HEADER TRANSFERASE/ANTIBIOTIC 08-JUL-15 5CFS TITLE CRYSTAL STRUCTURE OF ANT(2")-IA IN COMPLEX WITH AMPCPP AND TOBRAMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: AAD(2''),GENTAMICIN 2''-NUCLEOTIDYLTRANSFERASE,GENTAMICIN COMPND 3 RESISTANCE PROTEIN; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: AADB, TNCP6; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PET-22B(+) KEYWDS ANTIBIOTIC RESISTANCE, NUCLEOTIDYLTRANSFERASE, AMPCPP, TOBRAMYCIN, KEYWDS 2 ROSSMANN FOLD, TRANSFERASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.RODIONOV,A.V.BASSENDEN,A.M.BERGHUIS REVDAT 5 27-SEP-23 5CFS 1 REMARK LINK REVDAT 4 08-JAN-20 5CFS 1 REMARK REVDAT 3 22-NOV-17 5CFS 1 REMARK REVDAT 2 01-JUN-16 5CFS 1 JRNL REVDAT 1 16-MAR-16 5CFS 0 JRNL AUTH A.V.BASSENDEN,D.RODIONOV,K.SHI,A.M.BERGHUIS JRNL TITL STRUCTURAL ANALYSIS OF THE TOBRAMYCIN AND GENTAMICIN JRNL TITL 2 CLINICAL RESISTOME REVEALS LIMITATIONS FOR NEXT-GENERATION JRNL TITL 3 AMINOGLYCOSIDE DESIGN. JRNL REF ACS CHEM.BIOL. V. 11 1339 2016 JRNL REFN ESSN 1554-8937 JRNL PMID 26900880 JRNL DOI 10.1021/ACSCHEMBIO.5B01070 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 19148 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 973 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 37.1047 - 3.2515 1.00 2748 155 0.1608 0.1819 REMARK 3 2 3.2515 - 2.5810 1.00 2627 137 0.1619 0.1645 REMARK 3 3 2.5810 - 2.2548 0.99 2584 138 0.1536 0.1911 REMARK 3 4 2.2548 - 2.0487 1.00 2553 146 0.1609 0.1847 REMARK 3 5 2.0487 - 1.9018 1.00 2580 128 0.1858 0.2390 REMARK 3 6 1.9018 - 1.7897 1.00 2560 138 0.1896 0.2576 REMARK 3 7 1.7897 - 1.7001 1.00 2523 131 0.2010 0.2438 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.96 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 : 0.006 1573 REMARK 3 ANGLE : 0.978 2157 REMARK 3 CHIRALITY : 0.036 234 REMARK 3 PLANARITY : 0.004 285 REMARK 3 DIHEDRAL : 13.537 602 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.1583 -4.6682 21.8276 REMARK 3 T TENSOR REMARK 3 T11: 0.1700 T22: 0.1443 REMARK 3 T33: 0.1464 T12: 0.0012 REMARK 3 T13: 0.0158 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 4.1663 L22: 2.8774 REMARK 3 L33: 3.0729 L12: 0.6442 REMARK 3 L13: 0.8043 L23: -0.1385 REMARK 3 S TENSOR REMARK 3 S11: -0.0531 S12: -0.1847 S13: 0.1951 REMARK 3 S21: -0.0393 S22: -0.0123 S23: 0.2700 REMARK 3 S31: 0.1951 S32: -0.2675 S33: 0.0810 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 17 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.5886 1.7012 15.9960 REMARK 3 T TENSOR REMARK 3 T11: 0.1204 T22: 0.1698 REMARK 3 T33: 0.1306 T12: -0.0160 REMARK 3 T13: 0.0139 T23: 0.0161 REMARK 3 L TENSOR REMARK 3 L11: 2.4045 L22: 1.6668 REMARK 3 L33: 2.2949 L12: -0.0851 REMARK 3 L13: 0.3099 L23: 0.3251 REMARK 3 S TENSOR REMARK 3 S11: 0.1113 S12: -0.3491 S13: -0.1344 REMARK 3 S21: 0.0983 S22: 0.0627 S23: 0.0891 REMARK 3 S31: -0.0012 S32: -0.0519 S33: -0.2074 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 42 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.3310 -2.1383 9.7661 REMARK 3 T TENSOR REMARK 3 T11: 0.1347 T22: 0.1253 REMARK 3 T33: 0.1416 T12: -0.0021 REMARK 3 T13: 0.0142 T23: -0.0095 REMARK 3 L TENSOR REMARK 3 L11: 1.1794 L22: 1.2830 REMARK 3 L33: 2.0616 L12: -0.1362 REMARK 3 L13: -0.4823 L23: -0.7640 REMARK 3 S TENSOR REMARK 3 S11: -0.0246 S12: -0.0412 S13: -0.0046 REMARK 3 S21: -0.0868 S22: 0.0313 S23: -0.0236 REMARK 3 S31: 0.1292 S32: 0.1559 S33: -0.0131 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 153 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0951 9.8472 -4.2337 REMARK 3 T TENSOR REMARK 3 T11: 0.1298 T22: 0.1505 REMARK 3 T33: 0.1725 T12: 0.0033 REMARK 3 T13: 0.0297 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 4.3259 L22: 0.9920 REMARK 3 L33: 1.2314 L12: -0.9161 REMARK 3 L13: -1.7573 L23: -0.1465 REMARK 3 S TENSOR REMARK 3 S11: 0.1101 S12: 0.3460 S13: 0.1357 REMARK 3 S21: -0.1967 S22: -0.0243 S23: -0.0260 REMARK 3 S31: -0.0629 S32: -0.1233 S33: -0.0978 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 5CFS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211507. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-FEB-15 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.541780 REMARK 200 MONOCHROMATOR : RIGAKU VARIMAX-HF FOCUSING REMARK 200 MIRROR REMARK 200 OPTICS : 2X2 BINNING REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 0.3.7.0, XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19150 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 37.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 25.60 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 43.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.57400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 4XJE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES PH 6.3, 28% PEG 200, 5% PEG REMARK 280 3000, 1MM MNCL2, 10 MM AMPCPP, 10MM TOBRAMYCIN, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 20.36000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.97500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.98500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.97500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.36000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 22.98500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 LEU A -7 REMARK 465 GLU A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 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 ASP A 2 CG OD1 OD2 REMARK 470 LYS A 41 CD CE NZ REMARK 470 ARG A 67 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 73 CG OD1 OD2 REMARK 470 GLU A 109 CG CD OE1 OE2 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 349 O HOH A 388 2.13 REMARK 500 O HOH A 442 O HOH A 452 2.17 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 OD1 ASP A 82 NH1 ARG A 118 3445 2.16 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 ASP A 94 -82.97 61.84 REMARK 500 GLU A 101 -5.95 72.14 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 A 475 DISTANCE = 6.75 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 MN A 201 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 44 OD1 REMARK 620 2 ASP A 46 OD2 98.9 REMARK 620 3 APC A 204 O2B 168.9 88.5 REMARK 620 4 APC A 204 O2A 103.1 99.2 83.7 REMARK 620 5 APC A 204 O2G 89.2 161.7 81.4 94.9 REMARK 620 6 HOH A 314 O 83.6 89.0 88.4 168.4 75.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 44 OD2 REMARK 620 2 ASP A 46 OD1 107.1 REMARK 620 3 ASP A 86 OD2 110.8 81.5 REMARK 620 4 TOY A 203 O23 151.2 99.4 83.9 REMARK 620 5 TOY A 203 N33 88.4 161.9 84.4 67.8 REMARK 620 6 APC A 204 O2A 94.2 98.1 154.1 70.6 89.8 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 MN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TOY A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG0 A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6G A 206 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4XJE RELATED DB: PDB REMARK 900 4XJE CONTAINS THE SAME PROTEIN IN COMPLEX WITH TOBRAMYCIN AND AMP REMARK 900 RELATED ID: 5CFT RELATED DB: PDB REMARK 900 RELATED ID: 5CFU RELATED DB: PDB DBREF 5CFS A 1 177 UNP Q6X3H6 Q6X3H6_PSEAI 73 249 SEQADV 5CFS LEU A -7 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS GLU A -6 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A -5 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A -4 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A -3 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A -2 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A -1 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFS HIS A 0 UNP Q6X3H6 EXPRESSION TAG SEQRES 1 A 185 LEU GLU HIS HIS HIS HIS HIS HIS MET ASP THR THR GLN SEQRES 2 A 185 VAL THR LEU ILE HIS LYS ILE LEU ALA ALA ALA ASP GLU SEQRES 3 A 185 ARG ASN LEU PRO LEU TRP ILE GLY GLY GLY TRP ALA ILE SEQRES 4 A 185 ASP ALA ARG LEU GLY ARG VAL THR ARG LYS HIS ASP ASP SEQRES 5 A 185 ILE ASP LEU THR PHE PRO GLY GLU ARG ARG GLY GLU LEU SEQRES 6 A 185 GLU ALA ILE VAL GLU MET LEU GLY GLY ARG VAL MET GLU SEQRES 7 A 185 GLU LEU ASP TYR GLY PHE LEU ALA GLU ILE GLY ASP GLU SEQRES 8 A 185 LEU LEU ASP CYS GLU PRO ALA TRP TRP ALA ASP GLU ALA SEQRES 9 A 185 TYR GLU ILE ALA GLU ALA PRO GLN GLY SER CYS PRO GLU SEQRES 10 A 185 ALA ALA GLU GLY VAL ILE ALA GLY ARG PRO VAL ARG CYS SEQRES 11 A 185 ASN SER TRP GLU ALA ILE ILE TRP ASP TYR PHE TYR TYR SEQRES 12 A 185 ALA ASP GLU VAL PRO PRO VAL ASP TRP PRO THR LYS HIS SEQRES 13 A 185 ILE GLU SER TYR ARG LEU ALA CYS THR SER LEU GLY ALA SEQRES 14 A 185 GLU LYS VAL GLU VAL LEU ARG ALA ALA PHE ARG SER ARG SEQRES 15 A 185 TYR ALA ALA HET MN A 201 1 HET MN A 202 1 HET TOY A 203 32 HET APC A 204 31 HET PG0 A 205 8 HET P6G A 206 19 HETNAM MN MANGANESE (II) ION HETNAM TOY TOBRAMYCIN HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM PG0 2-(2-METHOXYETHOXY)ETHANOL HETNAM P6G HEXAETHYLENE GLYCOL HETSYN TOY 4-AMINO-2-[4,6-DIAMINO-3-(3-AMINO-6-AMINOMETHYL-5- HETSYN 2 TOY HYDROXY-TETRAHYDRO-PYRAN-2-YLOXY)-2-HYDROXY- HETSYN 3 TOY CYCLOHEXYLOXY]-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,5- HETSYN 4 TOY DIOL HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE HETSYN PG0 PEG 6000 HETSYN P6G POLYETHYLENE GLYCOL PEG400 FORMUL 2 MN 2(MN 2+) FORMUL 4 TOY C18 H37 N5 O9 FORMUL 5 APC C11 H18 N5 O12 P3 FORMUL 6 PG0 C5 H12 O3 FORMUL 7 P6G C12 H26 O7 FORMUL 8 HOH *175(H2 O) HELIX 1 AA1 ASP A 2 ARG A 19 1 18 HELIX 2 AA2 GLY A 26 GLY A 36 1 11 HELIX 3 AA3 ARG A 53 LEU A 64 1 12 HELIX 4 AA4 SER A 124 VAL A 139 1 16 HELIX 5 AA5 PRO A 140 TRP A 144 5 5 HELIX 6 AA6 PRO A 145 GLY A 160 1 16 HELIX 7 AA7 GLY A 160 ALA A 176 1 17 SHEET 1 AA1 5 TRP A 24 ILE A 25 0 SHEET 2 AA1 5 ILE A 45 PRO A 50 -1 O THR A 48 N TRP A 24 SHEET 3 AA1 5 GLU A 83 ALA A 93 1 O ASP A 86 N ILE A 45 SHEET 4 AA1 5 PHE A 76 ILE A 80 -1 N ALA A 78 O LEU A 85 SHEET 5 AA1 5 ARG A 67 GLU A 71 -1 N MET A 69 O LEU A 77 SHEET 1 AA2 4 TRP A 24 ILE A 25 0 SHEET 2 AA2 4 ILE A 45 PRO A 50 -1 O THR A 48 N TRP A 24 SHEET 3 AA2 4 GLU A 83 ALA A 93 1 O ASP A 86 N ILE A 45 SHEET 4 AA2 4 ALA A 96 GLU A 98 -1 O ALA A 96 N ALA A 93 SHEET 1 AA3 2 GLY A 113 ILE A 115 0 SHEET 2 AA3 2 ARG A 118 VAL A 120 -1 O VAL A 120 N GLY A 113 LINK OD1 ASP A 44 MN MN A 201 1555 1555 2.13 LINK OD2 ASP A 44 MN MN A 202 1555 1555 2.19 LINK OD2 ASP A 46 MN MN A 201 1555 1555 2.16 LINK OD1 ASP A 46 MN MN A 202 1555 1555 2.20 LINK OD2 ASP A 86 MN MN A 202 1555 1555 2.28 LINK MN MN A 201 O2B APC A 204 1555 1555 2.18 LINK MN MN A 201 O2A APC A 204 1555 1555 2.15 LINK MN MN A 201 O2G APC A 204 1555 1555 2.27 LINK MN MN A 201 O HOH A 314 1555 1555 2.27 LINK MN MN A 202 O23 TOY A 203 1555 1555 2.58 LINK MN MN A 202 N33 TOY A 203 1555 1555 2.56 LINK MN MN A 202 O2A APC A 204 1555 1555 2.42 SITE 1 AC1 5 ASP A 44 ASP A 46 MN A 202 APC A 204 SITE 2 AC1 5 HOH A 314 SITE 1 AC2 6 ASP A 44 ASP A 46 ASP A 86 MN A 201 SITE 2 AC2 6 TOY A 203 APC A 204 SITE 1 AC3 18 ASP A 44 ASP A 46 TYR A 74 ASP A 86 SITE 2 AC3 18 GLU A 88 ILE A 99 ALA A 100 ASP A 131 SITE 3 AC3 18 TYR A 134 MN A 202 APC A 204 HOH A 306 SITE 4 AC3 18 HOH A 344 HOH A 350 HOH A 354 HOH A 372 SITE 5 AC3 18 HOH A 413 HOH A 416 SITE 1 AC4 20 GLY A 28 ARG A 40 HIS A 42 ASP A 43 SITE 2 AC4 20 ASP A 44 ASP A 46 ASP A 131 TYR A 132 SITE 3 AC4 20 TYR A 135 LYS A 147 HIS A 148 MN A 201 SITE 4 AC4 20 MN A 202 TOY A 203 HOH A 306 HOH A 307 SITE 5 AC4 20 HOH A 314 HOH A 356 HOH A 358 HOH A 372 SITE 1 AC5 7 VAL A 6 HIS A 10 ASP A 17 ILE A 115 SITE 2 AC5 7 ALA A 116 ARG A 118 VAL A 120 SITE 1 AC6 11 THR A 7 LEU A 8 LYS A 11 ARG A 34 SITE 2 AC6 11 GLY A 36 LEU A 64 ALA A 111 GLU A 112 SITE 3 AC6 11 GLY A 113 VAL A 114 PRO A 119 CRYST1 40.720 45.970 89.950 90.00 90.00 90.00 P 21 21 21 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 0.024558 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021753 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011117 0.00000