HEADER LIGASE 14-JUL-22 8DP2 TITLE CRYSTAL STRUCTURE OF UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE TITLE 2 (MURD) FROM PSEUDOMONAS AERUGINOSA PAO1 IN COMPLEX WITH UMA (URIDINE- TITLE 3 5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PSAEA.17938.A.B2; COMPND 5 SYNONYM: D-GLUTAMIC ACID-ADDING ENZYME,UDP-N-ACETYLMURAMOYL-L-ALANYL- COMPND 6 D-GLUTAMATE SYNTHETASE; COMPND 7 EC: 6.3.2.9; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 SOURCE 5 / 1C / PRS 101 / PAO1; SOURCE 6 GENE: MURD, PA4414; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS SSGCID, UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE, D-GLUTAMIC KEYWDS 2 ACID-ADDING ENZYME, UDP-N-ACETYLMURAMOYL-L-ALANYL-D-GLUTAMATE KEYWDS 3 SYNTHETASE, MURD, UMA, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL KEYWDS 4 GENOMICS CENTER FOR INFECTIOUS DISEASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 15-NOV-23 8DP2 1 REMARK REVDAT 2 18-OCT-23 8DP2 1 REMARK REVDAT 1 17-AUG-22 8DP2 0 JRNL AUTH J.ABENDROTH,N.D.DEBOUVER,D.D.LORIMER,P.S.HORANYI,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF JRNL TITL 2 UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE (MURD) FROM JRNL TITL 3 PSEUDOMONAS AERUGINOSA PAO1 IN COMPLEX WITH UMA JRNL TITL 4 (URIDINE-5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 67742 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 : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1964 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 41.3400 - 3.8600 1.00 4743 175 0.1408 0.1561 REMARK 3 2 3.8500 - 3.0600 1.00 4713 137 0.1401 0.1417 REMARK 3 3 3.0600 - 2.6700 1.00 4751 127 0.1496 0.1892 REMARK 3 4 2.6700 - 2.4300 1.00 4665 158 0.1603 0.1802 REMARK 3 5 2.4300 - 2.2600 1.00 4705 144 0.1428 0.1669 REMARK 3 6 2.2600 - 2.1200 1.00 4672 126 0.1499 0.1534 REMARK 3 7 2.1200 - 2.0200 1.00 4731 134 0.1419 0.1775 REMARK 3 8 2.0200 - 1.9300 1.00 4690 161 0.1477 0.1719 REMARK 3 9 1.9300 - 1.8500 1.00 4683 133 0.1475 0.1961 REMARK 3 10 1.8500 - 1.7900 1.00 4671 146 0.1778 0.2031 REMARK 3 11 1.7900 - 1.7300 1.00 4696 115 0.1720 0.1986 REMARK 3 12 1.7300 - 1.6800 1.00 4671 136 0.1781 0.2000 REMARK 3 13 1.6800 - 1.6400 1.00 4706 135 0.1817 0.2137 REMARK 3 14 1.6400 - 1.6000 1.00 4681 137 0.2172 0.2494 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) : 0.136 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.91 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 3651 REMARK 3 ANGLE : 1.048 4967 REMARK 3 CHIRALITY : 0.069 566 REMARK 3 PLANARITY : 0.009 659 REMARK 3 DIHEDRAL : 14.494 1387 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): 65.9756 9.7199 9.7915 REMARK 3 T TENSOR REMARK 3 T11: 0.1991 T22: 0.2418 REMARK 3 T33: 0.2893 T12: -0.0453 REMARK 3 T13: -0.0611 T23: -0.0187 REMARK 3 L TENSOR REMARK 3 L11: 2.8522 L22: 2.9223 REMARK 3 L33: 3.6345 L12: 0.1467 REMARK 3 L13: -0.3080 L23: 0.6182 REMARK 3 S TENSOR REMARK 3 S11: -0.1787 S12: 0.0219 S13: 0.4901 REMARK 3 S21: 0.0418 S22: 0.1581 S23: -0.2909 REMARK 3 S31: -0.3526 S32: 0.6161 S33: 0.0221 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 76 THROUGH 310 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.3584 -2.2183 0.3680 REMARK 3 T TENSOR REMARK 3 T11: 0.1373 T22: 0.0843 REMARK 3 T33: 0.1059 T12: 0.0005 REMARK 3 T13: 0.0038 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 1.1950 L22: 0.7360 REMARK 3 L33: 1.0408 L12: -0.1720 REMARK 3 L13: 0.1897 L23: 0.1015 REMARK 3 S TENSOR REMARK 3 S11: -0.0275 S12: -0.0064 S13: -0.0824 REMARK 3 S21: 0.0075 S22: -0.0123 S23: 0.0103 REMARK 3 S31: 0.0145 S32: -0.0561 S33: 0.0373 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 311 THROUGH 448 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.7648 -16.5789 -18.4869 REMARK 3 T TENSOR REMARK 3 T11: 0.1155 T22: 0.0891 REMARK 3 T33: 0.1636 T12: 0.0086 REMARK 3 T13: 0.0280 T23: -0.0086 REMARK 3 L TENSOR REMARK 3 L11: 1.7160 L22: 1.4646 REMARK 3 L33: 3.7117 L12: -0.5715 REMARK 3 L13: 0.0433 L23: 0.1605 REMARK 3 S TENSOR REMARK 3 S11: 0.0808 S12: 0.0349 S13: 0.0438 REMARK 3 S21: -0.0643 S22: 0.0112 S23: -0.0645 REMARK 3 S31: 0.0208 S32: 0.0500 S33: -0.0797 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 8DP2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1000267105. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-22 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 : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DIAMOND [111] REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67812 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.964 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.83 REMARK 200 R MERGE FOR SHELL (I) : 0.59300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.310 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: ADP-BOUND MURD, PDB ENTRY 7U35, IN THREE DOMAINS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RIGAKUREAGENTS JCSG TOP96 SCREEN, REMARK 280 CONDITION B1: 100MM HEPES FREE ACID / SODIUM HYDROXIDE PH 7.5, REMARK 280 30% (V/V) PEG 400, 5% (W/V) PEG 3000, 10% (V/V) GLYCEROL: REMARK 280 PSAEA.17938.A.B2.PS38065 AT 40MG/ML + 3MM UMA (BSI102034) AND REMARK 280 MGCL2: TRAY: 325018B1: CRYO: DIRECT, PUCK: TUA1-2. SIN IS REMARK 280 MODELED TENATIVELY BASED ON DENSITY ONLY, IT WAS NOT ADDED TO REMARK 280 THE CRYSTALLIZATON BUFFER, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 287K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.18333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 66.36667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.77500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 82.95833 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 16.59167 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 1 REMARK 465 ALA A 2 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 HIS A 3 CG ND1 CD2 CE1 NE2 REMARK 470 PHE A 241 CG CD1 CD2 CE1 CE2 CZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 171 CB CYS A 171 SG -0.143 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 LEU A 15 66.31 -110.98 REMARK 500 SER A 97 -161.24 -126.48 REMARK 500 ALA A 119 -5.33 81.11 REMARK 500 GLN A 258 -123.54 51.82 REMARK 500 CYS A 310 56.33 35.18 REMARK 500 CYS A 310 54.24 37.50 REMARK 500 ASP A 324 44.76 -109.93 REMARK 500 ASN A 391 30.57 -95.14 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 A1116 DISTANCE = 6.72 ANGSTROMS 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 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 UMA A 501 O20 REMARK 620 2 HOH A 608 O 94.8 REMARK 620 3 HOH A 648 O 90.9 172.0 REMARK 620 4 HOH A 652 O 170.3 83.4 90.0 REMARK 620 5 HOH A 664 O 83.9 88.8 86.3 86.5 REMARK 620 N 1 2 3 4 DBREF 8DP2 A 9 448 UNP Q9HVZ9 MURD_PSEAE 9 448 SEQADV 8DP2 MET A 1 UNP Q9HVZ9 INITIATING METHIONINE SEQADV 8DP2 ALA A 2 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 HIS A 3 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 HIS A 4 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 HIS A 5 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 HIS A 6 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 HIS A 7 UNP Q9HVZ9 EXPRESSION TAG SEQADV 8DP2 MET A 8 UNP Q9HVZ9 EXPRESSION TAG SEQRES 1 A 448 MET ALA HIS HIS HIS HIS HIS MET PHE ARG ILE VAL VAL SEQRES 2 A 448 GLY LEU GLY LYS SER GLY MET SER LEU VAL ARG TYR LEU SEQRES 3 A 448 ALA ARG ARG GLY LEU PRO PHE ALA VAL VAL ASP THR ARG SEQRES 4 A 448 GLU ASN PRO PRO GLU LEU ALA THR LEU ARG ALA GLN TYR SEQRES 5 A 448 PRO GLN VAL GLU VAL ARG CYS GLY GLU LEU ASP ALA GLU SEQRES 6 A 448 PHE LEU CYS SER ALA ARG GLU LEU TYR VAL SER PRO GLY SEQRES 7 A 448 LEU SER LEU ARG THR PRO ALA LEU VAL GLN ALA ALA ALA SEQRES 8 A 448 LYS GLY VAL ARG ILE SER GLY ASP ILE ASP LEU PHE ALA SEQRES 9 A 448 ARG GLU ALA LYS ALA PRO ILE VAL ALA ILE THR GLY SER SEQRES 10 A 448 ASN ALA LYS SER THR VAL THR THR LEU VAL GLY GLU MET SEQRES 11 A 448 ALA VAL ALA ALA ASP LYS ARG VAL ALA VAL GLY GLY ASN SEQRES 12 A 448 LEU GLY THR PRO ALA LEU ASP LEU LEU ALA ASP ASP ILE SEQRES 13 A 448 GLU LEU TYR VAL LEU GLU LEU SER SER PHE GLN LEU GLU SEQRES 14 A 448 THR CYS ASP ARG LEU ASN ALA GLU VAL ALA THR VAL LEU SEQRES 15 A 448 ASN VAL SER GLU ASP HIS MET ASP ARG TYR ASP GLY MET SEQRES 16 A 448 ALA ASP TYR HIS LEU ALA KCX HIS ARG ILE PHE ARG GLY SEQRES 17 A 448 ALA ARG GLN VAL VAL VAL ASN ARG ALA ASP ALA LEU THR SEQRES 18 A 448 ARG PRO LEU ILE ALA ASP THR VAL PRO CYS TRP SER PHE SEQRES 19 A 448 GLY LEU ASN LYS PRO ASP PHE LYS ALA PHE GLY LEU ILE SEQRES 20 A 448 GLU GLU ASP GLY GLN LYS TRP LEU ALA PHE GLN PHE ASP SEQRES 21 A 448 LYS LEU LEU PRO VAL GLY GLU LEU LYS ILE ARG GLY ALA SEQRES 22 A 448 HIS ASN TYR SER ASN ALA LEU ALA ALA LEU ALA LEU GLY SEQRES 23 A 448 HIS ALA VAL GLY LEU PRO PHE ASP ALA MET LEU GLY ALA SEQRES 24 A 448 LEU LYS ALA PHE SER GLY LEU ALA HIS ARG CYS GLN TRP SEQRES 25 A 448 VAL ARG GLU ARG GLN GLY VAL SER TYR TYR ASP ASP SER SEQRES 26 A 448 LYS ALA THR ASN VAL GLY ALA ALA LEU ALA ALA ILE GLU SEQRES 27 A 448 GLY LEU GLY ALA ASP ILE ASP GLY LYS LEU VAL LEU LEU SEQRES 28 A 448 ALA GLY GLY ASP GLY LYS GLY ALA ASP PHE HIS ASP LEU SEQRES 29 A 448 ARG GLU PRO VAL ALA ARG PHE CYS ARG ALA VAL VAL LEU SEQRES 30 A 448 LEU GLY ARG ASP ALA GLY LEU ILE ALA GLN ALA LEU GLY SEQRES 31 A 448 ASN ALA VAL PRO LEU VAL ARG VAL ALA THR LEU ASP GLU SEQRES 32 A 448 ALA VAL ARG GLN ALA ALA GLU LEU ALA ARG GLU GLY ASP SEQRES 33 A 448 ALA VAL LEU LEU SER PRO ALA CYS ALA SER LEU ASP MET SEQRES 34 A 448 PHE LYS ASN PHE GLU GLU ARG GLY ARG LEU PHE ALA LYS SEQRES 35 A 448 ALA VAL GLU GLU LEU ALA MODRES 8DP2 KCX A 202 LYS MODIFIED RESIDUE HET KCX A 202 12 HET UMA A 501 49 HET MG A 502 1 HET GOL A 503 6 HET GOL A 504 6 HET PO4 A 505 5 HET PE8 A 506 25 HET SIN A 507 8 HET ACT A 508 4 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM UMA URIDINE-5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM PO4 PHOSPHATE ION HETNAM PE8 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL HETNAM SIN SUCCINIC ACID HETNAM ACT ACETATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 UMA C23 H36 N4 O20 P2 FORMUL 3 MG MG 2+ FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 PO4 O4 P 3- FORMUL 7 PE8 C16 H34 O9 FORMUL 8 SIN C4 H6 O4 FORMUL 9 ACT C2 H3 O2 1- FORMUL 10 HOH *516(H2 O) HELIX 1 AA1 GLY A 16 ARG A 29 1 14 HELIX 2 AA2 GLU A 44 TYR A 52 1 9 HELIX 3 AA3 ASP A 63 CYS A 68 1 6 HELIX 4 AA4 THR A 83 LYS A 92 1 10 HELIX 5 AA5 GLY A 98 ALA A 107 1 10 HELIX 6 AA6 ALA A 119 ALA A 134 1 16 HELIX 7 AA7 PRO A 147 LEU A 152 5 6 HELIX 8 AA8 SER A 164 GLU A 169 1 6 HELIX 9 AA9 GLY A 194 ARG A 204 1 11 HELIX 10 AB1 ILE A 205 ARG A 207 5 3 HELIX 11 AB2 ASP A 218 ARG A 222 5 5 HELIX 12 AB3 PRO A 223 THR A 228 5 6 HELIX 13 AB4 GLY A 266 LEU A 268 5 3 HELIX 14 AB5 GLY A 272 VAL A 289 1 18 HELIX 15 AB6 PRO A 292 PHE A 303 1 12 HELIX 16 AB7 ASN A 329 ILE A 344 1 16 HELIX 17 AB8 PHE A 361 ASP A 363 5 3 HELIX 18 AB9 LEU A 364 PHE A 371 1 8 HELIX 19 AC1 ASP A 381 GLY A 390 1 10 HELIX 20 AC2 THR A 400 ALA A 412 1 13 HELIX 21 AC3 ASN A 432 LEU A 447 1 16 SHEET 1 AA1 5 VAL A 57 CYS A 59 0 SHEET 2 AA1 5 PHE A 33 ASP A 37 1 N VAL A 35 O ARG A 58 SHEET 3 AA1 5 ARG A 10 VAL A 13 1 N VAL A 12 O ALA A 34 SHEET 4 AA1 5 GLU A 72 VAL A 75 1 O TYR A 74 N VAL A 13 SHEET 5 AA1 5 ARG A 95 SER A 97 1 O SER A 97 N LEU A 73 SHEET 1 AA2 9 VAL A 138 GLY A 142 0 SHEET 2 AA2 9 LEU A 158 GLU A 162 1 O VAL A 160 N ALA A 139 SHEET 3 AA2 9 ILE A 111 THR A 115 1 N VAL A 112 O TYR A 159 SHEET 4 AA2 9 VAL A 178 VAL A 181 1 O VAL A 178 N ALA A 113 SHEET 5 AA2 9 VAL A 212 ASN A 215 1 O VAL A 213 N ALA A 179 SHEET 6 AA2 9 CYS A 231 PHE A 234 1 O TRP A 232 N VAL A 212 SHEET 7 AA2 9 ALA A 243 GLU A 249 1 O PHE A 244 N SER A 233 SHEET 8 AA2 9 GLN A 252 PHE A 257 -1 O GLN A 252 N GLU A 249 SHEET 9 AA2 9 ASP A 260 PRO A 264 -1 O LEU A 262 N LEU A 255 SHEET 1 AA3 6 GLN A 311 ARG A 316 0 SHEET 2 AA3 6 VAL A 319 ASP A 323 -1 O TYR A 321 N VAL A 313 SHEET 3 AA3 6 ALA A 417 LEU A 420 1 O VAL A 418 N SER A 320 SHEET 4 AA3 6 LEU A 348 GLY A 353 1 N LEU A 351 O LEU A 419 SHEET 5 AA3 6 CYS A 372 LEU A 378 1 O VAL A 376 N LEU A 350 SHEET 6 AA3 6 LEU A 395 ARG A 397 1 O VAL A 396 N LEU A 377 LINK C ALA A 201 N KCX A 202 1555 1555 1.33 LINK C KCX A 202 N HIS A 203 1555 1555 1.33 LINK O20 UMA A 501 MG MG A 502 1555 1555 2.08 LINK MG MG A 502 O HOH A 608 1555 1555 2.27 LINK MG MG A 502 O HOH A 648 1555 1555 2.04 LINK MG MG A 502 O HOH A 652 1555 1555 2.14 LINK MG MG A 502 O HOH A 664 1555 1555 2.24 CRYST1 95.460 95.460 99.550 90.00 90.00 120.00 P 61 6 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 0.010476 0.006048 0.000000 0.00000 SCALE2 0.000000 0.012096 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010045 0.00000