HEADER LIGASE 24-SEP-24 9DQW TITLE CRYSTAL STRUCTURE OF UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE TITLE 2 (MURD) FROM E. COLI IN COMPLEX WITH UMA AND AMP-PNP COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: D-GLUTAMIC ACID-ADDING ENZYME,UDP-N-ACETYLMURAMOYL-L-ALANYL- COMPND 5 D-GLUTAMATE SYNTHETASE; COMPND 6 EC: 6.3.2.9; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: MURD, B0088, JW0086; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: ESCOA.17938.A.AE1 KEYWDS SSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, MURD, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 1 09-OCT-24 9DQW 0 JRNL AUTH S.SEIBOLD,L.LIU,S.LOVELL,K.P.BATTAILE JRNL TITL CRYSTAL STRUCTURE OF JRNL TITL 2 UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE (MURD) FROM JRNL TITL 3 E. COLI IN COMPLEX WITH UMA AND AMP-PNP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_5462: ???) 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 100526 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.165 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 4984 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 47.0900 - 4.5100 1.00 3238 170 0.1606 0.1675 REMARK 3 2 4.5000 - 3.5800 1.00 3213 146 0.1285 0.1288 REMARK 3 3 3.5700 - 3.1200 1.00 3181 189 0.1467 0.1607 REMARK 3 4 3.1200 - 2.8400 1.00 3180 172 0.1595 0.1675 REMARK 3 5 2.8400 - 2.6300 1.00 3199 178 0.1482 0.1724 REMARK 3 6 2.6300 - 2.4800 1.00 3205 169 0.1387 0.1503 REMARK 3 7 2.4800 - 2.3600 1.00 3160 162 0.1298 0.1431 REMARK 3 8 2.3500 - 2.2500 1.00 3208 134 0.1286 0.1643 REMARK 3 9 2.2500 - 2.1700 1.00 3197 190 0.1370 0.1499 REMARK 3 10 2.1700 - 2.0900 1.00 3206 139 0.1366 0.1763 REMARK 3 11 2.0900 - 2.0300 1.00 3174 167 0.1346 0.1646 REMARK 3 12 2.0300 - 1.9700 1.00 3194 166 0.1355 0.1491 REMARK 3 13 1.9700 - 1.9200 1.00 3179 155 0.1354 0.1666 REMARK 3 14 1.9200 - 1.8700 1.00 3163 189 0.1402 0.1554 REMARK 3 15 1.8700 - 1.8300 1.00 3182 161 0.1509 0.1626 REMARK 3 16 1.8300 - 1.7900 1.00 3182 165 0.1593 0.1766 REMARK 3 17 1.7900 - 1.7500 1.00 3169 180 0.1614 0.1743 REMARK 3 18 1.7500 - 1.7200 1.00 3205 138 0.1609 0.1677 REMARK 3 19 1.7200 - 1.6900 1.00 3189 148 0.1598 0.1862 REMARK 3 20 1.6900 - 1.6600 1.00 3160 200 0.1665 0.1747 REMARK 3 21 1.6600 - 1.6300 1.00 3184 163 0.1683 0.2010 REMARK 3 22 1.6300 - 1.6100 1.00 3180 161 0.1727 0.1818 REMARK 3 23 1.6100 - 1.5800 1.00 3190 151 0.1756 0.2005 REMARK 3 24 1.5800 - 1.5600 1.00 3170 171 0.1826 0.2063 REMARK 3 25 1.5600 - 1.5400 1.00 3161 183 0.1920 0.2070 REMARK 3 26 1.5400 - 1.5200 1.00 3103 184 0.2073 0.1985 REMARK 3 27 1.5200 - 1.5000 1.00 3212 187 0.2160 0.2302 REMARK 3 28 1.5000 - 1.4800 1.00 3179 167 0.2297 0.2524 REMARK 3 29 1.4800 - 1.4700 1.00 3159 180 0.2455 0.2655 REMARK 3 30 1.4700 - 1.4500 1.00 3220 119 0.2651 0.2945 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.970 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3532 REMARK 3 ANGLE : 1.004 4825 REMARK 3 CHIRALITY : 0.081 556 REMARK 3 PLANARITY : 0.010 621 REMARK 3 DIHEDRAL : 15.873 1313 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 1 THROUGH 58 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6843 -25.2689 -13.5499 REMARK 3 T TENSOR REMARK 3 T11: 0.1418 T22: 0.1521 REMARK 3 T33: 0.1883 T12: 0.0340 REMARK 3 T13: -0.0223 T23: -0.0289 REMARK 3 L TENSOR REMARK 3 L11: 1.8403 L22: 2.8101 REMARK 3 L33: 4.4508 L12: -0.7074 REMARK 3 L13: 0.8174 L23: 0.4438 REMARK 3 S TENSOR REMARK 3 S11: -0.0355 S12: -0.1005 S13: 0.0303 REMARK 3 S21: 0.1717 S22: 0.2139 S23: -0.3402 REMARK 3 S31: 0.1646 S32: 0.3501 S33: -0.1117 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 59 THROUGH 172 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.5547 -16.7641 -6.6878 REMARK 3 T TENSOR REMARK 3 T11: 0.1425 T22: 0.1257 REMARK 3 T33: 0.1245 T12: -0.0043 REMARK 3 T13: 0.0044 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 0.4533 L22: 2.1414 REMARK 3 L33: 0.8315 L12: -0.5291 REMARK 3 L13: -0.2192 L23: 0.8955 REMARK 3 S TENSOR REMARK 3 S11: -0.0309 S12: -0.0451 S13: -0.0260 REMARK 3 S21: 0.1138 S22: 0.0170 S23: -0.0019 REMARK 3 S31: 0.1255 S32: 0.0212 S33: 0.0047 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 173 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.0336 -11.1589 -11.5112 REMARK 3 T TENSOR REMARK 3 T11: 0.1182 T22: 0.1425 REMARK 3 T33: 0.1783 T12: -0.0161 REMARK 3 T13: -0.0031 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 0.5445 L22: 1.4320 REMARK 3 L33: 3.6061 L12: -0.2986 REMARK 3 L13: -0.0709 L23: 1.2375 REMARK 3 S TENSOR REMARK 3 S11: -0.0403 S12: -0.0711 S13: -0.0212 REMARK 3 S21: 0.0639 S22: -0.1046 S23: 0.2247 REMARK 3 S31: 0.0914 S32: -0.2954 S33: 0.1447 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 227 THROUGH 265 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1020 9.3379 -0.4357 REMARK 3 T TENSOR REMARK 3 T11: 0.1484 T22: 0.1322 REMARK 3 T33: 0.1513 T12: 0.0393 REMARK 3 T13: 0.0100 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 3.5194 L22: 6.1962 REMARK 3 L33: 3.2775 L12: 1.2230 REMARK 3 L13: -0.0589 L23: 2.5594 REMARK 3 S TENSOR REMARK 3 S11: 0.0729 S12: 0.0451 S13: 0.2232 REMARK 3 S21: -0.1195 S22: -0.1862 S23: 0.4702 REMARK 3 S31: -0.1894 S32: -0.1213 S33: 0.0646 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 266 THROUGH 295 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.4544 3.4264 2.0108 REMARK 3 T TENSOR REMARK 3 T11: 0.1599 T22: 0.1439 REMARK 3 T33: 0.1413 T12: 0.0267 REMARK 3 T13: 0.0314 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 2.2468 L22: 4.1793 REMARK 3 L33: 2.1811 L12: 0.0304 REMARK 3 L13: -0.3735 L23: -1.5755 REMARK 3 S TENSOR REMARK 3 S11: 0.0242 S12: -0.1163 S13: 0.0962 REMARK 3 S21: 0.1955 S22: 0.0571 S23: 0.0181 REMARK 3 S31: -0.0335 S32: -0.0244 S33: -0.0764 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 296 THROUGH 363 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.1104 8.9189 -21.4107 REMARK 3 T TENSOR REMARK 3 T11: 0.1447 T22: 0.1091 REMARK 3 T33: 0.1760 T12: 0.0061 REMARK 3 T13: 0.0074 T23: -0.0067 REMARK 3 L TENSOR REMARK 3 L11: 1.5104 L22: 2.6479 REMARK 3 L33: 1.1827 L12: 0.6509 REMARK 3 L13: 0.3350 L23: -0.0210 REMARK 3 S TENSOR REMARK 3 S11: -0.0406 S12: -0.0611 S13: 0.2141 REMARK 3 S21: -0.0105 S22: 0.0200 S23: 0.2694 REMARK 3 S31: -0.1287 S32: -0.0629 S33: 0.0195 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 364 THROUGH 389 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.6957 5.7772 -34.8392 REMARK 3 T TENSOR REMARK 3 T11: 0.2571 T22: 0.1543 REMARK 3 T33: 0.1156 T12: -0.0494 REMARK 3 T13: -0.0160 T23: 0.0284 REMARK 3 L TENSOR REMARK 3 L11: 7.6349 L22: 5.3018 REMARK 3 L33: 4.3607 L12: -2.2905 REMARK 3 L13: 0.7248 L23: 0.6082 REMARK 3 S TENSOR REMARK 3 S11: -0.0371 S12: 0.3928 S13: -0.0418 REMARK 3 S21: -0.6090 S22: 0.0910 S23: 0.1616 REMARK 3 S31: 0.0223 S32: -0.1027 S33: -0.0548 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 390 THROUGH 439 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.0700 8.1407 -25.2341 REMARK 3 T TENSOR REMARK 3 T11: 0.1509 T22: 0.1455 REMARK 3 T33: 0.1474 T12: -0.0196 REMARK 3 T13: 0.0208 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 1.6756 L22: 5.0326 REMARK 3 L33: 1.4583 L12: 0.1660 REMARK 3 L13: 0.0827 L23: -0.5409 REMARK 3 S TENSOR REMARK 3 S11: -0.0440 S12: 0.0722 S13: -0.0539 REMARK 3 S21: -0.1445 S22: -0.0040 S23: -0.3844 REMARK 3 S31: -0.0277 S32: 0.1288 S33: 0.0522 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 9DQW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1000288636. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS-II 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) : 0.9786 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 100616 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 47.090 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : 1.68600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM SULFATE, 0.1 HEPES PH REMARK 280 7.5, 7% (V/V) PEG 400. ESCOA.17938.A.AE1.PW39153 AT 17.4 MG/ML. REMARK 280 SOAKED WITH 5 MM AMP-PNP AND UMA FOR 5 HOURS. PLATE LIU-S-097, REMARK 280 A6. PUCK: PSL-1616, CRYO: 2.5M AMMONIUM SULFATE, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.80450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 33.90225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 101.70675 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 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 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 0 REMARK 465 HIS A 440 REMARK 465 HIS A 441 REMARK 465 HIS A 442 REMARK 465 HIS A 443 REMARK 465 HIS A 444 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 48 CG CD OE1 OE2 REMARK 470 ARG A 221 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 242 CG CD OE1 NE2 REMARK 470 GLN A 243 CG CD OE1 NE2 REMARK 470 LYS A 420 CG CD CE 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 LEU A 13 51.79 -109.44 REMARK 500 GLN A 242 -161.73 -73.90 REMARK 500 PHE A 303 55.38 38.41 REMARK 500 ARG A 380 82.83 -159.54 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 UMA A 502 O19 REMARK 620 2 HOH A 605 O 81.4 REMARK 620 3 HOH A 610 O 168.7 91.2 REMARK 620 4 HOH A 617 O 106.7 94.9 82.3 REMARK 620 5 HOH A 648 O 67.5 79.4 103.0 172.3 REMARK 620 N 1 2 3 4 DBREF 9DQW A 0 437 UNP P14900 MURD_ECOLI 1 438 SEQADV 9DQW GLY A 438 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 439 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 440 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 441 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 442 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 443 UNP P14900 EXPRESSION TAG SEQADV 9DQW HIS A 444 UNP P14900 EXPRESSION TAG SEQRES 1 A 445 MET ALA ASP TYR GLN GLY LYS ASN VAL VAL ILE ILE GLY SEQRES 2 A 445 LEU GLY LEU THR GLY LEU SER CYS VAL ASP PHE PHE LEU SEQRES 3 A 445 ALA ARG GLY VAL THR PRO ARG VAL MET ASP THR ARG MET SEQRES 4 A 445 THR PRO PRO GLY LEU ASP LYS LEU PRO GLU ALA VAL GLU SEQRES 5 A 445 ARG HIS THR GLY SER LEU ASN ASP GLU TRP LEU MET ALA SEQRES 6 A 445 ALA ASP LEU ILE VAL ALA SER PRO GLY ILE ALA LEU ALA SEQRES 7 A 445 HIS PRO SER LEU SER ALA ALA ALA ASP ALA GLY ILE GLU SEQRES 8 A 445 ILE VAL GLY ASP ILE GLU LEU PHE CYS ARG GLU ALA GLN SEQRES 9 A 445 ALA PRO ILE VAL ALA ILE THR GLY SER ASN GLY LYS SER SEQRES 10 A 445 THR VAL THR THR LEU VAL GLY GLU MET ALA LYS ALA ALA SEQRES 11 A 445 GLY VAL ASN VAL GLY VAL GLY GLY ASN ILE GLY LEU PRO SEQRES 12 A 445 ALA LEU MET LEU LEU ASP ASP GLU CYS GLU LEU TYR VAL SEQRES 13 A 445 LEU GLU LEU SER SER PHE GLN LEU GLU THR THR SER SER SEQRES 14 A 445 LEU GLN ALA VAL ALA ALA THR ILE LEU ASN VAL THR GLU SEQRES 15 A 445 ASP HIS MET ASP ARG TYR PRO PHE GLY LEU GLN GLN TYR SEQRES 16 A 445 ARG ALA ALA KCX LEU ARG ILE TYR GLU ASN ALA LYS VAL SEQRES 17 A 445 CYS VAL VAL ASN ALA ASP ASP ALA LEU THR MET PRO ILE SEQRES 18 A 445 ARG GLY ALA ASP GLU ARG CYS VAL SER PHE GLY VAL ASN SEQRES 19 A 445 MET GLY ASP TYR HIS LEU ASN HIS GLN GLN GLY GLU THR SEQRES 20 A 445 TRP LEU ARG VAL LYS GLY GLU LYS VAL LEU ASN VAL LYS SEQRES 21 A 445 GLU MET LYS LEU SER GLY GLN HIS ASN TYR THR ASN ALA SEQRES 22 A 445 LEU ALA ALA LEU ALA LEU ALA ASP ALA ALA GLY LEU PRO SEQRES 23 A 445 ARG ALA SER SER LEU LYS ALA LEU THR THR PHE THR GLY SEQRES 24 A 445 LEU PRO HIS ARG PHE GLU VAL VAL LEU GLU HIS ASN GLY SEQRES 25 A 445 VAL ARG TRP ILE ASN ASP SER LYS ALA THR ASN VAL GLY SEQRES 26 A 445 SER THR GLU ALA ALA LEU ASN GLY LEU HIS VAL ASP GLY SEQRES 27 A 445 THR LEU HIS LEU LEU LEU GLY GLY ASP GLY LYS SER ALA SEQRES 28 A 445 ASP PHE SER PRO LEU ALA ARG TYR LEU ASN GLY ASP ASN SEQRES 29 A 445 VAL ARG LEU TYR CYS PHE GLY ARG ASP GLY ALA GLN LEU SEQRES 30 A 445 ALA ALA LEU ARG PRO GLU VAL ALA GLU GLN THR GLU THR SEQRES 31 A 445 MET GLU GLN ALA MET ARG LEU LEU ALA PRO ARG VAL GLN SEQRES 32 A 445 PRO GLY ASP MET VAL LEU LEU SER PRO ALA CYS ALA SER SEQRES 33 A 445 LEU ASP GLN PHE LYS ASN PHE GLU GLN ARG GLY ASN GLU SEQRES 34 A 445 PHE ALA ARG LEU ALA LYS GLU LEU GLY GLY HIS HIS HIS SEQRES 35 A 445 HIS HIS HIS MODRES 9DQW KCX A 198 LYS MODIFIED RESIDUE HET KCX A 198 12 HET MG A 501 1 HET UMA A 502 49 HET CL A 503 1 HET CL A 504 1 HET CL A 505 1 HET ANP A 506 31 HET EPE A 507 15 HET GOL A 508 6 HET GOL A 509 6 HET SO4 A 510 5 HET SO4 A 511 5 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM MG MAGNESIUM ION HETNAM UMA URIDINE-5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE HETNAM CL CHLORIDE ION HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN EPE HEPES HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 MG MG 2+ FORMUL 3 UMA C23 H36 N4 O20 P2 FORMUL 4 CL 3(CL 1-) FORMUL 7 ANP C10 H17 N6 O12 P3 FORMUL 8 EPE C8 H18 N2 O4 S FORMUL 9 GOL 2(C3 H8 O3) FORMUL 11 SO4 2(O4 S 2-) FORMUL 13 HOH *416(H2 O) HELIX 1 AA1 GLY A 14 ARG A 27 1 14 HELIX 2 AA2 GLY A 42 LEU A 46 5 5 HELIX 3 AA3 ASN A 58 ALA A 65 1 8 HELIX 4 AA4 HIS A 78 ALA A 87 1 10 HELIX 5 AA5 GLY A 93 ALA A 102 1 10 HELIX 6 AA6 GLY A 114 ALA A 129 1 16 HELIX 7 AA7 PRO A 142 LEU A 147 5 6 HELIX 8 AA8 SER A 159 THR A 165 1 7 HELIX 9 AA9 HIS A 183 TYR A 187 5 5 HELIX 10 AB1 GLY A 190 ARG A 200 1 11 HELIX 11 AB2 ILE A 201 GLU A 203 5 3 HELIX 12 AB3 ASP A 214 MET A 218 5 5 HELIX 13 AB4 LYS A 259 MET A 261 5 3 HELIX 14 AB5 GLY A 265 ALA A 282 1 18 HELIX 15 AB6 PRO A 285 PHE A 296 1 12 HELIX 16 AB7 ASN A 322 ASN A 331 1 10 HELIX 17 AB8 PHE A 352 LEU A 359 5 8 HELIX 18 AB9 ASP A 372 ALA A 378 1 7 HELIX 19 AC1 LEU A 379 GLU A 382 5 4 HELIX 20 AC2 THR A 389 ALA A 398 1 10 HELIX 21 AC3 PRO A 399 VAL A 401 5 3 HELIX 22 AC4 ASN A 421 GLY A 438 1 18 SHEET 1 AA1 5 ARG A 52 THR A 54 0 SHEET 2 AA1 5 ARG A 32 ASP A 35 1 N VAL A 33 O HIS A 53 SHEET 3 AA1 5 VAL A 8 ILE A 11 1 N ILE A 10 O ARG A 32 SHEET 4 AA1 5 LEU A 67 ALA A 70 1 O VAL A 69 N VAL A 9 SHEET 5 AA1 5 GLU A 90 VAL A 92 1 O VAL A 92 N ALA A 70 SHEET 1 AA2 6 VAL A 133 GLY A 137 0 SHEET 2 AA2 6 LEU A 153 GLU A 157 1 O VAL A 155 N GLY A 134 SHEET 3 AA2 6 ILE A 106 THR A 110 1 N VAL A 107 O LEU A 156 SHEET 4 AA2 6 ALA A 173 ILE A 176 1 O THR A 175 N THR A 110 SHEET 5 AA2 6 VAL A 207 ASN A 211 1 O VAL A 209 N ALA A 174 SHEET 6 AA2 6 CYS A 227 PHE A 230 1 O VAL A 228 N CYS A 208 SHEET 1 AA3 3 TYR A 237 GLN A 242 0 SHEET 2 AA3 3 GLU A 245 VAL A 250 -1 O ARG A 249 N HIS A 238 SHEET 3 AA3 3 LYS A 254 ASN A 257 -1 O LEU A 256 N LEU A 248 SHEET 1 AA4 6 GLU A 304 HIS A 309 0 SHEET 2 AA4 6 VAL A 312 ASN A 316 -1 O ASN A 316 N GLU A 304 SHEET 3 AA4 6 MET A 406 LEU A 409 1 O VAL A 407 N ILE A 315 SHEET 4 AA4 6 LEU A 339 GLY A 344 1 N HIS A 340 O MET A 406 SHEET 5 AA4 6 VAL A 364 PHE A 369 1 O ARG A 365 N LEU A 341 SHEET 6 AA4 6 ALA A 384 GLN A 386 1 O GLU A 385 N CYS A 368 LINK C ALA A 197 N KCX A 198 1555 1555 1.33 LINK C KCX A 198 N LEU A 199 1555 1555 1.33 LINK MG MG A 501 O19 UMA A 502 1555 1555 1.84 LINK MG MG A 501 O HOH A 605 1555 1555 2.49 LINK MG MG A 501 O HOH A 610 1555 1555 2.07 LINK MG MG A 501 O HOH A 617 1555 1555 2.14 LINK MG MG A 501 O HOH A 648 1555 1555 2.82 CRYST1 65.441 65.441 135.609 90.00 90.00 90.00 P 41 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 0.015281 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015281 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007374 0.00000