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 LEU A 131 -1 O ASN A 127 N THR A 92 SHEET 3 AA2 3 ALA A 136 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 ILE A 374 N ALA A 255 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 THR A 320 N MET A 303 SHEET 3 AA7 4 PHE A 334 SER A 337 -1 O VAL A 335 N THR A 326 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 4 ALA B 70 VAL B 73 0 SHEET 2 AA9 4 GLY B 135 THR B 145 1 O GLN B 144 N ALA B 70 SHEET 3 AA9 4 ARG B 123 GLY B 132 -1 N GLY B 132 O GLY B 135 SHEET 4 AA9 4 VAL B 87 VAL B 94 -1 N THR B 92 O ASN B 127 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 ASN B 193 O ALA B 221 SHEET 1 AB4 5 GLU B 271 PRO B 277 0 SHEET 2 AB4 5 ILE B 263 VAL B 268 -1 N LEU B 264 O MET B 276 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 KUS A 501 1555 1555 1.78 CISPEP 1 MET A 157 PRO A 158 0 1.21 CISPEP 2 ASN A 193 PRO A 194 0 0.10 CISPEP 3 MET B 157 PRO B 158 0 -0.26 CISPEP 4 ASN B 193 PRO B 194 0 1.11 CRYST1 60.929 94.633 75.356 90.00 92.35 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 0.016413 0.000000 0.000674 0.00000 SCALE2 0.000000 0.010567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013282 0.00000