HEADER TRANSFERASE/ANTIBIOTIC 08-JAN-15 4XJE TITLE CRYSTAL STRUCTURE OF ANT(2") IN COMPLEX WITH AMP AND TOBRAMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: AADB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 73-249; 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, TOBRAMYCIN, ROSSMANN KEYWDS 2 FOLD, TRANSFERASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.RODIONOV,A.V.BASSENDEN,A.M.BERGHUIS REVDAT 5 28-FEB-24 4XJE 1 REMARK REVDAT 4 18-MAR-20 4XJE 1 JRNL REVDAT 3 08-JAN-20 4XJE 1 REMARK REVDAT 2 22-NOV-17 4XJE 1 REMARK REVDAT 1 20-JAN-16 4XJE 0 JRNL AUTH A.V.BASSENDEN,J.PARK,D.RODIONOV,A.M.BERGHUIS JRNL TITL REVISITING THE CATALYTIC CYCLE AND KINETIC MECHANISM OF JRNL TITL 2 AMINOGLYCOSIDEO-NUCLEOTIDYLTRANSFERASE(2′′): A JRNL TITL 3 STRUCTURAL AND KINETIC STUDY. JRNL REF ACS CHEM.BIOL. 2020 JRNL REFN ESSN 1554-8937 JRNL PMID 32100995 JRNL DOI 10.1021/ACSCHEMBIO.9B00904 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9-1692 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 14839 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.320 REMARK 3 FREE R VALUE TEST SET COUNT : 789 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 48.0106 - 3.4160 1.00 2548 155 0.1541 0.1743 REMARK 3 2 3.4160 - 2.7114 1.00 2360 139 0.1615 0.1785 REMARK 3 3 2.7114 - 2.3687 1.00 2352 113 0.1658 0.2075 REMARK 3 4 2.3687 - 2.1521 0.99 2304 129 0.1813 0.2137 REMARK 3 5 2.1521 - 1.9979 0.99 2243 124 0.1763 0.1965 REMARK 3 6 1.9979 - 1.8801 0.97 2243 129 0.2286 0.2146 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.38 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.82 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 : 0.003 1503 REMARK 3 ANGLE : 0.875 2057 REMARK 3 CHIRALITY : 0.031 227 REMARK 3 PLANARITY : 0.003 273 REMARK 3 DIHEDRAL : 12.691 565 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.8258 25.8754 51.0171 REMARK 3 T TENSOR REMARK 3 T11: 0.2216 T22: 0.2499 REMARK 3 T33: 0.2512 T12: -0.0444 REMARK 3 T13: -0.0549 T23: 0.0341 REMARK 3 L TENSOR REMARK 3 L11: 0.0310 L22: 0.0098 REMARK 3 L33: 0.0299 L12: 0.0160 REMARK 3 L13: -0.0184 L23: 0.0050 REMARK 3 S TENSOR REMARK 3 S11: 0.1299 S12: 0.1564 S13: 0.2245 REMARK 3 S21: 0.0179 S22: 0.0679 S23: 0.2877 REMARK 3 S31: 0.1334 S32: -0.2116 S33: 0.0019 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 44 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.3864 26.0561 58.5638 REMARK 3 T TENSOR REMARK 3 T11: 0.1529 T22: 0.1296 REMARK 3 T33: 0.1668 T12: -0.0348 REMARK 3 T13: -0.0092 T23: 0.0145 REMARK 3 L TENSOR REMARK 3 L11: 0.1040 L22: 0.0266 REMARK 3 L33: 0.1745 L12: -0.0483 REMARK 3 L13: 0.0082 L23: 0.0345 REMARK 3 S TENSOR REMARK 3 S11: -0.0687 S12: 0.0219 S13: 0.0795 REMARK 3 S21: -0.0850 S22: 0.1469 S23: 0.1209 REMARK 3 S31: 0.0070 S32: -0.0350 S33: 0.0002 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 45 THROUGH 99 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.9347 14.2811 50.9170 REMARK 3 T TENSOR REMARK 3 T11: 0.2367 T22: 0.1681 REMARK 3 T33: 0.1297 T12: -0.0619 REMARK 3 T13: -0.0186 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.5619 L22: 0.1247 REMARK 3 L33: 0.0594 L12: -0.1578 REMARK 3 L13: 0.0490 L23: -0.0889 REMARK 3 S TENSOR REMARK 3 S11: -0.1007 S12: 0.1657 S13: -0.0764 REMARK 3 S21: -0.2216 S22: 0.1099 S23: -0.0435 REMARK 3 S31: 0.3045 S32: -0.0773 S33: 0.0406 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 100 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.0327 14.6228 66.2594 REMARK 3 T TENSOR REMARK 3 T11: 0.1436 T22: 0.1089 REMARK 3 T33: 0.1703 T12: -0.0446 REMARK 3 T13: 0.0259 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 0.3034 L22: 0.0838 REMARK 3 L33: 0.3301 L12: -0.0901 REMARK 3 L13: 0.1877 L23: 0.0404 REMARK 3 S TENSOR REMARK 3 S11: 0.0552 S12: -0.0912 S13: -0.1775 REMARK 3 S21: -0.0289 S22: 0.0670 S23: -0.0296 REMARK 3 S31: 0.2902 S32: -0.2102 S33: 0.0191 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4422 23.0455 62.8800 REMARK 3 T TENSOR REMARK 3 T11: 0.1331 T22: 0.1259 REMARK 3 T33: 0.1494 T12: 0.0168 REMARK 3 T13: 0.0045 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.0132 L22: 0.3545 REMARK 3 L33: 0.2616 L12: -0.0543 REMARK 3 L13: 0.0405 L23: -0.1605 REMARK 3 S TENSOR REMARK 3 S11: -0.0087 S12: 0.0709 S13: 0.0084 REMARK 3 S21: -0.0924 S22: -0.0687 S23: -0.0244 REMARK 3 S31: 0.0423 S32: 0.0263 S33: -0.0070 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 146 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.1132 30.0807 66.3884 REMARK 3 T TENSOR REMARK 3 T11: 0.1622 T22: 0.1382 REMARK 3 T33: 0.1592 T12: -0.0131 REMARK 3 T13: 0.0161 T23: 0.0051 REMARK 3 L TENSOR REMARK 3 L11: 0.0024 L22: 0.0056 REMARK 3 L33: 0.0344 L12: -0.0073 REMARK 3 L13: -0.0168 L23: 0.0166 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: -0.0560 S13: 0.2625 REMARK 3 S21: -0.0256 S22: -0.0314 S23: 0.1615 REMARK 3 S31: 0.0718 S32: 0.0953 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 161 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.5722 15.7905 72.1296 REMARK 3 T TENSOR REMARK 3 T11: 0.2191 T22: 0.1184 REMARK 3 T33: 0.1596 T12: 0.0298 REMARK 3 T13: -0.0072 T23: 0.0052 REMARK 3 L TENSOR REMARK 3 L11: 0.2562 L22: 0.3637 REMARK 3 L33: 1.0721 L12: -0.1185 REMARK 3 L13: -0.0885 L23: 0.6082 REMARK 3 S TENSOR REMARK 3 S11: 0.0822 S12: 0.0735 S13: 0.1706 REMARK 3 S21: 0.1512 S22: 0.0251 S23: -0.1015 REMARK 3 S31: 0.2584 S32: 0.3005 S33: 0.0255 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 4XJE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000205729. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : NULL 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 : XIA2 0.3.7.0 REMARK 200 DATA SCALING SOFTWARE : XDS, XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14841 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 47.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 31.70 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 53.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 13.30 REMARK 200 R MERGE FOR SHELL (I) : 0.51100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX 2013 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: 0.2 MM X 0.1 MM DIAMOND-SHAPED REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04 M POTASSIUM DI-HYDROGEN REMARK 280 PHOSPHATE, 16% PEG 8000, 20% GLYCEROL, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 95.99000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 21.01000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 21.01000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 143.98500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 21.01000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 21.01000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 47.99500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 21.01000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 21.01000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 143.98500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 21.01000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 21.01000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.99500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 95.99000 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 UNIT IS THE SAME AS ASYM. 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 ASP A 2 CG OD1 OD2 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 441 O HOH A 461 1.61 REMARK 500 OG SER A 173 O HOH A 301 2.11 REMARK 500 O HOH A 411 O HOH A 415 2.18 REMARK 500 NH1 ARG A 174 O HOH A 302 2.19 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 MET A 69 -144.71 -98.58 REMARK 500 ALA A 93 -104.57 -97.82 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 AMP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TOY A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KNY RELATED DB: PDB REMARK 900 1KNY CONTAINS A DISTANT HOMOLOG ANT(4') IN COMPLEX WITH KANAMYCIN REMARK 900 AND AMPCPP REMARK 900 RELATED ID: 3ISD RELATED DB: PDB REMARK 900 3ISD CONTAINS A DISTANT HOMOLOG DNA POLYMERASE BETA IN COMPLEX WITH REMARK 900 DNA AND DEOXY-AMPCPP REMARK 900 RELATED ID: 5CFS RELATED DB: PDB REMARK 900 RELATED ID: 5CFT RELATED DB: PDB REMARK 900 RELATED ID: 5CFU RELATED DB: PDB DBREF 4XJE A 1 177 UNP Q6X3H6 Q6X3H6_PSEAI 73 249 SEQADV 4XJE LEU A -7 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE GLU A -6 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE HIS A -5 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE HIS A -4 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE HIS A -3 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE HIS A -2 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE HIS A -1 UNP Q6X3H6 EXPRESSION TAG SEQADV 4XJE 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 AMP A 201 23 HET TOY A 202 32 HET GOL A 203 6 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM TOY TOBRAMYCIN HETNAM GOL GLYCEROL HETSYN TOY 4-AMINO-2-[4,6-DIAMINO-3-(3-AMINO-6-AMINOMETHYL-5- HETSYN 2 TOY HYDROXY-TETRAHYDRO-PYRAN-2-YLOXY)-2-HYDROXY- HETSYN 3 TOY CYCLOHEXYLOXY]-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,5- HETSYN 4 TOY DIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 TOY C18 H37 N5 O9 FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *162(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 TRP A 92 1 O GLU A 88 N LEU A 47 SHEET 4 AA1 5 PHE A 76 ILE A 80 -1 N ALA A 78 O LEU A 85 SHEET 5 AA1 5 ARG A 67 GLU A 71 -1 N 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 TRP A 92 1 O GLU A 88 N LEU A 47 SHEET 4 AA2 4 TYR A 97 ILE A 99 -1 O GLU A 98 N TRP A 91 SHEET 1 AA3 2 GLY A 113 ILE A 115 0 SHEET 2 AA3 2 ARG A 118 VAL A 120 -1 O ARG A 118 N ILE A 115 SITE 1 AC1 16 GLY A 28 ASP A 44 ASP A 46 ASP A 131 SITE 2 AC1 16 TYR A 132 TYR A 135 GLU A 138 HIS A 148 SITE 3 AC1 16 TOY A 202 GOL A 203 HOH A 308 HOH A 310 SITE 4 AC1 16 HOH A 348 HOH A 349 HOH A 365 HOH A 383 SITE 1 AC2 19 ASP A 44 ASP A 46 TYR A 74 ASP A 86 SITE 2 AC2 19 GLU A 88 ILE A 99 ALA A 100 GLU A 101 SITE 3 AC2 19 ASP A 131 TYR A 134 AMP A 201 HOH A 303 SITE 4 AC2 19 HOH A 316 HOH A 327 HOH A 339 HOH A 343 SITE 5 AC2 19 HOH A 360 HOH A 365 HOH A 370 SITE 1 AC3 9 GLY A 28 LYS A 41 HIS A 42 ASP A 43 SITE 2 AC3 9 LYS A 147 HIS A 148 SER A 151 AMP A 201 SITE 3 AC3 9 HOH A 310 CRYST1 42.020 42.020 191.980 90.00 90.00 90.00 P 43 21 2 8 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 0.023798 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023798 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005209 0.00000