HEADER TRANSFERASE 07-DEC-11 3UZR TITLE CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE APH(2'')-IB, TITLE 2 APO FORM 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, EUKARYOTIC PROTEIN KINASE-LIKE FOLD, AMINOGLYCOSIDE KEYWDS 3 PHOSPHOTRANSFERASE, TRANSFERASE, ANTIBIOTIC RESISTANCE, CYTOPLASMIC, KEYWDS 4 INTRACELLULAR EXPDTA X-RAY DIFFRACTION AUTHOR P.J.STOGIOS,G.MINASOV,A.U.SINGER,K.TAN,B.NOCEK,E.EVDOKIMOVA, AUTHOR 2 E.EGOROVA,R.DI LEO,A.SAVCHENKO,W.F.ANDERSON,CENTER FOR STRUCTURAL AUTHOR 3 GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 2 28-DEC-11 3UZR 1 SPRSDE REVDAT 1 21-DEC-11 3UZR 0 SPRSDE 28-DEC-11 3UZR 3R6Z JRNL AUTH P.J.STOGIOS,G.MINASOV,A.U.SINGER,K.TAN,B.NOCEK,E.EVDOKIMOVA, JRNL AUTH 2 E.EGOROVA,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, APO FORM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 3 NUMBER OF REFLECTIONS : 22090 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1179 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1208 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 70.06 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 60 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2489 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.50000 REMARK 3 B22 (A**2) : -0.89000 REMARK 3 B33 (A**2) : -1.60000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.206 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.460 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2652 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1853 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3571 ; 1.251 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4527 ; 0.800 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 320 ; 2.687 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;28.304 ;25.141 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 507 ; 9.229 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;10.792 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 384 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2941 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 536 ; 0.001 ; 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): 1546 ; 0.972 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 618 ; 0.308 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2520 ; 1.701 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1106 ; 3.068 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1047 ; 4.807 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL 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 : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 20 REMARK 3 ORIGIN FOR THE GROUP (A): -25.1239 -16.7730 39.5307 REMARK 3 T TENSOR REMARK 3 T11: 0.2641 T22: 0.3648 REMARK 3 T33: 0.3515 T12: 0.0489 REMARK 3 T13: 0.1068 T23: 0.2212 REMARK 3 L TENSOR REMARK 3 L11: 13.3947 L22: 7.9514 REMARK 3 L33: 5.9383 L12: -5.2752 REMARK 3 L13: 4.6051 L23: 1.2891 REMARK 3 S TENSOR REMARK 3 S11: -0.1660 S12: -0.9407 S13: -0.7530 REMARK 3 S21: 0.4225 S22: 0.2469 S23: -0.0150 REMARK 3 S31: 0.4751 S32: 0.3049 S33: -0.0809 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 21 A 91 REMARK 3 ORIGIN FOR THE GROUP (A): -16.4799 -6.4514 31.6794 REMARK 3 T TENSOR REMARK 3 T11: 0.1748 T22: 0.2535 REMARK 3 T33: 0.1845 T12: 0.0755 REMARK 3 T13: 0.0417 T23: 0.0430 REMARK 3 L TENSOR REMARK 3 L11: 2.6285 L22: 3.1962 REMARK 3 L33: 1.8622 L12: 1.7279 REMARK 3 L13: -1.1493 L23: -0.1970 REMARK 3 S TENSOR REMARK 3 S11: 0.0417 S12: -0.5000 S13: -0.2170 REMARK 3 S21: 0.3706 S22: -0.0307 S23: -0.0883 REMARK 3 S31: 0.0960 S32: 0.2615 S33: -0.0110 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 92 A 137 REMARK 3 ORIGIN FOR THE GROUP (A): -7.8692 -0.5599 15.2506 REMARK 3 T TENSOR REMARK 3 T11: 0.0694 T22: 0.0338 REMARK 3 T33: 0.0316 T12: 0.0073 REMARK 3 T13: 0.0189 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.4273 L22: 2.1112 REMARK 3 L33: 2.2109 L12: 0.3835 REMARK 3 L13: 0.6437 L23: 0.7837 REMARK 3 S TENSOR REMARK 3 S11: -0.0676 S12: -0.1526 S13: -0.0161 REMARK 3 S21: 0.0583 S22: -0.0482 S23: 0.1468 REMARK 3 S31: 0.0825 S32: -0.0673 S33: 0.1158 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 138 A 183 REMARK 3 ORIGIN FOR THE GROUP (A): 16.5176 0.1224 33.6707 REMARK 3 T TENSOR REMARK 3 T11: 0.0694 T22: 0.0581 REMARK 3 T33: 0.0554 T12: -0.0239 REMARK 3 T13: 0.0114 T23: -0.0367 REMARK 3 L TENSOR REMARK 3 L11: 2.9363 L22: 2.8578 REMARK 3 L33: 2.3053 L12: -0.7890 REMARK 3 L13: 0.8429 L23: -1.1817 REMARK 3 S TENSOR REMARK 3 S11: -0.1156 S12: -0.2471 S13: 0.1678 REMARK 3 S21: 0.1651 S22: 0.0373 S23: -0.0058 REMARK 3 S31: -0.1410 S32: 0.1060 S33: 0.0783 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 184 A 263 REMARK 3 ORIGIN FOR THE GROUP (A): -1.6568 -0.7716 16.1615 REMARK 3 T TENSOR REMARK 3 T11: 0.0913 T22: 0.0153 REMARK 3 T33: 0.0111 T12: -0.0212 REMARK 3 T13: 0.0118 T23: 0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.7430 L22: 0.6543 REMARK 3 L33: 0.9256 L12: -0.1232 REMARK 3 L13: 0.5340 L23: 0.1858 REMARK 3 S TENSOR REMARK 3 S11: -0.0466 S12: -0.0468 S13: -0.0356 REMARK 3 S21: 0.0155 S22: 0.0297 S23: -0.0337 REMARK 3 S31: 0.0534 S32: -0.0005 S33: 0.0169 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 264 A 299 REMARK 3 ORIGIN FOR THE GROUP (A): 14.6783 -10.7603 31.0740 REMARK 3 T TENSOR REMARK 3 T11: 0.0983 T22: 0.0326 REMARK 3 T33: 0.0663 T12: -0.0030 REMARK 3 T13: -0.0068 T23: -0.0269 REMARK 3 L TENSOR REMARK 3 L11: 1.3929 L22: 5.3516 REMARK 3 L33: 4.3505 L12: 1.8588 REMARK 3 L13: -1.1197 L23: -4.0425 REMARK 3 S TENSOR REMARK 3 S11: 0.0295 S12: -0.0128 S13: -0.0529 REMARK 3 S21: -0.1065 S22: 0.0055 S23: 0.0141 REMARK 3 S31: 0.1341 S32: 0.1139 S33: -0.0351 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 3UZR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-11. REMARK 100 THE RCSB ID CODE IS RCSB069413. 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 : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 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 : MIRRORS 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 : 25410 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : 23.2800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.39100 REMARK 200 FOR SHELL : 2.610 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 (%): 44.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MG CHLORIDE, 0.1 M HEPES PH 7.5, REMARK 280 25% PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.10950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.86300 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.10950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 44.86300 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LEU A 24 -63.32 -108.04 REMARK 500 ASN A 191 -12.15 77.68 REMARK 500 CYS A 229 61.00 34.22 REMARK 500 ALA A 250 65.65 -150.89 REMARK 500 REMARK 500 REMARK: NULL 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 300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 228 OD1 REMARK 620 2 ASP A 233 OD2 84.4 REMARK 620 3 HOH A 402 O 101.0 174.0 REMARK 620 4 SER A 230 OG 95.2 87.1 89.7 REMARK 620 5 ASP A 232 OD1 172.6 91.3 83.1 78.5 REMARK 620 6 CYS A 225 O 91.7 81.2 101.2 165.7 93.6 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 MG A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R70 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE REMARK 900 APH(2'')-IB, ADP BOUND REMARK 900 RELATED ID: IDP91187 RELATED DB: TARGETDB DBREF 3UZR A 1 299 UNP Q93ET9 Q93ET9_ECOLX 1 299 SEQADV 3UZR MSE A -20 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR GLY A -19 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR SER A -18 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR SER A -17 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -16 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -15 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -14 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -13 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -12 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR HIS A -11 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR SER A -10 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR SER A -9 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR GLY A -8 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR ARG A -7 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR GLU A -6 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR ASN A -5 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR LEU A -4 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR TYR A -3 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR PHE A -2 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR GLN A -1 UNP Q93ET9 EXPRESSION TAG SEQADV 3UZR 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 3UZR MSE A 1 MET SELENOMETHIONINE MODRES 3UZR MSE A 85 MET SELENOMETHIONINE MODRES 3UZR MSE A 164 MET SELENOMETHIONINE MODRES 3UZR MSE A 198 MET SELENOMETHIONINE MODRES 3UZR MSE A 281 MET SELENOMETHIONINE MODRES 3UZR MSE A 296 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 85 8 HET MSE A 164 16 HET MSE A 198 8 HET MSE A 281 8 HET MSE A 296 8 HET MG A 300 1 HET EDO A 301 4 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET PEG A 305 7 HET PG4 A 306 13 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PG4 TETRAETHYLENE GLYCOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 MG MG 2+ FORMUL 3 EDO 4(C2 H6 O2) FORMUL 7 PEG C4 H10 O3 FORMUL 8 PG4 C8 H18 O5 FORMUL 9 HOH *261(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 LYS A 100 1 7 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 LEU A 224 5 7 HELIX 11 11 GLY A 235 TYR A 246 1 12 HELIX 12 12 ALA A 250 TYR A 264 1 15 HELIX 13 13 TYR A 264 TYR A 272 1 9 HELIX 14 14 ASP A 278 GLN A 291 1 14 HELIX 15 15 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 VAL A 43 N ASP A 31 SHEET 4 A 5 ASN A 83 LYS A 86 -1 O MSE A 85 N VAL A 40 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 GLY A 217 N CYS A 187 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 MSE A 1 N VAL A 2 1555 1555 1.33 LINK C ILE A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N LYS A 86 1555 1555 1.33 LINK C GLU A 163 N AMSE A 164 1555 1555 1.34 LINK C GLU A 163 N BMSE A 164 1555 1555 1.33 LINK C AMSE A 164 N LEU A 165 1555 1555 1.33 LINK C BMSE A 164 N LEU A 165 1555 1555 1.34 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 MSE A 281 1555 1555 1.33 LINK C MSE 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 1.32 LINK OD1 ASP A 228 MG MG A 300 1555 1555 1.91 LINK OD2 ASP A 233 MG MG A 300 1555 1555 2.09 LINK MG MG A 300 O HOH A 402 1555 1555 2.11 LINK OG SER A 230 MG MG A 300 1555 1555 2.15 LINK OD1 ASP A 232 MG MG A 300 1555 1555 2.17 LINK O CYS A 225 MG MG A 300 1555 1555 2.21 SITE 1 AC1 6 CYS A 225 ASP A 228 SER A 230 ASP A 232 SITE 2 AC1 6 ASP A 233 HOH A 402 SITE 1 AC2 6 VAL A 40 LYS A 86 TYR A 87 ILE A 88 SITE 2 AC2 6 HOH A 336 HOH A 477 SITE 1 AC3 5 GLN A 15 VAL A 76 TYR A 77 GLU A 163 SITE 2 AC3 5 GLU A 166 SITE 1 AC4 6 GLU A 113 PHE A 200 LEU A 226 ASP A 233 SITE 2 AC4 6 PHE A 234 PHE A 238 SITE 1 AC5 4 SER A 122 ASP A 285 HOH A 371 HOH A 561 SITE 1 AC6 6 SER A 122 GLU A 124 TRP A 265 HOH A 411 SITE 2 AC6 6 HOH A 432 HOH A 559 SITE 1 AC7 6 ALA A 108 ARG A 204 TYR A 245 HOH A 448 SITE 2 AC7 6 HOH A 500 HOH A 567 CRYST1 60.720 62.219 89.726 90.00 90.00 90.00 P 2 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 0.016469 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016072 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011145 0.00000 HETATM 1 N MSE A 1 -18.341 -27.081 31.646 1.00 94.43 N ANISOU 1 N MSE A 1 10573 11247 14058 4225 -1033 -1138 N HETATM 2 CA MSE A 1 -17.346 -26.888 32.738 1.00 93.94 C ANISOU 2 CA MSE A 1 10383 11343 13964 4103 -905 -761 C HETATM 3 C MSE A 1 -17.470 -25.453 33.276 1.00 87.85 C ANISOU 3 C MSE A 1 9620 10986 12772 3538 -381 -230 C HETATM 4 O MSE A 1 -16.745 -24.544 32.867 1.00 87.46 O ANISOU 4 O MSE A 1 9324 11616 12289 3515 1 -272 O HETATM 5 CB MSE A 1 -15.933 -27.210 32.218 1.00 99.00 C ANISOU 5 CB MSE A 1 10665 12527 14420 4680 -938 -1272 C HETATM 6 CG MSE A 1 -14.870 -27.543 33.292 1.00102.63 C ANISOU 6 CG MSE A 1 10976 12932 15086 4777 -1102 -1101 C HETATM 7 SE MSE A 1 -13.859 -26.058 34.077 1.00105.44 SE ANISOU 7 SE MSE A 1 11014 14045 15000 4363 -555 -669 SE HETATM 8 CE MSE A 1 -12.746 -25.559 32.561 1.00105.50 C ANISOU 8 CE MSE A 1 10434 15123 14527 4748 -99 -1209 C