HEADER TRANSFERASE/ANTIBIOTIC 08-JUL-15 5CFT TITLE CRYSTAL STRUCTURE OF ANT(2")-IA IN COMPLEX WITH AMPCPP AND GENTAMICIN TITLE 2 C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOGLYCOSIDE NUCLEOTIDYLTRANSFERASE (2")-IA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AADB; 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, GENTAMICIN, KEYWDS 2 ROSSMANN FOLD, TRANSFERASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.RODIONOV,A.V.BASSENDEN,A.M.BERGHUIS REVDAT 5 06-MAR-24 5CFT 1 REMARK HETSYN LINK REVDAT 4 08-JAN-20 5CFT 1 REMARK REVDAT 3 22-NOV-17 5CFT 1 REMARK REVDAT 2 01-JUN-16 5CFT 1 JRNL REVDAT 1 16-MAR-16 5CFT 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. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 27371 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1409 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 32.0007 - 3.2307 1.00 2767 155 0.1640 0.1722 REMARK 3 2 3.2307 - 2.5646 1.00 2640 137 0.1469 0.1936 REMARK 3 3 2.5646 - 2.2406 1.00 2625 144 0.1314 0.1558 REMARK 3 4 2.2406 - 2.0357 1.00 2585 142 0.1276 0.1401 REMARK 3 5 2.0357 - 1.8898 1.00 2604 133 0.1269 0.1649 REMARK 3 6 1.8898 - 1.7784 1.00 2545 139 0.1344 0.1791 REMARK 3 7 1.7784 - 1.6894 1.00 2584 135 0.1357 0.1722 REMARK 3 8 1.6894 - 1.6158 1.00 2555 145 0.1449 0.1795 REMARK 3 9 1.6158 - 1.5536 1.00 2560 141 0.1607 0.1819 REMARK 3 10 1.5536 - 1.5000 0.99 2497 138 0.2073 0.2749 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.88 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.59 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 : 0.017 1632 REMARK 3 ANGLE : 1.755 2253 REMARK 3 CHIRALITY : 0.071 242 REMARK 3 PLANARITY : 0.010 303 REMARK 3 DIHEDRAL : 12.704 628 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 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.3087 -3.9299 23.0431 REMARK 3 T TENSOR REMARK 3 T11: 0.1134 T22: 0.0866 REMARK 3 T33: 0.1085 T12: 0.0134 REMARK 3 T13: 0.0239 T23: 0.0226 REMARK 3 L TENSOR REMARK 3 L11: 5.2420 L22: 3.1812 REMARK 3 L33: 2.8973 L12: 1.6149 REMARK 3 L13: 0.8861 L23: 0.7070 REMARK 3 S TENSOR REMARK 3 S11: 0.0106 S12: -0.2276 S13: 0.1244 REMARK 3 S21: 0.1437 S22: -0.0690 S23: 0.2244 REMARK 3 S31: -0.0615 S32: -0.0466 S33: 0.0216 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 21 THROUGH 136 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.2280 -1.7546 12.2289 REMARK 3 T TENSOR REMARK 3 T11: 0.0709 T22: 0.0774 REMARK 3 T33: 0.0731 T12: 0.0023 REMARK 3 T13: 0.0077 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.9605 L22: 1.1833 REMARK 3 L33: 1.4861 L12: 0.2959 REMARK 3 L13: -0.4306 L23: -0.6894 REMARK 3 S TENSOR REMARK 3 S11: -0.0243 S12: -0.0763 S13: -0.0401 REMARK 3 S21: -0.0309 S22: -0.0091 S23: -0.0150 REMARK 3 S31: 0.0567 S32: 0.1006 S33: 0.0291 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 137 THROUGH 154 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.1262 -0.5416 -5.0617 REMARK 3 T TENSOR REMARK 3 T11: 0.2716 T22: 0.2380 REMARK 3 T33: 0.2075 T12: -0.0952 REMARK 3 T13: -0.0987 T23: 0.0551 REMARK 3 L TENSOR REMARK 3 L11: 3.0169 L22: 2.9091 REMARK 3 L33: 3.6930 L12: 1.1837 REMARK 3 L13: 0.4620 L23: 0.7078 REMARK 3 S TENSOR REMARK 3 S11: -0.0882 S12: 0.5864 S13: -0.2796 REMARK 3 S21: -0.4841 S22: 0.4368 S23: 0.2724 REMARK 3 S31: 0.5679 S32: -0.1914 S33: -0.1131 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 155 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.0705 10.1784 -4.5519 REMARK 3 T TENSOR REMARK 3 T11: 0.1062 T22: 0.1198 REMARK 3 T33: 0.1264 T12: -0.0157 REMARK 3 T13: 0.0092 T23: 0.0333 REMARK 3 L TENSOR REMARK 3 L11: 3.9965 L22: 1.1196 REMARK 3 L33: 1.3533 L12: -0.6643 REMARK 3 L13: -1.2736 L23: -0.4323 REMARK 3 S TENSOR REMARK 3 S11: -0.0331 S12: 0.2222 S13: -0.0292 REMARK 3 S21: -0.1333 S22: 0.0249 S23: -0.0168 REMARK 3 S31: 0.0139 S32: -0.1340 S33: -0.0034 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 5CFT 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_1000211508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-15 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.0 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 : 27966 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 46.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 17.20 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: D_1000211507 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 30% PEG 200, 5% PEG 3000, REMARK 280 1MM MNCL2, 10 MM AMPCPP, 10MM GENTAMICIN C1, PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING 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 20.29000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.50000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.01500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.50000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.29000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.01500 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 465 ALA A 177 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 LYS A 41 CD CE NZ REMARK 470 ARG A 67 CD NE CZ NH1 NH2 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 302 O HOH A 437 1.98 REMARK 500 O HOH A 337 O HOH A 355 2.00 REMARK 500 OE1 GLN A 104 O HOH A 302 2.03 REMARK 500 O HOH A 316 O HOH A 462 2.07 REMARK 500 O HOH A 349 O HOH A 388 2.07 REMARK 500 OD1 ASP A 2 O HOH A 303 2.07 REMARK 500 O HOH A 509 O HOH A 522 2.07 REMARK 500 O ALA A 93 O HOH A 304 2.11 REMARK 500 O HOH A 311 O HOH A 358 2.15 REMARK 500 O HOH A 337 O HOH A 462 2.15 REMARK 500 OE1 GLU A 109 O HOH A 305 2.18 REMARK 500 O HOH A 376 O HOH A 469 2.19 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 GLU A 126 CD GLU A 126 OE1 0.069 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 A 77 CB - CG - CD2 ANGL. DEV. = -11.6 DEGREES REMARK 500 CYS A 122 CA - CB - SG ANGL. DEV. = 9.3 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 ALA A 93 -118.00 -92.92 REMARK 500 ASP A 94 -65.57 21.67 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 531 DISTANCE = 6.26 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 98.5 REMARK 620 3 APC A 203 O2A 99.3 99.1 REMARK 620 4 APC A 203 O2B 170.1 89.9 84.4 REMARK 620 5 APC A 203 O2G 88.6 164.5 93.3 82.0 REMARK 620 6 HOH A 334 O 88.0 85.7 170.5 87.4 80.7 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 110.6 REMARK 620 3 ASP A 86 OD2 111.9 86.6 REMARK 620 4 APC A 203 O2A 91.8 93.9 154.6 REMARK 620 5 51G A 204 O6 117.9 131.5 76.3 84.5 REMARK 620 N 1 2 3 4 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 APC A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 51G A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6G A 205 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: 5CFS RELATED DB: PDB REMARK 900 RELATED ID: 5CFU RELATED DB: PDB DBREF 5CFT A 1 177 UNP Q6X3H6 Q6X3H6_PSEAI 73 249 SEQADV 5CFT LEU A -7 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT GLU A -6 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT HIS A -5 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT HIS A -4 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT HIS A -3 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT HIS A -2 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT HIS A -1 UNP Q6X3H6 EXPRESSION TAG SEQADV 5CFT 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 APC A 203 31 HET 51G A 204 33 HET P6G A 205 19 HETNAM MN MANGANESE (II) ION HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM 51G GENTAMICIN C1 HETNAM P6G HEXAETHYLENE GLYCOL HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE HETSYN 51G (1S,2S,3R,4S,6R)-4,6-DIAMINO-3-({(2R,3R,6S)-3-AMINO-6- HETSYN 2 51G [(1R)-1-(METHYLAMINO)ETHYL]TETRAHYDRO-2H-PYRAN-2- HETSYN 3 51G YL}OXY)-2-HYDROX YCYCLOHEXYL 3-DEOXY-4-C-METHYL-3- HETSYN 4 51G (METHYLAMINO)-BETA-L-ARABINOPYRANOSIDE HETSYN P6G POLYETHYLENE GLYCOL PEG400 FORMUL 2 MN 2(MN 2+) FORMUL 4 APC C11 H18 N5 O12 P3 FORMUL 5 51G C21 H43 N5 O7 FORMUL 6 P6G C12 H26 O7 FORMUL 7 HOH *231(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 PHE A 76 O CYS A 87 SHEET 5 AA1 5 ARG A 67 GLU A 71 -1 N GLU A 70 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 2.11 LINK OD2 ASP A 44 MN MN A 202 1555 1555 2.33 LINK OD2 ASP A 46 MN MN A 201 1555 1555 2.09 LINK OD1 ASP A 46 MN MN A 202 1555 1555 2.26 LINK OD2 ASP A 86 MN MN A 202 1555 1555 2.32 LINK MN MN A 201 O2A APC A 203 1555 1555 2.16 LINK MN MN A 201 O2B APC A 203 1555 1555 2.18 LINK MN MN A 201 O2G APC A 203 1555 1555 2.28 LINK MN MN A 201 O HOH A 334 1555 1555 2.28 LINK MN MN A 202 O2A APC A 203 1555 1555 2.34 LINK MN MN A 202 O6 51G A 204 1555 1555 2.34 SITE 1 AC1 5 ASP A 44 ASP A 46 MN A 202 APC A 203 SITE 2 AC1 5 HOH A 334 SITE 1 AC2 6 ASP A 44 ASP A 46 ASP A 86 MN A 201 SITE 2 AC2 6 APC A 203 51G A 204 SITE 1 AC3 22 GLY A 28 ARG A 40 HIS A 42 ASP A 43 SITE 2 AC3 22 ASP A 44 ASP A 46 ASP A 131 TYR A 132 SITE 3 AC3 22 TYR A 135 HIS A 148 MN A 201 MN A 202 SITE 4 AC3 22 51G A 204 HOH A 307 HOH A 308 HOH A 334 SITE 5 AC3 22 HOH A 342 HOH A 361 HOH A 371 HOH A 377 SITE 6 AC3 22 HOH A 383 HOH A 405 SITE 1 AC4 17 ASP A 46 TYR A 74 LEU A 77 ASP A 86 SITE 2 AC4 17 GLU A 88 ILE A 99 ALA A 100 ASP A 131 SITE 3 AC4 17 TYR A 134 MN A 202 APC A 203 HOH A 361 SITE 4 AC4 17 HOH A 383 HOH A 385 HOH A 398 HOH A 418 SITE 5 AC4 17 HOH A 441 SITE 1 AC5 11 THR A 7 LYS A 11 ARG A 34 LEU A 35 SITE 2 AC5 11 GLY A 36 LEU A 64 ALA A 111 GLU A 112 SITE 3 AC5 11 VAL A 114 PRO A 119 HOH A 365 CRYST1 40.580 46.030 89.000 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 0.024643 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021725 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011236 0.00000