HEADER HYDROLASE/ANTIBIOTIC 18-OCT-16 5TOP TITLE ATOMIC RESOLUTION X-RAY CRYSTAL STRUCTURE OF A RUTHENOCENE CONJUGATED TITLE 2 BETA-LACTAM ANTIBIOTIC IN COMPLEX WITH CTX-M-14 S70G BETA-LACTAMASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CTX-M-14 CLASS A BETA-LACTAMASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: CTX-M-14; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-LACTAMASE, ORGANOMETALLIC, RUTHENOCENE, CTX-M-14, HYDROLASE- KEYWDS 2 ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.M.LEWANDOWSKI,Y.CHEN REVDAT 5 04-OCT-23 5TOP 1 LINK REVDAT 4 11-DEC-19 5TOP 1 SEQRES REVDAT 3 17-JAN-18 5TOP 1 JRNL REVDAT 2 15-NOV-17 5TOP 1 JRNL REVDAT 1 08-NOV-17 5TOP 0 JRNL AUTH E.M.LEWANDOWSKI,K.G.LETHBRIDGE,R.SANISHVILI,J.SKIBA, JRNL AUTH 2 K.KOWALSKI,Y.CHEN JRNL TITL MECHANISMS OF PROTON RELAY AND PRODUCT RELEASE BY CLASS A JRNL TITL 2 BETA-LACTAMASE AT ULTRAHIGH RESOLUTION. JRNL REF FEBS J. V. 285 87 2018 JRNL REFN ISSN 1742-4658 JRNL PMID 29095570 JRNL DOI 10.1111/FEBS.14315 REMARK 2 REMARK 2 RESOLUTION. 1.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0151 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 133593 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.128 REMARK 3 R VALUE (WORKING SET) : 0.128 REMARK 3 FREE R VALUE : 0.146 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 7118 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8147 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.23 REMARK 3 BIN R VALUE (WORKING SET) : 0.1620 REMARK 3 BIN FREE R VALUE SET COUNT : 457 REMARK 3 BIN FREE R VALUE : 0.1770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3903 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 112 REMARK 3 SOLVENT ATOMS : 578 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.44000 REMARK 3 B22 (A**2) : -0.47000 REMARK 3 B33 (A**2) : 0.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.55000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.038 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.035 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.020 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.942 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4731 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4477 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6457 ; 1.345 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10292 ; 0.687 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 630 ; 6.983 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 194 ;40.426 ;24.433 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 775 ;14.342 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;14.804 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 730 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5662 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1081 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2385 ; 0.445 ; 1.473 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2383 ; 0.445 ; 1.471 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3060 ; 0.645 ; 2.219 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3061 ; 0.645 ; 2.219 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2346 ; 0.440 ; 1.665 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2343 ; 0.440 ; 1.665 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3363 ; 0.613 ; 2.432 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5846 ; 1.760 ;20.323 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5847 ; 1.760 ;20.323 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 9208 ; 3.378 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 141 ;25.087 ; 1.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 9488 ; 6.604 ; 1.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5TOP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-OCT-16. REMARK 100 THE DEPOSITION ID IS D_1000224562. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 133593 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.180 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 (%) : 97.7 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.300 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: PDB ENTRY 4XXR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM PHOSPHATE, PH 7.9, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293.15K 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 53.41050 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 PCA B 25 REMARK 465 THR B 26 REMARK 465 SER B 27 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 O HOH A 410 O HOH A 485 2.03 REMARK 500 REMARK 500 REMARK: NULL 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 VAL A 57 C LEU A 59 N 0.176 REMARK 500 PRO B 252 C GLN B 254 N 0.163 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 GLN B 254 C - N - CA ANGL. DEV. = -18.9 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 CYS A 69 -139.07 48.26 REMARK 500 VAL A 103 -136.21 -112.66 REMARK 500 ASN A 106 51.37 -142.42 REMARK 500 SER A 220 -124.90 -106.76 REMARK 500 GLN A 254 109.90 -56.42 REMARK 500 GLN B 31 -68.03 -22.81 REMARK 500 CYS B 69 -137.04 46.95 REMARK 500 VAL B 103 -135.84 -113.59 REMARK 500 ASN B 106 58.70 -142.00 REMARK 500 SER B 220 -126.38 -106.66 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 A 673 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 674 DISTANCE = 9.84 ANGSTROMS REMARK 525 HOH B 702 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH B 703 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B 704 DISTANCE = 6.80 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 K A 301 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 238 O REMARK 620 2 HOH A 442 O 81.5 REMARK 620 3 HOH A 467 O 82.8 82.4 REMARK 620 4 HOH A 488 O 73.1 152.3 104.7 REMARK 620 5 HOH A 546 O 147.9 117.5 75.1 90.2 REMARK 620 6 HOH A 554 O 79.8 72.2 151.0 92.3 129.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RU A 303 RU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 597 O REMARK 620 2 HOH B 616 O 135.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 301 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 238 O REMARK 620 2 HOH B 437 O 83.4 REMARK 620 3 HOH B 447 O 83.4 80.7 REMARK 620 4 HOH B 472 O 74.7 156.3 104.9 REMARK 620 5 HOH B 481 O 147.6 115.7 75.0 87.8 REMARK 620 6 HOH B 578 O 81.7 76.1 153.6 92.0 126.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JSE A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RU A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JSC A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JSE B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 7G4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RU B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RU B 305 DBREF 5TOP A 25 263 UNP H6UQI0 H6UQI0_ECOLX 22 284 DBREF 5TOP B 25 290 UNP H6UQI0 H6UQI0_ECOLX 22 284 SEQADV 5TOP GLY A 45 UNP H6UQI0 SER 66 ENGINEERED MUTATION SEQADV 5TOP GLY B 70 UNP H6UQI0 SER 66 ENGINEERED MUTATION SEQRES 1 A 263 PCA THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU GLU SEQRES 2 A 263 LYS SER SER GLY GLY ARG LEU GLY VAL ALA LEU ILE ASP SEQRES 3 A 263 THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP GLU SEQRES 4 A 263 ARG PHE PRO MET CYS GLY THR SER LYS VAL MET ALA ALA SEQRES 5 A 263 ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN LEU SEQRES 6 A 263 LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU VAL SEQRES 7 A 263 ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY THR SEQRES 8 A 263 MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN TYR SEQRES 9 A 263 SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN LEU SEQRES 10 A 263 GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA ILE SEQRES 11 A 263 GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO THR SEQRES 12 A 263 LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR THR SEQRES 13 A 263 THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU THR SEQRES 14 A 263 LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN LEU SEQRES 15 A 263 VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SER SEQRES 16 A 263 ILE ARG ALA GLY LEU PRO THR SER TRP THR VAL GLY ASP SEQRES 17 A 263 LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP ILE SEQRES 18 A 263 ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL LEU SEQRES 19 A 263 VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SER SEQRES 20 A 263 ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE ALA SEQRES 21 A 263 GLU GLY LEU SEQRES 1 B 263 PCA THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU GLU SEQRES 2 B 263 LYS SER SER GLY GLY ARG LEU GLY VAL ALA LEU ILE ASP SEQRES 3 B 263 THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP GLU SEQRES 4 B 263 ARG PHE PRO MET CYS GLY THR SER LYS VAL MET ALA ALA SEQRES 5 B 263 ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN LEU SEQRES 6 B 263 LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU VAL SEQRES 7 B 263 ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY THR SEQRES 8 B 263 MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN TYR SEQRES 9 B 263 SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN LEU SEQRES 10 B 263 GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA ILE SEQRES 11 B 263 GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO THR SEQRES 12 B 263 LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR THR SEQRES 13 B 263 THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU THR SEQRES 14 B 263 LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN LEU SEQRES 15 B 263 VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SER SEQRES 16 B 263 ILE ARG ALA GLY LEU PRO THR SER TRP THR VAL GLY ASP SEQRES 17 B 263 LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP ILE SEQRES 18 B 263 ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL LEU SEQRES 19 B 263 VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SER SEQRES 20 B 263 ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE ALA SEQRES 21 B 263 GLU GLY LEU MODRES 5TOP PCA A 25 GLN MODIFIED RESIDUE HET PCA A 25 8 HET K A 301 1 HET JSE A 302 32 HET RU A 303 1 HET JSC A 304 64 HET K B 301 1 HET JSE B 302 32 HET 7G4 B 303 11 HET RU B 304 1 HET RU B 305 1 HETNAM PCA PYROGLUTAMIC ACID HETNAM K POTASSIUM ION HETNAM JSE [(1,2,3,4,5-ETA)-1-(4-{[CARBOXY(4-CARBOXY-5,5-DIMETHYL- HETNAM 2 JSE 1,3-THIAZOLIDIN-2-YL)METHYL]AMINO}-4-OXOBUTANOYL) HETNAM 3 JSE CYCLOPENTADIENYL][(1,2,3,4,5-ETA)- HETNAM 4 JSE CYCLOPENTADIENYL]RUTHENIUM HETNAM RU RUTHENIUM ION HETNAM JSC [(1,2,3,4,5-ETA)-1-(4-{[CARBOXY(4-CARBOXY-5,5-DIMETHYL- HETNAM 2 JSC 1,3-THIAZOLIDIN-2-YL)METHYL]AMINO}-4-OXOBUTANOYL) HETNAM 3 JSC CYCLOPENTADIENYL][(1,2,3,4,5-ETA)- HETNAM 4 JSC CYCLOPENTADIENYL]RUTHENIUM HETNAM 7G4 RUTHENOCENE HETSYN 7G4 BIS[(1,2,3,4,5-ETA)-CYCLOPENTADIENYL]RUTHENIUM FORMUL 1 PCA C5 H7 N O3 FORMUL 3 K 2(K 1+) FORMUL 4 JSE 2(C22 H17 N2 O6 RU S) FORMUL 5 RU 3(RU 3+) FORMUL 6 JSC C22 H17 N2 O6 RU S FORMUL 9 7G4 C10 H10 RU FORMUL 12 HOH *578(H2 O) HELIX 1 AA1 SER A 27 GLY A 41 1 15 HELIX 2 AA2 CYS A 69 THR A 71 5 3 HELIX 3 AA3 SER A 72 GLU A 85 1 14 HELIX 4 AA4 GLN A 89 ASN A 92 5 4 HELIX 5 AA5 LYS A 98 LEU A 102 5 5 HELIX 6 AA6 ILE A 108 VAL A 113 5 6 HELIX 7 AA7 LEU A 119 TYR A 129 1 11 HELIX 8 AA8 ASP A 131 LEU A 142 1 12 HELIX 9 AA9 GLY A 144 ILE A 155 1 12 HELIX 10 AB1 PRO A 167 THR A 171 5 5 HELIX 11 AB2 THR A 182 LEU A 195 1 14 HELIX 12 AB3 GLY A 200 GLY A 213 1 14 HELIX 13 AB4 SER A 220 LEU A 225 5 6 HELIX 14 AB5 ARG A 275 GLY A 289 1 15 HELIX 15 AB6 VAL B 29 GLY B 41 1 13 HELIX 16 AB7 CYS B 69 THR B 71 5 3 HELIX 17 AB8 SER B 72 GLU B 85 1 14 HELIX 18 AB9 GLN B 89 ASN B 92 5 4 HELIX 19 AC1 LYS B 98 LEU B 102 5 5 HELIX 20 AC2 ILE B 108 VAL B 113 5 6 HELIX 21 AC3 LEU B 119 TYR B 129 1 11 HELIX 22 AC4 ASP B 131 LEU B 142 1 12 HELIX 23 AC5 GLY B 144 ILE B 155 1 12 HELIX 24 AC6 PRO B 167 THR B 171 5 5 HELIX 25 AC7 THR B 182 LEU B 195 1 14 HELIX 26 AC8 GLY B 200 GLY B 213 1 14 HELIX 27 AC9 SER B 220 LEU B 225 5 6 HELIX 28 AD1 ARG B 275 GLY B 289 1 15 SHEET 1 AA1 5 GLN A 56 TYR A 60 0 SHEET 2 AA1 5 ARG A 43 ASP A 50 -1 N VAL A 46 O TYR A 60 SHEET 3 AA1 5 LEU A 259 THR A 266 -1 O THR A 266 N ARG A 43 SHEET 4 AA1 5 THR A 243 TRP A 251 -1 N ASP A 246 O THR A 263 SHEET 5 AA1 5 THR A 230 GLY A 238 -1 N THR A 230 O TRP A 251 SHEET 1 AA2 2 PHE A 66 PRO A 67 0 SHEET 2 AA2 2 THR A 180 THR A 181 -1 O THR A 181 N PHE A 66 SHEET 1 AA3 2 PRO A 94 ILE A 97 0 SHEET 2 AA3 2 GLY A 115 THR A 118 -1 O GLY A 115 N ILE A 97 SHEET 1 AA4 5 GLN B 56 TYR B 60 0 SHEET 2 AA4 5 ARG B 43 ASP B 50 -1 N VAL B 46 O TYR B 60 SHEET 3 AA4 5 LEU B 259 THR B 266 -1 O TYR B 264 N GLY B 45 SHEET 4 AA4 5 THR B 243 TRP B 251 -1 N ILE B 250 O LEU B 259 SHEET 5 AA4 5 THR B 230 GLY B 238 -1 N THR B 230 O TRP B 251 SHEET 1 AA5 2 PHE B 66 PRO B 67 0 SHEET 2 AA5 2 THR B 180 THR B 181 -1 O THR B 181 N PHE B 66 SHEET 1 AA6 2 PRO B 94 ILE B 97 0 SHEET 2 AA6 2 GLY B 115 THR B 118 -1 O GLY B 115 N ILE B 97 LINK C PCA A 25 N THR A 26 1555 1555 1.35 LINK O GLY A 238 K K A 301 1555 1555 2.66 LINK K K A 301 O HOH A 442 1555 1555 2.73 LINK K K A 301 O HOH A 467 1555 1555 2.86 LINK K K A 301 O HOH A 488 1555 1555 2.74 LINK K K A 301 O HOH A 546 1555 1555 2.68 LINK K K A 301 O HOH A 554 1555 1555 2.99 LINK RU RU A 303 O AHOH A 597 1555 1555 1.99 LINK RU RU A 303 O BHOH B 616 1555 1654 2.34 LINK O GLY B 238 K K B 301 1555 1555 2.65 LINK K K B 301 O HOH B 437 1555 1555 2.76 LINK K K B 301 O HOH B 447 1555 1555 2.87 LINK K K B 301 O HOH B 472 1555 1555 2.73 LINK K K B 301 O HOH B 481 1555 1555 2.75 LINK K K B 301 O BHOH B 578 1555 1555 2.91 LINK RU RU B 304 O HOH B 630 1555 1555 2.72 LINK RU RU B 305 O HOH B 690 1555 1555 1.97 CISPEP 1 GLU A 166 PRO A 167 0 7.40 CISPEP 2 GLU B 166 PRO B 167 0 7.47 SITE 1 AC1 6 GLY A 238 HOH A 442 HOH A 467 HOH A 488 SITE 2 AC1 6 HOH A 546 HOH A 554 SITE 1 AC2 19 CYS A 69 GLY A 70 LYS A 73 ASN A 104 SITE 2 AC2 19 SER A 130 ASN A 132 PRO A 167 ASN A 170 SITE 3 AC2 19 THR A 235 GLY A 236 SER A 237 ASP A 240 SITE 4 AC2 19 ARG A 256 ARG A 276 HOH A 405 HOH A 413 SITE 5 AC2 19 HOH A 442 HOH A 554 HOH A 589 SITE 1 AC3 2 HOH A 597 HOH B 616 SITE 1 AC4 16 GLN A 31 LYS A 32 ALA A 35 LYS A 82 SITE 2 AC4 16 GLU A 85 THR A 86 ALA A 154 GLN A 192 SITE 3 AC4 16 HIS A 197 ALA A 198 HOH A 523 HOH A 524 SITE 4 AC4 16 GLY B 143 GLY B 146 GLY B 147 HOH B 525 SITE 1 AC5 6 GLY B 238 HOH B 437 HOH B 447 HOH B 472 SITE 2 AC5 6 HOH B 481 HOH B 578 SITE 1 AC6 19 CYS B 69 GLY B 70 LYS B 73 ASN B 104 SITE 2 AC6 19 TYR B 105 SER B 130 ASN B 132 PRO B 167 SITE 3 AC6 19 ASN B 170 THR B 235 GLY B 236 SER B 237 SITE 4 AC6 19 ASP B 240 ARG B 256 ARG B 276 HOH B 431 SITE 5 AC6 19 HOH B 437 HOH B 578 HOH B 582 SITE 1 AC7 2 ILE B 108 GLU B 121 SITE 1 AC8 1 HOH B 630 SITE 1 AC9 1 HOH B 690 CRYST1 45.093 106.821 47.933 90.00 101.66 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 0.022176 0.000000 0.004576 0.00000 SCALE2 0.000000 0.009361 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021302 0.00000 HETATM 1 N PCA A 25 -19.109 25.009 -3.531 1.00 29.77 N ANISOU 1 N PCA A 25 3686 3901 3723 237 430 -113 N HETATM 2 CA PCA A 25 -19.842 24.207 -2.560 1.00 27.44 C ANISOU 2 CA PCA A 25 3494 3550 3379 328 512 -203 C HETATM 3 CB PCA A 25 -21.217 24.001 -3.173 1.00 28.22 C ANISOU 3 CB PCA A 25 3452 3821 3449 230 378 -83 C HETATM 4 CG PCA A 25 -21.026 24.282 -4.658 1.00 29.60 C ANISOU 4 CG PCA A 25 3700 3900 3647 205 379 -80 C HETATM 5 CD PCA A 25 -19.729 25.051 -4.705 1.00 29.98 C ANISOU 5 CD PCA A 25 3766 4013 3612 206 410 -22 C HETATM 6 OE PCA A 25 -19.352 25.658 -5.695 1.00 34.43 O ANISOU 6 OE PCA A 25 4389 4656 4037 175 718 65 O HETATM 7 C PCA A 25 -19.351 22.815 -2.459 1.00 28.07 C ANISOU 7 C PCA A 25 3597 3612 3456 453 586 -332 C HETATM 8 O PCA A 25 -19.467 22.081 -3.470 1.00 24.74 O ANISOU 8 O PCA A 25 3242 2717 3441 819 1312 -1113 O