HEADER TRANSFERASE/ANTIBIOTIC 26-SEP-11 3TYK TITLE CRYSTAL STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE APH(4)-IA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYGROMYCIN-B 4-O-KINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: APH(4), HYGROMYCIN B PHOSPHOTRANSFERASE, HYGROMYCIN-B COMPND 5 KINASE; COMPND 6 EC: 2.7.1.163; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: PLASMID PKC222; SOURCE 5 GENE: APH(4), HPH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: P15TV-L KEYWDS MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, PSI-2, AMINOGLYCOSIDE KEYWDS 2 PHOSPHOTRANSFERASE, EUKARYOTIC PROTEIN KINASE-LIKE FOLD, KEYWDS 3 PHOSPHOTRANSFERASE/KINASE, ANTIBIOTIC RESISTANCE, AMINOGLYCOSIDE KEYWDS 4 BINDING, PHOSPHORYLATION, TRANSFERASE-ANTIBIOTIC COMPLEX, KEYWDS 5 CYTOPLASMIC, PROTEIN STRUCTURE INITIATIVE EXPDTA X-RAY DIFFRACTION AUTHOR P.J.STOGIOS,I.G.SHABALIN,T.SHAKYA,E.EVDOKMOVA,Y.FAN,M.CHRUSZCZ, AUTHOR 2 W.MINOR,G.D.WRIGHT,A.SAVCHENKO,W.F.ANDERSON,MIDWEST CENTER FOR AUTHOR 3 STRUCTURAL GENOMICS (MCSG) REVDAT 5 13-APR-22 3TYK 1 AUTHOR REMARK SEQADV HETSYN REVDAT 5 2 1 LINK REVDAT 4 28-NOV-12 3TYK 1 KEYWDS REVDAT 3 02-MAY-12 3TYK 1 REMARK REVDAT 2 25-APR-12 3TYK 1 AUTHOR KEYWDS REVDAT 1 12-OCT-11 3TYK 0 SPRSDE 12-OCT-11 3TYK 3OVC JRNL AUTH P.J.STOGIOS,T.SHAKYA,E.EVDOKIMOVA,A.SAVCHENKO,G.D.WRIGHT JRNL TITL STRUCTURE AND FUNCTION OF APH(4)-IA, A HYGROMYCIN B JRNL TITL 2 RESISTANCE ENZYME. JRNL REF J.BIOL.CHEM. V. 286 1966 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21084294 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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) : 34.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 24723 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) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1310 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) : 1515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.1830 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2314 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 284 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.81000 REMARK 3 B22 (A**2) : 0.81000 REMARK 3 B33 (A**2) : -1.22000 REMARK 3 B12 (A**2) : 0.41000 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): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.550 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2430 ; 0.017 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1598 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3317 ; 1.718 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3872 ; 1.054 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 299 ; 6.149 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 123 ;33.072 ;23.984 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 340 ;12.951 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;15.577 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 365 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2749 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 532 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 3 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 7 A 95 REMARK 3 ORIGIN FOR THE GROUP (A): 33.5990 -43.8540 32.6040 REMARK 3 T TENSOR REMARK 3 T11: 0.0572 T22: 0.1514 REMARK 3 T33: 0.1476 T12: -0.0200 REMARK 3 T13: 0.0154 T23: 0.0797 REMARK 3 L TENSOR REMARK 3 L11: 3.0106 L22: 1.7693 REMARK 3 L33: 3.0757 L12: -1.2746 REMARK 3 L13: -0.3899 L23: -0.2281 REMARK 3 S TENSOR REMARK 3 S11: -0.1974 S12: -0.3694 S13: -0.1461 REMARK 3 S21: 0.1283 S22: 0.0673 S23: 0.0098 REMARK 3 S31: 0.1360 S32: 0.2608 S33: 0.1301 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 96 A 255 REMARK 3 ORIGIN FOR THE GROUP (A): 24.4600 -24.2290 20.3500 REMARK 3 T TENSOR REMARK 3 T11: 0.0263 T22: 0.1138 REMARK 3 T33: 0.0737 T12: -0.0121 REMARK 3 T13: -0.0178 T23: 0.0201 REMARK 3 L TENSOR REMARK 3 L11: 1.9387 L22: 0.8503 REMARK 3 L33: 1.1567 L12: -0.4310 REMARK 3 L13: -0.3421 L23: -0.0708 REMARK 3 S TENSOR REMARK 3 S11: 0.0246 S12: 0.1212 S13: 0.0968 REMARK 3 S21: -0.0326 S22: -0.0282 S23: -0.0408 REMARK 3 S31: -0.1459 S32: 0.0067 S33: 0.0035 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 256 A 302 REMARK 3 ORIGIN FOR THE GROUP (A): 28.9050 -13.5720 22.5310 REMARK 3 T TENSOR REMARK 3 T11: 0.0807 T22: 0.0232 REMARK 3 T33: 0.1032 T12: -0.0324 REMARK 3 T13: -0.0134 T23: 0.0171 REMARK 3 L TENSOR REMARK 3 L11: 4.3302 L22: 2.6769 REMARK 3 L33: 3.4720 L12: -1.3264 REMARK 3 L13: 0.3981 L23: -0.3390 REMARK 3 S TENSOR REMARK 3 S11: -0.0681 S12: -0.0351 S13: 0.4499 REMARK 3 S21: -0.0298 S22: 0.0544 S23: -0.2851 REMARK 3 S31: -0.4140 S32: 0.0955 S33: 0.0138 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 3TYK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068081. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-OCT-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791532 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27293 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 52.1800 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) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.69700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.460 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE, AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M DI-AMMONIUM HYDROGEN CITRATE, REMARK 280 16% PEG3350, 2MM HYGROMYCIN B, PH 7, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.92000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.96000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.96000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 83.92000 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: BIOLOGICAL ASSEMBLY IS THE SINGLE CHAIN 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 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 LYS A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 GLU A 5 REMARK 465 LEU A 6 REMARK 465 THR A 303 REMARK 465 VAL A 304 REMARK 465 GLY A 305 REMARK 465 ARG A 306 REMARK 465 THR A 307 REMARK 465 GLN A 308 REMARK 465 ILE A 309 REMARK 465 ALA A 310 REMARK 465 ARG A 311 REMARK 465 ARG A 312 REMARK 465 SER A 313 REMARK 465 ALA A 314 REMARK 465 ALA A 315 REMARK 465 VAL A 316 REMARK 465 TRP A 317 REMARK 465 THR A 318 REMARK 465 ASP A 319 REMARK 465 GLY A 320 REMARK 465 CYS A 321 REMARK 465 VAL A 322 REMARK 465 GLU A 323 REMARK 465 VAL A 324 REMARK 465 LEU A 325 REMARK 465 ALA A 326 REMARK 465 ASP A 327 REMARK 465 SER A 328 REMARK 465 GLY A 329 REMARK 465 ASN A 330 REMARK 465 ARG A 331 REMARK 465 ARG A 332 REMARK 465 PRO A 333 REMARK 465 SER A 334 REMARK 465 THR A 335 REMARK 465 ARG A 336 REMARK 465 PRO A 337 REMARK 465 ARG A 338 REMARK 465 ALA A 339 REMARK 465 LYS A 340 REMARK 465 GLU A 341 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 THR A 7 OG1 CG2 REMARK 470 LYS A 13 CG CD CE NZ REMARK 470 ARG A 35 NE CZ NH1 NH2 REMARK 470 ARG A 210 CD NE CZ NH1 NH2 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 20 -47.86 73.51 REMARK 500 ASP A 198 45.58 -141.47 REMARK 500 SER A 201 -105.92 -134.74 REMARK 500 ASP A 216 83.29 49.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HY0 A 342 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 343 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC40311.1 RELATED DB: TARGETTRACK DBREF 3TYK A 1 341 UNP P00557 KHYB_ECOLX 1 341 SEQADV 3TYK MSE A -20 UNP P00557 EXPRESSION TAG SEQADV 3TYK GLY A -19 UNP P00557 EXPRESSION TAG SEQADV 3TYK SER A -18 UNP P00557 EXPRESSION TAG SEQADV 3TYK SER A -17 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -16 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -15 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -14 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -13 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -12 UNP P00557 EXPRESSION TAG SEQADV 3TYK HIS A -11 UNP P00557 EXPRESSION TAG SEQADV 3TYK SER A -10 UNP P00557 EXPRESSION TAG SEQADV 3TYK SER A -9 UNP P00557 EXPRESSION TAG SEQADV 3TYK GLY A -8 UNP P00557 EXPRESSION TAG SEQADV 3TYK ARG A -7 UNP P00557 EXPRESSION TAG SEQADV 3TYK GLU A -6 UNP P00557 EXPRESSION TAG SEQADV 3TYK ASN A -5 UNP P00557 EXPRESSION TAG SEQADV 3TYK LEU A -4 UNP P00557 EXPRESSION TAG SEQADV 3TYK TYR A -3 UNP P00557 EXPRESSION TAG SEQADV 3TYK PHE A -2 UNP P00557 EXPRESSION TAG SEQADV 3TYK GLN A -1 UNP P00557 EXPRESSION TAG SEQADV 3TYK GLY A 0 UNP P00557 EXPRESSION TAG SEQRES 1 A 362 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 362 ARG GLU ASN LEU TYR PHE GLN GLY MSE LYS LYS PRO GLU SEQRES 3 A 362 LEU THR ALA THR SER VAL GLU LYS PHE LEU ILE GLU LYS SEQRES 4 A 362 PHE ASP SER VAL SER ASP LEU MSE GLN LEU SER GLU GLY SEQRES 5 A 362 GLU GLU SER ARG ALA PHE SER PHE ASP VAL GLY GLY ARG SEQRES 6 A 362 GLY TYR VAL LEU ARG VAL ASN SER CSX ALA ASP GLY PHE SEQRES 7 A 362 TYR LYS ASP ARG TYR VAL TYR ARG HIS PHE ALA SER ALA SEQRES 8 A 362 ALA LEU PRO ILE PRO GLU VAL LEU ASP ILE GLY GLU PHE SEQRES 9 A 362 SER GLU SER LEU THR TYR CYS ILE SER ARG ARG ALA GLN SEQRES 10 A 362 GLY VAL THR LEU GLN ASP LEU PRO GLU THR GLU LEU PRO SEQRES 11 A 362 ALA VAL LEU GLN PRO VAL ALA GLU ALA MSE ASP ALA ILE SEQRES 12 A 362 ALA ALA ALA ASP LEU SER GLN THR SER GLY PHE GLY PRO SEQRES 13 A 362 PHE GLY PRO GLN GLY ILE GLY GLN TYR THR THR TRP ARG SEQRES 14 A 362 ASP PHE ILE CYS ALA ILE ALA ASP PRO HIS VAL TYR HIS SEQRES 15 A 362 TRP GLN THR VAL MSE ASP ASP THR VAL SER ALA SER VAL SEQRES 16 A 362 ALA GLN ALA LEU ASP GLU LEU MSE LEU TRP ALA GLU ASP SEQRES 17 A 362 CYS PRO GLU VAL ARG HIS LEU VAL HIS ALA ASP PHE GLY SEQRES 18 A 362 SER ASN ASN VAL LEU THR ASP ASN GLY ARG ILE THR ALA SEQRES 19 A 362 VAL ILE ASP TRP SER GLU ALA MSE PHE GLY ASP SER GLN SEQRES 20 A 362 TYR GLU VAL ALA ASN ILE PHE PHE TRP ARG PRO TRP LEU SEQRES 21 A 362 ALA CYS MSE GLU GLN GLN THR ARG TYR PHE GLU ARG ARG SEQRES 22 A 362 HIS PRO GLU LEU ALA GLY SER PRO ARG LEU ARG ALA TYR SEQRES 23 A 362 MSE LEU ARG ILE GLY LEU ASP GLN LEU TYR GLN SER LEU SEQRES 24 A 362 VAL ASP GLY ASN PHE ASP ASP ALA ALA TRP ALA GLN GLY SEQRES 25 A 362 ARG CYS ASP ALA ILE VAL ARG SER GLY ALA GLY THR VAL SEQRES 26 A 362 GLY ARG THR GLN ILE ALA ARG ARG SER ALA ALA VAL TRP SEQRES 27 A 362 THR ASP GLY CYS VAL GLU VAL LEU ALA ASP SER GLY ASN SEQRES 28 A 362 ARG ARG PRO SER THR ARG PRO ARG ALA LYS GLU MODRES 3TYK MSE A 26 MET SELENOMETHIONINE MODRES 3TYK CSX A 53 CYS S-OXY CYSTEINE MODRES 3TYK MSE A 119 MET SELENOMETHIONINE MODRES 3TYK MSE A 166 MET SELENOMETHIONINE MODRES 3TYK MSE A 182 MET SELENOMETHIONINE MODRES 3TYK MSE A 221 MET SELENOMETHIONINE MODRES 3TYK MSE A 242 MET SELENOMETHIONINE MODRES 3TYK MSE A 266 MET SELENOMETHIONINE HET MSE A 26 8 HET CSX A 53 7 HET MSE A 119 8 HET MSE A 166 8 HET MSE A 182 8 HET MSE A 221 8 HET MSE A 242 8 HET MSE A 266 8 HET HY0 A 342 36 HET CL A 343 1 HETNAM MSE SELENOMETHIONINE HETNAM CSX S-OXY CYSTEINE HETNAM HY0 HYGROMYCIN B VARIANT HETNAM CL CHLORIDE ION HETSYN HY0 (2R,3'R,3AS,4S,4'S,5'R,6R,6'R,7S,7AS)-4-[(1R,2S,3R,5S, HETSYN 2 HY0 6R)-3-AZANYL-2,6-DIHYDROXY-5-(METHYLAMINO) HETSYN 3 HY0 CYCLOHEXYL]OXY-6'-[(1S) -1-AZANYL-2-HYDROXY-ETHYL]-6- HETSYN 4 HY0 (HYDROXYMETHYL)SPIRO[4,6,7,7A-TETRAHYDRO-3AH-[1, HETSYN 5 HY0 3]DIOXOLO[4,5-C]PYRAN-2,2'-OXANE]-3',4',5', 7-TETROL FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 1 CSX C3 H7 N O3 S FORMUL 2 HY0 C20 H37 N3 O13 FORMUL 3 CL CL 1- FORMUL 4 HOH *284(H2 O) HELIX 1 1 THR A 7 ASP A 20 1 14 HELIX 2 2 ALA A 54 ALA A 68 1 15 HELIX 3 3 PRO A 104 ALA A 110 5 7 HELIX 4 4 VAL A 111 ALA A 125 1 15 HELIX 5 5 THR A 146 ALA A 153 1 8 HELIX 6 6 ILE A 154 ASP A 156 5 3 HELIX 7 7 HIS A 161 MSE A 166 1 6 HELIX 8 8 ASP A 167 ALA A 185 1 19 HELIX 9 9 GLU A 186 CYS A 188 5 3 HELIX 10 10 SER A 225 ARG A 236 1 12 HELIX 11 11 LEU A 239 HIS A 253 1 15 HELIX 12 12 HIS A 253 SER A 259 1 7 HELIX 13 13 SER A 259 GLY A 281 1 23 HELIX 14 14 ASN A 282 ALA A 301 1 20 SHEET 1 A 5 SER A 23 GLY A 31 0 SHEET 2 A 5 SER A 34 VAL A 41 -1 O ALA A 36 N LEU A 28 SHEET 3 A 5 ARG A 44 ASN A 51 -1 O TYR A 46 N PHE A 39 SHEET 4 A 5 THR A 88 ARG A 93 -1 O THR A 88 N ASN A 51 SHEET 5 A 5 VAL A 77 GLU A 82 -1 N GLY A 81 O TYR A 89 SHEET 1 B 3 VAL A 98 THR A 99 0 SHEET 2 B 3 VAL A 204 ASP A 207 -1 O THR A 206 N VAL A 98 SHEET 3 B 3 ARG A 210 VAL A 214 -1 O ALA A 213 N LEU A 205 SHEET 1 C 4 GLY A 142 TYR A 144 0 SHEET 2 C 4 PHE A 133 PHE A 136 -1 N PHE A 133 O TYR A 144 SHEET 3 C 4 MSE A 221 GLY A 223 -1 O PHE A 222 N GLY A 134 SHEET 4 C 4 HIS A 193 VAL A 195 -1 N HIS A 193 O GLY A 223 LINK C LEU A 25 N MSE A 26 1555 1555 1.34 LINK C MSE A 26 N GLN A 27 1555 1555 1.35 LINK C SER A 52 N CSX A 53 1555 1555 1.32 LINK C CSX A 53 N ALA A 54 1555 1555 1.33 LINK C ALA A 118 N MSE A 119 1555 1555 1.33 LINK C MSE A 119 N ASP A 120 1555 1555 1.33 LINK C VAL A 165 N MSE A 166 1555 1555 1.32 LINK C MSE A 166 N ASP A 167 1555 1555 1.33 LINK C LEU A 181 N MSE A 182 1555 1555 1.34 LINK C MSE A 182 N LEU A 183 1555 1555 1.32 LINK C ALA A 220 N MSE A 221 1555 1555 1.33 LINK C MSE A 221 N PHE A 222 1555 1555 1.33 LINK C CYS A 241 N MSE A 242 1555 1555 1.34 LINK C MSE A 242 N GLU A 243 1555 1555 1.33 LINK C TYR A 265 N MSE A 266 1555 1555 1.33 LINK C MSE A 266 N LEU A 267 1555 1555 1.33 SITE 1 AC1 21 GLN A 101 ASP A 126 SER A 128 ASP A 198 SITE 2 AC1 21 SER A 201 ASN A 202 ASP A 216 SER A 218 SITE 3 AC1 21 GLU A 219 ASN A 231 TRP A 235 TRP A 238 SITE 4 AC1 21 LEU A 239 MSE A 242 GLN A 273 ASP A 285 SITE 5 AC1 21 HOH A 455 HOH A 501 HOH A 513 HOH A 518 SITE 6 AC1 21 HOH A 625 SITE 1 AC2 6 GLY A 137 PRO A 138 GLN A 139 GLY A 140 SITE 2 AC2 6 ILE A 141 HOH A 574 CRYST1 70.640 70.640 125.880 90.00 90.00 120.00 P 32 2 1 6 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 0.014156 0.008173 0.000000 0.00000 SCALE2 0.000000 0.016346 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007944 0.00000