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 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 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 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 MASTER 398 0 3 7 11 0 12 6 0 0 0 15 END