HEADER TRANSFERASE 22-MAR-11 3R70 OBSLTE 01-FEB-12 3R70 4DCA TITLE CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE APH(2'')-IB, TITLE 2 ADP-BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOGLYCOSIDE PHOSPHOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: APH(2')-IB; 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: P15TV LIC KEYWDS STRUCTURAL GENOMICS, CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS KEYWDS 2 DISEASES, CSGID, ONTARIO CENTRE FOR STRUCTURAL PROTEOMICS, OCSP, KEYWDS 3 EUKARYOTIC PROTEIN KINASE-LIKE FOLD, AMINOGLYCOSIDE KEYWDS 4 PHOSPHOTRANSFERASE, KINASE, ANTIBIOTIC RESISTANCE, AMINOGLYCOSIDES, KEYWDS 5 INTRACELLULAR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.J.STOGIOS,A.U.SINGER,K.TAN,B.NOCEK,E.EVDOKMOVA,E.EGOROVA,R.DI LEO, AUTHOR 2 A.SAVCHENKO,W.F.ANDERSON,CENTER FOR STRUCTURAL GENOMICS OF AUTHOR 3 INFECTIOUS DISEASES (CSGID),ONTARIO CENTRE FOR STRUCTURAL PROTEOMICS AUTHOR 4 (OCSP) REVDAT 3 01-FEB-12 3R70 1 OBSLTE VERSN REVDAT 2 20-APR-11 3R70 1 HEADER KEYWDS REVDAT 1 13-APR-11 3R70 0 JRNL AUTH P.J.STOGIOS,A.U.SINGER,K.TAN,B.NOCEK,E.EVDOKMOVA,E.EGOROVA, JRNL AUTH 2 R.DI LEO,A.SAVCHENKO,W.F.ANDERSON, JRNL AUTH 3 CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES JRNL AUTH 4 (CSGID) JRNL TITL CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE JRNL TITL 2 APH(2'')-IB, ADP-BOUND JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.38 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 32088 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1607 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 29.3852 - 3.8766 0.95 3235 176 0.2041 0.1936 REMARK 3 2 3.8766 - 3.0780 1.00 3257 169 0.1744 0.2026 REMARK 3 3 3.0780 - 2.6893 1.00 3222 169 0.1968 0.2397 REMARK 3 4 2.6893 - 2.4435 0.99 3180 172 0.1977 0.2616 REMARK 3 5 2.4435 - 2.2684 0.98 3148 161 0.1939 0.2324 REMARK 3 6 2.2684 - 2.1347 0.97 3095 163 0.1873 0.2195 REMARK 3 7 2.1347 - 2.0279 0.96 3050 155 0.2000 0.2515 REMARK 3 8 2.0279 - 1.9396 0.91 2909 158 0.2143 0.2698 REMARK 3 9 1.9396 - 1.8649 0.88 2789 138 0.2467 0.3062 REMARK 3 10 1.8649 - 1.8010 0.82 2596 146 0.2896 0.3508 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 : 0.34 REMARK 3 B_SOL : 54.30 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL 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) : 8.48180 REMARK 3 B22 (A**2) : -4.73570 REMARK 3 B33 (A**2) : -3.74610 REMARK 3 B12 (A**2) : -0.00000 REMARK 3 B13 (A**2) : -0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.007 2617 REMARK 3 ANGLE : 1.076 3528 REMARK 3 CHIRALITY : 0.066 381 REMARK 3 PLANARITY : 0.004 452 REMARK 3 DIHEDRAL : 13.210 1006 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: chain a and resid 4:91 REMARK 3 ORIGIN FOR THE GROUP (A): 8.6194 11.0475 12.5648 REMARK 3 T TENSOR REMARK 3 T11: 0.3526 T22: 0.2782 REMARK 3 T33: 0.2459 T12: 0.0689 REMARK 3 T13: -0.0484 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 1.1543 L22: 0.4601 REMARK 3 L33: 0.9313 L12: 0.5277 REMARK 3 L13: -0.8095 L23: -0.0694 REMARK 3 S TENSOR REMARK 3 S11: -0.0994 S12: -0.3124 S13: -0.2798 REMARK 3 S21: 0.1926 S22: -0.0492 S23: -0.1220 REMARK 3 S31: 0.3790 S32: 0.1247 S33: 0.1100 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: chain a and resid 92:299 REMARK 3 ORIGIN FOR THE GROUP (A): 2.8141 21.1604 35.9634 REMARK 3 T TENSOR REMARK 3 T11: 0.1920 T22: 0.2221 REMARK 3 T33: 0.2157 T12: -0.0275 REMARK 3 T13: 0.0143 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 0.4443 L22: 0.9031 REMARK 3 L33: 1.1789 L12: -0.0518 REMARK 3 L13: 0.1542 L23: 0.0303 REMARK 3 S TENSOR REMARK 3 S11: 0.0863 S12: -0.0735 S13: 0.0668 REMARK 3 S21: 0.0327 S22: -0.1099 S23: 0.0742 REMARK 3 S31: 0.1395 S32: -0.0825 S33: 0.0263 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 3R70 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAR-11. REMARK 100 THE RCSB ID CODE IS RCSB064568. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS 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) : 0.97940 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33721 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04700 REMARK 200 FOR THE DATA SET : 36.0900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.69400 REMARK 200 FOR SHELL : 2.230 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MG CHLORIDE, 0.1 M BIS-TRIS PH REMARK 280 6.5, 25% PEG3350, 2.5 MM ATP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 32.46900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.23250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.46900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.23250 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS THE MONOMER IN THE ASYMMETRIC REMARK 300 UNIT. 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 553 LIES ON A SPECIAL POSITION. 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 MSE A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 ARG A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 GLY A 0 REMARK 465 MSE A 1 REMARK 465 VAL A 2 REMARK 465 ASN A 3 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 166 CG CD OE1 OE2 REMARK 470 LYS A 249 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 SER A 26 137.85 -171.46 REMARK 500 GLN A 38 -33.24 -135.65 REMARK 500 ASN A 191 -12.15 81.78 REMARK 500 ALA A 250 73.37 -153.79 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 571 DISTANCE = 5.27 ANGSTROMS REMARK 525 HOH A 583 DISTANCE = 5.81 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PE3 A 340 REMARK 610 PE3 A 341 REMARK 610 PE3 A 342 REMARK 610 PE3 A 343 REMARK 610 PE3 A 344 REMARK 610 PE3 A 345 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 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 197 OD1 REMARK 620 2 ASP A 210 OD2 83.2 REMARK 620 3 ADP A 401 O1B 166.6 89.6 REMARK 620 4 ADP A 401 O1A 86.8 72.1 80.2 REMARK 620 5 HOH A 499 O 71.7 142.2 108.5 78.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 322 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 181 O REMARK 620 2 ASP A 218 OD2 116.0 REMARK 620 3 HOH A 457 O 145.8 97.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 317 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 249 O REMARK 620 2 HOH A 603 O 111.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 310 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 480 O REMARK 620 2 HOH A 383 O 111.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 316 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 317 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 318 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 319 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 321 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 322 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 326 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 327 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 328 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 329 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 330 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 332 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 333 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 334 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 335 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 336 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 337 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 338 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 339 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 340 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 341 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 342 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 343 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 344 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE3 A 345 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R6Z RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE REMARK 900 APH(2'')-IB, APO FORM REMARK 900 RELATED ID: IDP91187 RELATED DB: TARGETDB DBREF 3R70 A 1 299 UNP Q93ET9 Q93ET9_ECOLX 1 299 SEQADV 3R70 MSE A -20 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 GLY A -19 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 SER A -18 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 SER A -17 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -16 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -15 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -14 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -13 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -12 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 HIS A -11 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 SER A -10 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 SER A -9 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 GLY A -8 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 ARG A -7 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 GLU A -6 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 ASN A -5 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 LEU A -4 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 TYR A -3 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 PHE A -2 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 GLN A -1 UNP Q93ET9 EXPRESSION TAG SEQADV 3R70 GLY A 0 UNP Q93ET9 EXPRESSION TAG SEQRES 1 A 320 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 320 ARG GLU ASN LEU TYR PHE GLN GLY MSE VAL ASN LEU ASP SEQRES 3 A 320 ALA GLU ILE TYR GLU HIS LEU ASN LYS GLN ILE LYS ILE SEQRES 4 A 320 ASN GLU LEU ARG TYR LEU SER SER GLY ASP ASP SER ASP SEQRES 5 A 320 THR PHE LEU CYS ASN GLU GLN TYR VAL VAL LYS VAL PRO SEQRES 6 A 320 LYS ARG ASP SER VAL ARG ILE SER GLN LYS ARG GLU LEU SEQRES 7 A 320 GLU LEU TYR ARG PHE LEU GLU ASN CYS LYS LEU SER TYR SEQRES 8 A 320 GLN ILE PRO ALA VAL VAL TYR GLN SER ASP ARG PHE ASN SEQRES 9 A 320 ILE MSE LYS TYR ILE LYS GLY GLU ARG ILE THR TYR GLU SEQRES 10 A 320 GLN TYR HIS LYS LEU SER GLU LYS GLU LYS ASP ALA LEU SEQRES 11 A 320 ALA TYR ASP GLU ALA THR PHE LEU LYS GLU LEU HIS SER SEQRES 12 A 320 ILE GLU ILE ASP CYS SER VAL SER LEU PHE SER ASP ALA SEQRES 13 A 320 LEU VAL ASN LYS LYS ASP LYS PHE LEU GLN ASP LYS LYS SEQRES 14 A 320 LEU LEU ILE SER ILE LEU GLU LYS GLU GLN LEU LEU THR SEQRES 15 A 320 ASP GLU MSE LEU GLU HIS ILE GLU THR ILE TYR GLU ASN SEQRES 16 A 320 ILE LEU SER ASN ALA VAL LEU PHE LYS TYR THR PRO CYS SEQRES 17 A 320 LEU VAL HIS ASN ASP PHE SER ALA ASN ASN MSE ILE PHE SEQRES 18 A 320 ARG ASN ASN ARG LEU PHE GLY VAL ILE ASP PHE GLY ASP SEQRES 19 A 320 PHE ASN VAL GLY ASP PRO ASP ASN ASP PHE LEU CYS LEU SEQRES 20 A 320 LEU ASP CYS SER THR ASP ASP PHE GLY LYS GLU PHE GLY SEQRES 21 A 320 ARG LYS VAL LEU LYS TYR TYR GLN HIS LYS ALA PRO GLU SEQRES 22 A 320 VAL ALA GLU ARG LYS ALA GLU LEU ASN ASP VAL TYR TRP SEQRES 23 A 320 SER ILE ASP GLN ILE ILE TYR GLY TYR GLU ARG LYS ASP SEQRES 24 A 320 ARG GLU MSE LEU ILE LYS ASP VAL SER GLU LEU LEU GLN SEQRES 25 A 320 THR GLN ALA GLU MSE PHE ILE PHE MODRES 3R70 MSE A 85 MET SELENOMETHIONINE MODRES 3R70 MSE A 164 MET SELENOMETHIONINE MODRES 3R70 MSE A 198 MET SELENOMETHIONINE MODRES 3R70 MSE A 281 MET SELENOMETHIONINE MODRES 3R70 MSE A 296 MET SELENOMETHIONINE HET MSE A 85 16 HET MSE A 164 8 HET MSE A 198 8 HET MSE A 281 16 HET MSE A 296 8 HET ADP A 401 27 HET MG A 402 1 HET NA A 300 1 HET NA A 301 1 HET NA A 302 1 HET NA A 303 1 HET NA A 304 1 HET NA A 305 1 HET NA A 306 1 HET NA A 307 1 HET NA A 308 1 HET NA A 309 1 HET NA A 310 1 HET NA A 311 1 HET NA A 312 1 HET NA A 313 1 HET NA A 314 1 HET NA A 315 1 HET NA A 316 1 HET NA A 317 1 HET NA A 318 1 HET NA A 319 1 HET NA A 320 1 HET NA A 321 1 HET NA A 322 1 HET NA A 323 1 HET NA A 324 1 HET NA A 325 1 HET CL A 326 1 HET CL A 327 1 HET CL A 328 1 HET CL A 329 1 HET CL A 330 1 HET CL A 331 1 HET CL A 332 1 HET CL A 333 1 HET CL A 334 1 HET CL A 335 1 HET CL A 336 1 HET CL A 337 1 HET CL A 338 1 HET CL A 339 1 HET PE3 A 340 10 HET PE3 A 341 7 HET PE3 A 342 4 HET PE3 A 343 4 HET PE3 A 344 4 HET PE3 A 345 4 HETNAM MSE SELENOMETHIONINE HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM PE3 3,6,9,12,15,18,21,24,27,30,33,36,39- HETNAM 2 PE3 TRIDECAOXAHENTETRACONTANE-1,41-DIOL HETSYN PE3 POLYETHYLENE GLYCOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 MG MG 2+ FORMUL 4 NA 26(NA 1+) FORMUL 30 CL 14(CL 1-) FORMUL 44 PE3 6(C28 H58 O15) FORMUL 50 HOH *256(H2 O) HELIX 1 1 ASP A 5 ILE A 16 1 12 HELIX 2 2 ARG A 46 GLU A 64 1 19 HELIX 3 3 THR A 94 HIS A 99 1 6 HELIX 4 4 SER A 102 ILE A 123 1 22 HELIX 5 5 VAL A 129 ASP A 134 1 6 HELIX 6 6 ASN A 138 GLU A 157 1 20 HELIX 7 7 THR A 161 SER A 177 1 17 HELIX 8 8 ASN A 178 PHE A 182 5 5 HELIX 9 9 SER A 194 ASN A 196 5 3 HELIX 10 10 ASP A 218 ASP A 222 5 5 HELIX 11 11 PHE A 223 ASP A 228 1 6 HELIX 12 12 GLY A 235 TYR A 246 1 12 HELIX 13 13 ALA A 250 TYR A 264 1 15 HELIX 14 14 TYR A 264 TYR A 272 1 9 HELIX 15 15 ASP A 278 THR A 292 1 15 HELIX 16 16 GLN A 293 ILE A 298 5 6 SHEET 1 A 5 LEU A 21 SER A 26 0 SHEET 2 A 5 SER A 30 CYS A 35 -1 O LEU A 34 N ARG A 22 SHEET 3 A 5 TYR A 39 PRO A 44 -1 O TYR A 39 N CYS A 35 SHEET 4 A 5 ASN A 83 LYS A 86 -1 O ASN A 83 N LYS A 42 SHEET 5 A 5 VAL A 75 GLN A 78 -1 N VAL A 76 O ILE A 84 SHEET 1 B 2 CYS A 187 VAL A 189 0 SHEET 2 B 2 ASN A 215 GLY A 217 -1 O ASN A 215 N VAL A 189 SHEET 1 C 2 MSE A 198 ARG A 201 0 SHEET 2 C 2 ARG A 204 VAL A 208 -1 O PHE A 206 N ILE A 199 LINK C ILE A 84 N AMSE A 85 1555 1555 1.33 LINK C ILE A 84 N BMSE A 85 1555 1555 1.33 LINK C AMSE A 85 N LYS A 86 1555 1555 1.32 LINK C BMSE A 85 N LYS A 86 1555 1555 1.33 LINK C GLU A 163 N MSE A 164 1555 1555 1.34 LINK C MSE A 164 N LEU A 165 1555 1555 1.33 LINK C ASN A 197 N MSE A 198 1555 1555 1.33 LINK C MSE A 198 N ILE A 199 1555 1555 1.32 LINK C GLU A 280 N AMSE A 281 1555 1555 1.33 LINK C GLU A 280 N BMSE A 281 1555 1555 1.33 LINK C AMSE A 281 N LEU A 282 1555 1555 1.33 LINK C BMSE A 281 N LEU A 282 1555 1555 1.33 LINK C GLU A 295 N MSE A 296 1555 1555 1.33 LINK C MSE A 296 N PHE A 297 1555 1555 1.33 LINK OD1 ASN A 197 MG MG A 402 1555 1555 2.33 LINK OD2 ASP A 210 MG MG A 402 1555 1555 2.53 LINK O1B ADP A 401 MG MG A 402 1555 1555 2.55 LINK O1A ADP A 401 MG MG A 402 1555 1555 2.57 LINK MG MG A 402 O HOH A 499 1555 1555 2.60 LINK O LEU A 181 NA NA A 322 1555 1555 2.72 LINK OD2 ASP A 218 NA NA A 322 1555 1555 2.76 LINK NA NA A 322 O HOH A 457 1555 1555 2.95 LINK O LYS A 249 NA NA A 317 1555 1555 3.00 LINK NA NA A 313 O HOH A 587 1555 1555 3.09 LINK NA NA A 317 O HOH A 603 1555 1555 3.10 LINK NA NA A 310 O HOH A 480 1555 1555 3.10 LINK NA NA A 319 O HOH A 452 1555 1555 3.14 LINK NA NA A 310 O HOH A 383 1555 1555 3.18 SITE 1 AC1 12 SER A 25 LYS A 42 MSE A 85 LYS A 86 SITE 2 AC1 12 TYR A 87 ILE A 88 ASN A 197 ILE A 199 SITE 3 AC1 12 ILE A 209 ASP A 210 MG A 402 HOH A 469 SITE 1 AC2 4 ASN A 197 ASP A 210 ADP A 401 HOH A 499 SITE 1 AC3 1 SER A 30 SITE 1 AC4 2 GLU A 237 ARG A 240 SITE 1 AC5 4 GLY A 235 LYS A 236 GLU A 237 HOH A 480 SITE 1 AC6 3 SER A 52 ARG A 55 HOH A 587 SITE 1 AC7 3 TRP A 265 ASP A 268 TYR A 272 SITE 1 AC8 1 ARG A 201 SITE 1 AC9 1 GLU A 155 SITE 1 BC1 4 SER A 26 LYS A 45 LYS A 249 HOH A 603 SITE 1 BC2 1 GLU A 252 SITE 1 BC3 1 TYR A 95 SITE 1 BC4 1 ARG A 81 SITE 1 BC5 1 PRO A 251 SITE 1 BC6 5 LYS A 139 LEU A 181 ASP A 218 LYS A 257 SITE 2 BC6 5 HOH A 457 SITE 1 BC7 2 HOH A 392 HOH A 541 SITE 1 BC8 4 MSE A 164 HOH A 377 HOH A 492 HOH A 506 SITE 1 BC9 2 GLN A 269 GLU A 288 SITE 1 CC1 3 GLN A 71 ILE A 72 HOH A 567 SITE 1 CC2 4 SER A 102 GLU A 105 ASP A 278 ARG A 279 SITE 1 CC3 3 TYR A 184 THR A 185 HOH A 351 SITE 1 CC4 2 ARG A 92 HOH A 490 SITE 1 CC5 3 GLN A 158 LEU A 159 LEU A 160 SITE 1 CC6 4 GLN A 247 GLY A 273 GLU A 275 LYS A 277 SITE 1 CC7 2 ILE A 125 HOH A 428 SITE 1 CC8 3 ALA A 250 GLU A 252 HOH A 603 SITE 1 CC9 1 HOH A 390 SITE 1 DC1 1 PHE A 33 SITE 1 DC2 1 LYS A 147 SITE 1 DC3 8 GLN A 15 TYR A 39 VAL A 76 TYR A 77 SITE 2 DC3 8 ASP A 162 GLU A 163 HOH A 353 HOH A 582 SITE 1 DC4 7 LYS A 104 ASP A 107 ALA A 108 TYR A 111 SITE 2 DC4 7 ARG A 204 TYR A 245 HOH A 546 SITE 1 DC5 3 GLU A 252 PHE A 299 HOH A 503 SITE 1 DC6 2 HOH A 431 HOH A 519 SITE 1 DC7 2 TRP A 265 HOH A 367 SITE 1 DC8 3 GLU A 105 GLU A 157 LYS A 277 CRYST1 64.938 88.465 62.299 90.00 90.00 90.00 P 21 21 2 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 0.015399 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011304 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016052 0.00000