HEADER HYDROLASE 26-JUN-21 7F71 TITLE CRYSTAL STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS L,D- TITLE 2 TRANSPEPTIDASE-2 (LDTMT2) WITH PEPTIDOGLYCAN SUGAR MOIETY AND TITLE 3 GLUTAMATE 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 (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 GENE: LDTB, LPPS, RV2518C, RVBD_2518C, P425_02624; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS L, D-TRANSPEPTIDASE, CYSTEINE PROTEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.KUMAR,G.LAMICHHANE REVDAT 3 29-NOV-23 7F71 1 REMARK REVDAT 2 25-MAY-22 7F71 1 JRNL REVDAT 1 11-MAY-22 7F71 0 JRNL AUTH N.AHMAD,S.DUGAD,V.CHAUHAN,S.AHMED,K.SHARMA,S.KACHHAP, JRNL AUTH 2 R.ZAIDI,W.R.BISHAI,G.LAMICHHANE,P.KUMAR JRNL TITL ALLOSTERIC COOPERATION IN BETA-LACTAM BINDING TO A JRNL TITL 2 NON-CLASSICAL TRANSPEPTIDASE. JRNL REF ELIFE V. 11 2022 JRNL REFN ESSN 2050-084X JRNL PMID 35475970 JRNL DOI 10.7554/ELIFE.73055 REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 75.5 REMARK 3 NUMBER OF REFLECTIONS : 173232 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.910 REMARK 3 FREE R VALUE TEST SET COUNT : 3308 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 29.7300 - 4.5500 0.84 7869 164 0.1684 0.1956 REMARK 3 2 4.5500 - 3.6100 0.88 8195 159 0.1352 0.1609 REMARK 3 3 3.6100 - 3.1600 0.88 8250 153 0.1447 0.1495 REMARK 3 4 3.1600 - 2.8700 0.89 8323 151 0.1560 0.1971 REMARK 3 5 2.8700 - 2.6600 0.90 8462 157 0.1689 0.1912 REMARK 3 6 2.6600 - 2.5100 0.90 8454 163 0.1666 0.2143 REMARK 3 7 2.5100 - 2.3800 0.91 8537 169 0.1626 0.2099 REMARK 3 8 2.3800 - 2.2800 0.91 8503 165 0.1651 0.2082 REMARK 3 9 2.2800 - 2.1900 0.90 8445 169 0.1628 0.2192 REMARK 3 10 2.1900 - 2.1100 0.90 8475 162 0.1627 0.1947 REMARK 3 11 2.1100 - 2.0500 0.90 8378 175 0.1631 0.1768 REMARK 3 12 2.0500 - 1.9900 0.88 8359 143 0.1697 0.2380 REMARK 3 13 1.9900 - 1.9400 0.87 8122 149 0.1721 0.2074 REMARK 3 14 1.9400 - 1.8900 0.84 7797 174 0.1800 0.2092 REMARK 3 15 1.8900 - 1.8500 0.80 7430 156 0.1823 0.2013 REMARK 3 16 1.8500 - 1.8100 0.75 7110 137 0.1892 0.2378 REMARK 3 17 1.8100 - 1.7700 0.69 6469 113 0.1949 0.1991 REMARK 3 18 1.7700 - 1.7400 0.64 5966 125 0.1958 0.2392 REMARK 3 19 1.7400 - 1.7100 0.58 5443 112 0.2011 0.2195 REMARK 3 20 1.7100 - 1.6800 0.54 5059 97 0.2098 0.2544 REMARK 3 21 1.6800 - 1.6500 0.51 4751 95 0.2115 0.2487 REMARK 3 22 1.6500 - 1.6300 0.47 4398 87 0.2247 0.3011 REMARK 3 23 1.6300 - 1.6000 0.42 3908 73 0.2318 0.2360 REMARK 3 24 1.6000 - 1.5800 0.34 3221 60 0.2367 0.2407 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) : 0.133 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.373 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.41 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.48 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 : 0.009 5444 REMARK 3 ANGLE : 1.133 7466 REMARK 3 CHIRALITY : 0.067 846 REMARK 3 PLANARITY : 0.007 981 REMARK 3 DIHEDRAL : 18.252 764 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 7F71 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1300022992. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-APR-16 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : M REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 173244 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 29.730 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : 0.04800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.57200 REMARK 200 R SYM FOR SHELL (I) : 0.55000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 5E1G REMARK 200 REMARK 200 REMARK: CRYSTAL PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% 5000MME, 200MM AMMONIUM SULFATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 46.99050 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL 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 GLY A 39 REMARK 465 HIS A 40 REMARK 465 MET A 41 REMARK 465 ALA A 42 REMARK 465 PRO A 43 REMARK 465 ILE A 44 REMARK 465 LYS A 45 REMARK 465 VAL A 46 REMARK 465 ILE A 47 REMARK 465 ALA A 48 REMARK 465 ASP A 49 REMARK 465 LYS A 50 REMARK 465 GLY A 51 REMARK 465 THR A 52 REMARK 465 PRO A 53 REMARK 465 PHE A 54 REMARK 465 ALA A 55 REMARK 465 ASP A 56 REMARK 465 ALA A 408 REMARK 465 GLY B 39 REMARK 465 HIS B 40 REMARK 465 MET B 41 REMARK 465 ALA B 42 REMARK 465 PRO B 43 REMARK 465 ILE B 44 REMARK 465 LYS B 45 REMARK 465 VAL B 46 REMARK 465 ILE B 47 REMARK 465 ALA B 48 REMARK 465 ASP B 49 REMARK 465 LYS B 50 REMARK 465 GLY B 51 REMARK 465 THR B 52 REMARK 465 PRO B 53 REMARK 465 PHE B 54 REMARK 465 ALA 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 LYS A 61 CG CD CE NZ REMARK 470 ARG A 99 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 104 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 ARG B 99 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 104 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 144 CG CD OE1 NE2 REMARK 470 LYS B 217 CG CD CE NZ REMARK 470 LYS B 299 CD CE NZ REMARK 470 LYS B 407 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HD1 HIS B 150 O HOH B 603 1.48 REMARK 500 HH11 ARG A 206 O HOH A 906 1.55 REMARK 500 HE ARG B 111 O HOH B 612 1.55 REMARK 500 O HOH A 988 O HOH A 1017 1.76 REMARK 500 O HOH A 1058 O HOH A 1289 1.87 REMARK 500 O HOH B 911 O HOH B 955 1.88 REMARK 500 O HOH A 1156 O HOH A 1278 1.89 REMARK 500 O HOH A 906 O HOH A 1274 1.92 REMARK 500 O HOH A 1211 O HOH A 1221 1.93 REMARK 500 O HOH A 1356 O HOH A 1374 1.95 REMARK 500 O HOH A 1259 O HOH A 1374 1.96 REMARK 500 O HOH B 977 O HOH B 984 1.96 REMARK 500 O HOH A 1167 O HOH A 1299 1.97 REMARK 500 O HOH B 941 O HOH B 1007 1.97 REMARK 500 O HOH A 1267 O HOH A 1299 1.97 REMARK 500 O HOH B 953 O HOH B 982 1.98 REMARK 500 O HOH A 917 O HOH A 1244 1.99 REMARK 500 O HOH A 1188 O HOH A 1305 2.00 REMARK 500 O HOH B 1019 O HOH B 1042 2.01 REMARK 500 O HOH A 945 O HOH A 1165 2.02 REMARK 500 O HOH A 1125 O HOH A 1222 2.02 REMARK 500 O HOH A 1326 O HOH A 1348 2.03 REMARK 500 O HOH A 1025 O HOH A 1091 2.03 REMARK 500 O HOH B 646 O HOH B 1005 2.03 REMARK 500 O HOH B 891 O HOH B 937 2.04 REMARK 500 O HOH B 891 O HOH B 905 2.04 REMARK 500 NH1 ARG A 123 O HOH A 901 2.04 REMARK 500 O HOH A 948 O HOH A 1305 2.04 REMARK 500 O HOH B 1068 O HOH B 1080 2.04 REMARK 500 O HOH A 1255 O HOH B 851 2.04 REMARK 500 O HOH A 1103 O HOH A 1252 2.04 REMARK 500 O HOH A 1218 O HOH A 1306 2.06 REMARK 500 O HOH B 902 O HOH B 990 2.06 REMARK 500 O HOH A 1033 O HOH A 1364 2.06 REMARK 500 OE2 GLU B 162 O HOH B 601 2.06 REMARK 500 O HOH A 1060 O HOH A 1093 2.07 REMARK 500 O HOH B 789 O HOH B 920 2.07 REMARK 500 O HOH B 827 O HOH B 937 2.09 REMARK 500 O HOH B 925 O HOH B 943 2.09 REMARK 500 OXT GLU B 502 O HOH B 602 2.11 REMARK 500 O HOH B 919 O HOH B 999 2.12 REMARK 500 O HOH A 1138 O HOH B 936 2.12 REMARK 500 O HOH B 808 O HOH B 841 2.12 REMARK 500 OD2 ASP B 96 NH1 ARG B 122 2.12 REMARK 500 O HOH A 1248 O HOH A 1378 2.12 REMARK 500 O HOH A 1171 O HOH A 1356 2.12 REMARK 500 O HOH B 793 O HOH B 963 2.13 REMARK 500 O HOH A 1082 O HOH A 1254 2.14 REMARK 500 O HOH A 1202 O HOH A 1319 2.14 REMARK 500 O HOH B 905 O HOH B 937 2.15 REMARK 500 REMARK 500 THIS ENTRY HAS 63 CLOSE CONTACTS REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1081 O HOH A 1282 1556 2.03 REMARK 500 O HOH A 1082 O HOH B 1011 1655 2.04 REMARK 500 O HOH A 1270 O HOH B 1054 1655 2.04 REMARK 500 O HOH A 1196 O HOH B 924 1554 2.10 REMARK 500 O HOH A 1131 O HOH B 976 1654 2.10 REMARK 500 O HOH B 834 O HOH B 956 1554 2.16 REMARK 500 O HOH A 1398 O HOH B 978 2548 2.19 REMARK 500 O HOH A 1254 O HOH B 607 1655 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU B 57 CA - CB - CG ANGL. DEV. = 25.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 227 66.22 -102.12 REMARK 500 HIS A 347 -55.06 -135.23 REMARK 500 ASN A 405 36.98 -149.47 REMARK 500 ASN B 227 67.50 -102.79 REMARK 500 MET B 280 -161.92 -100.34 REMARK 500 HIS B 347 -49.78 -134.12 REMARK 500 ASN B 405 38.23 -150.09 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 A1405 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A1406 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH A1407 DISTANCE = 7.10 ANGSTROMS REMARK 525 HOH B1081 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH B1082 DISTANCE = 7.40 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 BGC A 803 DBREF 7F71 A 42 408 UNP I6Y9J2 LDT2_MYCTU 42 408 DBREF 7F71 B 42 408 UNP I6Y9J2 LDT2_MYCTU 42 408 SEQADV 7F71 GLY A 39 UNP I6Y9J2 EXPRESSION TAG SEQADV 7F71 HIS A 40 UNP I6Y9J2 EXPRESSION TAG SEQADV 7F71 MET A 41 UNP I6Y9J2 EXPRESSION TAG SEQADV 7F71 GLY B 39 UNP I6Y9J2 EXPRESSION TAG SEQADV 7F71 HIS B 40 UNP I6Y9J2 EXPRESSION TAG SEQADV 7F71 MET B 41 UNP I6Y9J2 EXPRESSION TAG SEQRES 1 A 370 GLY HIS MET ALA PRO ILE LYS VAL ILE ALA ASP LYS GLY SEQRES 2 A 370 THR PRO PHE ALA ASP LEU LEU VAL PRO LYS LEU THR ALA SEQRES 3 A 370 SER VAL THR ASP GLY ALA VAL GLY VAL THR VAL ASP ALA SEQRES 4 A 370 PRO VAL SER VAL THR ALA ALA ASP GLY VAL LEU ALA ALA SEQRES 5 A 370 VAL THR MET VAL ASN ASP ASN GLY ARG PRO VAL ALA GLY SEQRES 6 A 370 ARG LEU SER PRO ASP GLY LEU ARG TRP SER THR THR GLU SEQRES 7 A 370 GLN LEU GLY TYR ASN ARG ARG TYR THR LEU ASN ALA THR SEQRES 8 A 370 ALA LEU GLY LEU GLY GLY ALA ALA THR ARG GLN LEU THR SEQRES 9 A 370 PHE GLN THR SER SER PRO ALA HIS LEU THR MET PRO TYR SEQRES 10 A 370 VAL MET PRO GLY ASP GLY GLU VAL VAL GLY VAL GLY GLU SEQRES 11 A 370 PRO VAL ALA ILE ARG PHE ASP GLU ASN ILE ALA ASP ARG SEQRES 12 A 370 GLY ALA ALA GLU LYS ALA ILE LYS ILE THR THR ASN PRO SEQRES 13 A 370 PRO VAL GLU GLY ALA PHE TYR TRP LEU ASN ASN ARG GLU SEQRES 14 A 370 VAL ARG TRP ARG PRO GLU HIS PHE TRP LYS PRO GLY THR SEQRES 15 A 370 ALA VAL ASP VAL ALA VAL ASN THR TYR GLY VAL ASP LEU SEQRES 16 A 370 GLY GLU GLY MET PHE GLY GLU ASP ASN VAL GLN THR HIS SEQRES 17 A 370 PHE THR ILE GLY ASP GLU VAL ILE ALA THR ALA ASP ASP SEQRES 18 A 370 ASN THR LYS ILE LEU THR VAL ARG VAL ASN GLY GLU VAL SEQRES 19 A 370 VAL LYS SER MET PRO THR SER MET GLY LYS ASP SER THR SEQRES 20 A 370 PRO THR ALA ASN GLY ILE TYR ILE VAL GLY SER ARG TYR SEQRES 21 A 370 LYS HIS ILE ILE MET ASP SER SER THR TYR GLY VAL PRO SEQRES 22 A 370 VAL ASN SER PRO ASN GLY TYR ARG THR ASP VAL ASP TRP SEQRES 23 A 370 ALA THR GLN ILE SER TYR SER GLY VAL PHE VAL HIS SER SEQRES 24 A 370 ALA PRO TRP SER VAL GLY ALA GLN GLY HIS THR ASN THR SEQRES 25 A 370 SER HIS GLY CYS LEU ASN VAL SER PRO SER ASN ALA GLN SEQRES 26 A 370 TRP PHE TYR ASP HIS VAL LYS ARG GLY ASP ILE VAL GLU SEQRES 27 A 370 VAL VAL ASN THR VAL GLY GLY THR LEU PRO GLY ILE ASP SEQRES 28 A 370 GLY LEU GLY ASP TRP ASN ILE PRO TRP ASP GLN TRP ARG SEQRES 29 A 370 ALA GLY ASN ALA LYS ALA SEQRES 1 B 370 GLY HIS MET ALA PRO ILE LYS VAL ILE ALA ASP LYS GLY SEQRES 2 B 370 THR PRO PHE ALA ASP LEU LEU VAL PRO LYS LEU THR ALA SEQRES 3 B 370 SER VAL THR ASP GLY ALA VAL GLY VAL THR VAL ASP ALA SEQRES 4 B 370 PRO VAL SER VAL THR ALA ALA ASP GLY VAL LEU ALA ALA SEQRES 5 B 370 VAL THR MET VAL ASN ASP ASN GLY ARG PRO VAL ALA GLY SEQRES 6 B 370 ARG LEU SER PRO ASP GLY LEU ARG TRP SER THR THR GLU SEQRES 7 B 370 GLN LEU GLY TYR ASN ARG ARG TYR THR LEU ASN ALA THR SEQRES 8 B 370 ALA LEU GLY LEU GLY GLY ALA ALA THR ARG GLN LEU THR SEQRES 9 B 370 PHE GLN THR SER SER PRO ALA HIS LEU THR MET PRO TYR SEQRES 10 B 370 VAL MET PRO GLY ASP GLY GLU VAL VAL GLY VAL GLY GLU SEQRES 11 B 370 PRO VAL ALA ILE ARG PHE ASP GLU ASN ILE ALA ASP ARG SEQRES 12 B 370 GLY ALA ALA GLU LYS ALA ILE LYS ILE THR THR ASN PRO SEQRES 13 B 370 PRO VAL GLU GLY ALA PHE TYR TRP LEU ASN ASN ARG GLU SEQRES 14 B 370 VAL ARG TRP ARG PRO GLU HIS PHE TRP LYS PRO GLY THR SEQRES 15 B 370 ALA VAL ASP VAL ALA VAL ASN THR TYR GLY VAL ASP LEU SEQRES 16 B 370 GLY GLU GLY MET PHE GLY GLU ASP ASN VAL GLN THR HIS SEQRES 17 B 370 PHE THR ILE GLY ASP GLU VAL ILE ALA THR ALA ASP ASP SEQRES 18 B 370 ASN THR LYS ILE LEU THR VAL ARG VAL ASN GLY GLU VAL SEQRES 19 B 370 VAL LYS SER MET PRO THR SER MET GLY LYS ASP SER THR SEQRES 20 B 370 PRO THR ALA ASN GLY ILE TYR ILE VAL GLY SER ARG TYR SEQRES 21 B 370 LYS HIS ILE ILE MET ASP SER SER THR TYR GLY VAL PRO SEQRES 22 B 370 VAL ASN SER PRO ASN GLY TYR ARG THR ASP VAL ASP TRP SEQRES 23 B 370 ALA THR GLN ILE SER TYR SER GLY VAL PHE VAL HIS SER SEQRES 24 B 370 ALA PRO TRP SER VAL GLY ALA GLN GLY HIS THR ASN THR SEQRES 25 B 370 SER HIS GLY CYS LEU ASN VAL SER PRO SER ASN ALA GLN SEQRES 26 B 370 TRP PHE TYR ASP HIS VAL LYS ARG GLY ASP ILE VAL GLU SEQRES 27 B 370 VAL VAL ASN THR VAL GLY GLY THR LEU PRO GLY ILE ASP SEQRES 28 B 370 GLY LEU GLY ASP TRP ASN ILE PRO TRP ASP GLN TRP ARG SEQRES 29 B 370 ALA GLY ASN ALA LYS ALA HET GOL A 801 6 HET GLU A 802 10 HET BGC A 803 12 HET GOL B 501 6 HET GLU B 502 10 HETNAM GOL GLYCEROL HETNAM GLU GLUTAMIC ACID HETNAM BGC BETA-D-GLUCOPYRANOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 3 GOL 2(C3 H8 O3) FORMUL 4 GLU 2(C5 H9 N O4) FORMUL 5 BGC C6 H12 O6 FORMUL 8 HOH *989(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 ASN A 127 N THR A 92 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 GLU A 162 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 226 O VAL A 243 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 3 VAL B 87 VAL B 94 0 SHEET 2 AA9 3 ARG B 123 GLY B 132 -1 O LEU B 131 N VAL B 87 SHEET 3 AA9 3 GLY B 135 GLN B 144 -1 O LEU B 141 N LEU B 126 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 224 O THR B 245 SHEET 4 AB3 4 ILE B 188 ASN B 193 -1 N THR B 191 O ASP B 223 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 ILE B 374 N ALA B 255 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 THR B 320 N MET B 303 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 CISPEP 1 MET A 157 PRO A 158 0 0.32 CISPEP 2 ASN A 193 PRO A 194 0 2.73 CISPEP 3 MET B 157 PRO B 158 0 0.33 CISPEP 4 ASN B 193 PRO B 194 0 1.68 CRYST1 60.906 93.981 75.539 90.00 92.98 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 0.016419 0.000000 0.000853 0.00000 SCALE2 0.000000 0.010640 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013256 0.00000