HEADER HYDROLASE/HYDROLASE INHIBITOR 25-JUL-13 4LV3 TITLE AMPC BETA-LACTAMASE IN COMPLEX WITH (3,5-DI-TERT-BUTYLPHENYL) BORONIC TITLE 2 ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CEPHALOSPORINASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: AMPA, AMPC, B4150, JW4111; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: POGO295 KEYWDS AMPC BETA-LACTAMASE, CLASS C, HYDROLASE, BORONIC ACID, COVALENT KEYWDS 2 INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.LONDON,O.EIDAM,B.K.SHOICHET REVDAT 4 20-SEP-23 4LV3 1 REMARK LINK REVDAT 3 26-NOV-14 4LV3 1 JRNL REVDAT 2 05-NOV-14 4LV3 1 JRNL REVDAT 1 30-JUL-14 4LV3 0 JRNL AUTH N.LONDON,R.M.MILLER,S.KRISHNAN,K.UCHIDA,J.J.IRWIN,O.EIDAM, JRNL AUTH 2 L.GIBOLD,P.CIMERMANCIC,R.BONNET,B.K.SHOICHET,J.TAUNTON JRNL TITL COVALENT DOCKING OF LARGE LIBRARIES FOR THE DISCOVERY OF JRNL TITL 2 CHEMICAL PROBES. JRNL REF NAT.CHEM.BIOL. V. 10 1066 2014 JRNL REFN ISSN 1552-4450 JRNL PMID 25344815 JRNL DOI 10.1038/NCHEMBIO.1666 REMARK 2 REMARK 2 RESOLUTION. 1.42 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8_1069 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) : 1.42 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 144017 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.820 REMARK 3 FREE R VALUE TEST SET COUNT : 5499 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 44.1810 - 4.4108 0.94 4628 179 0.1602 0.1879 REMARK 3 2 4.4108 - 3.5014 0.98 4715 202 0.1452 0.1376 REMARK 3 3 3.5014 - 3.0589 0.99 4786 180 0.1714 0.1833 REMARK 3 4 3.0589 - 2.7793 0.99 4744 216 0.1869 0.2025 REMARK 3 5 2.7793 - 2.5801 0.99 4732 178 0.1878 0.1946 REMARK 3 6 2.5801 - 2.4280 0.99 4722 194 0.1781 0.2013 REMARK 3 7 2.4280 - 2.3064 0.98 4714 180 0.1798 0.2067 REMARK 3 8 2.3064 - 2.2060 0.97 4644 151 0.1874 0.2063 REMARK 3 9 2.2060 - 2.1211 0.98 4640 205 0.1774 0.2018 REMARK 3 10 2.1211 - 2.0479 0.98 4679 199 0.1764 0.1996 REMARK 3 11 2.0479 - 1.9839 0.97 4711 164 0.1820 0.2012 REMARK 3 12 1.9839 - 1.9272 0.97 4610 169 0.1863 0.1852 REMARK 3 13 1.9272 - 1.8764 0.97 4654 144 0.1912 0.1846 REMARK 3 14 1.8764 - 1.8307 0.97 4678 162 0.1773 0.2135 REMARK 3 15 1.8307 - 1.7890 0.97 4644 180 0.1731 0.1709 REMARK 3 16 1.7890 - 1.7510 0.97 4581 184 0.1746 0.1994 REMARK 3 17 1.7510 - 1.7159 0.97 4647 155 0.1896 0.2044 REMARK 3 18 1.7159 - 1.6836 0.97 4595 190 0.1847 0.1828 REMARK 3 19 1.6836 - 1.6535 0.97 4641 194 0.1788 0.2180 REMARK 3 20 1.6535 - 1.6255 0.96 4564 190 0.1833 0.2203 REMARK 3 21 1.6255 - 1.5992 0.96 4539 189 0.1863 0.1961 REMARK 3 22 1.5992 - 1.5746 0.96 4562 190 0.1890 0.2045 REMARK 3 23 1.5746 - 1.5515 0.96 4573 191 0.1951 0.2051 REMARK 3 24 1.5515 - 1.5296 0.96 4545 189 0.2063 0.2094 REMARK 3 25 1.5296 - 1.5089 0.95 4534 189 0.2205 0.2325 REMARK 3 26 1.5089 - 1.4893 0.95 4568 190 0.2238 0.2289 REMARK 3 27 1.4893 - 1.4707 0.95 4467 186 0.2177 0.2469 REMARK 3 28 1.4707 - 1.4530 0.95 4535 189 0.2236 0.2577 REMARK 3 29 1.4530 - 1.4361 0.94 4463 186 0.2264 0.2330 REMARK 3 30 1.4361 - 1.4200 0.93 4403 184 0.2392 0.2512 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.24 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.40 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 : 0.012 5718 REMARK 3 ANGLE : 1.462 7861 REMARK 3 CHIRALITY : 0.091 860 REMARK 3 PLANARITY : 0.009 1012 REMARK 3 DIHEDRAL : 13.804 2049 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 4:83) REMARK 3 ORIGIN FOR THE GROUP (A): 23.9039 -9.5764 24.1143 REMARK 3 T TENSOR REMARK 3 T11: 0.2190 T22: 0.1549 REMARK 3 T33: 0.1462 T12: 0.0030 REMARK 3 T13: 0.0163 T23: 0.0001 REMARK 3 L TENSOR REMARK 3 L11: 1.1099 L22: 1.1760 REMARK 3 L33: 0.6767 L12: 0.4708 REMARK 3 L13: -0.1263 L23: -0.1146 REMARK 3 S TENSOR REMARK 3 S11: -0.0136 S12: -0.1627 S13: -0.0538 REMARK 3 S21: 0.1365 S22: -0.0344 S23: 0.0652 REMARK 3 S31: 0.1717 S32: -0.0294 S33: 0.0506 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 84:139) REMARK 3 ORIGIN FOR THE GROUP (A): 39.2994 13.1322 5.4625 REMARK 3 T TENSOR REMARK 3 T11: 0.2416 T22: 0.1864 REMARK 3 T33: 0.1597 T12: -0.0064 REMARK 3 T13: 0.0155 T23: 0.0193 REMARK 3 L TENSOR REMARK 3 L11: 1.0056 L22: 1.0644 REMARK 3 L33: 1.0863 L12: -0.2261 REMARK 3 L13: -0.1491 L23: -0.4040 REMARK 3 S TENSOR REMARK 3 S11: -0.0534 S12: 0.2170 S13: 0.0350 REMARK 3 S21: -0.3237 S22: -0.0093 S23: -0.0813 REMARK 3 S31: 0.1077 S32: 0.0789 S33: 0.0531 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 140:361) REMARK 3 ORIGIN FOR THE GROUP (A): 32.9866 -1.2196 20.3568 REMARK 3 T TENSOR REMARK 3 T11: 0.1634 T22: 0.1409 REMARK 3 T33: 0.1198 T12: 0.0239 REMARK 3 T13: 0.0010 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 1.1356 L22: 1.4687 REMARK 3 L33: 0.3973 L12: 0.7076 REMARK 3 L13: -0.0905 L23: -0.0298 REMARK 3 S TENSOR REMARK 3 S11: -0.0030 S12: -0.0841 S13: -0.0329 REMARK 3 S21: 0.0464 S22: -0.0353 S23: -0.0724 REMARK 3 S31: 0.1182 S32: 0.0461 S33: 0.0371 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 4:86) REMARK 3 ORIGIN FOR THE GROUP (A): 78.6433 -10.8700 24.4040 REMARK 3 T TENSOR REMARK 3 T11: 0.1269 T22: 0.1580 REMARK 3 T33: 0.1584 T12: 0.0006 REMARK 3 T13: -0.0177 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 0.4668 L22: 0.8887 REMARK 3 L33: 0.6986 L12: -0.4831 REMARK 3 L13: -0.4127 L23: 0.2529 REMARK 3 S TENSOR REMARK 3 S11: -0.0308 S12: -0.0414 S13: -0.0364 REMARK 3 S21: 0.0101 S22: 0.0388 S23: -0.0179 REMARK 3 S31: 0.0788 S32: 0.0331 S33: -0.0101 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 87:149) REMARK 3 ORIGIN FOR THE GROUP (A): 66.0095 16.0030 36.1049 REMARK 3 T TENSOR REMARK 3 T11: 0.1998 T22: 0.1918 REMARK 3 T33: 0.1676 T12: 0.0133 REMARK 3 T13: 0.0016 T23: -0.0135 REMARK 3 L TENSOR REMARK 3 L11: 0.4841 L22: 1.0925 REMARK 3 L33: 1.2947 L12: 0.0588 REMARK 3 L13: -0.1452 L23: 0.3846 REMARK 3 S TENSOR REMARK 3 S11: -0.0188 S12: -0.1764 S13: 0.0603 REMARK 3 S21: 0.2057 S22: 0.0428 S23: 0.0079 REMARK 3 S31: -0.0668 S32: 0.0300 S33: -0.0189 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 150:361) REMARK 3 ORIGIN FOR THE GROUP (A): 71.4967 -2.9240 25.8112 REMARK 3 T TENSOR REMARK 3 T11: 0.1143 T22: 0.1344 REMARK 3 T33: 0.1422 T12: -0.0113 REMARK 3 T13: -0.0132 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 0.7278 L22: 1.0739 REMARK 3 L33: 0.8473 L12: -0.4809 REMARK 3 L13: -0.1512 L23: -0.0098 REMARK 3 S TENSOR REMARK 3 S11: 0.0083 S12: -0.0102 S13: -0.0336 REMARK 3 S21: -0.0116 S22: 0.0254 S23: -0.0066 REMARK 3 S31: 0.0421 S32: 0.0094 S33: -0.0364 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 4LV3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081123. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.11587 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 144020 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.420 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.7200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.42 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.470 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1KE4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.7 M POTASSIUM PHOSPHATE, PH 8.8, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 59.27500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.39500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.27500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.39500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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 ILE A 284 REMARK 465 ASN A 285 REMARK 465 GLY A 286 REMARK 465 SER A 287 REMARK 465 ASP A 288 REMARK 465 ASN A 289 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 ILE A 11 CD1 REMARK 470 GLU A 21 CG CD OE1 OE2 REMARK 470 GLN A 22 CG CD OE1 NE2 REMARK 470 LYS A 24 CG CD CE NZ REMARK 470 LYS A 37 CG CD CE NZ REMARK 470 LYS A 51 NZ REMARK 470 LYS A 84 NZ REMARK 470 LYS A 99 CG CD CE NZ REMARK 470 ASP A 123 OD1 OD2 REMARK 470 LYS A 126 CE NZ REMARK 470 LYS A 183 CE NZ REMARK 470 ARG A 204 NE CZ NH1 NH2 REMARK 470 GLU A 205 CG CD OE1 OE2 REMARK 470 LYS A 207 CG CD CE NZ REMARK 470 LYS A 239 CE NZ REMARK 470 ASN A 244 CG OD1 ND2 REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 VAL A 278 CG1 CG2 REMARK 470 ASN A 279 CG OD1 ND2 REMARK 470 ASP A 281 CG OD1 OD2 REMARK 470 SER A 282 OG REMARK 470 LYS A 290 CG CD CE NZ REMARK 470 LYS A 299 CD CE NZ REMARK 470 LYS B 24 CE NZ REMARK 470 LYS B 37 CG CD CE NZ REMARK 470 LYS B 50 NZ REMARK 470 LYS B 51 NZ REMARK 470 GLN B 52 OE1 NE2 REMARK 470 GLN B 56 CD OE1 NE2 REMARK 470 LYS B 99 NZ REMARK 470 GLN B 120 CG CD OE1 NE2 REMARK 470 LYS B 126 CG CD CE NZ REMARK 470 LYS B 164 NZ REMARK 470 LYS B 183 CE NZ REMARK 470 GLU B 205 CG CD OE1 OE2 REMARK 470 LYS B 207 CG CD CE NZ REMARK 470 GLU B 228 CG CD OE1 OE2 REMARK 470 LYS B 239 NZ REMARK 470 ASN B 244 CG OD1 ND2 REMARK 470 LYS B 246 CG CD CE NZ REMARK 470 LYS B 299 CG CD CE NZ REMARK 470 GLU B 331 CD OE1 OE2 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 VAL A 178 -60.62 -123.73 REMARK 500 TYR A 221 11.29 -157.27 REMARK 500 ASN A 341 40.10 -100.15 REMARK 500 LYS B 126 17.99 -152.58 REMARK 500 VAL B 178 -60.52 -122.72 REMARK 500 TYR B 221 19.67 -159.03 REMARK 500 ASN B 341 42.66 -100.78 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 25N A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 25N B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LV0 RELATED DB: PDB REMARK 900 RELATED ID: 4LV1 RELATED DB: PDB REMARK 900 RELATED ID: 4LV2 RELATED DB: PDB DBREF 4LV3 A 4 361 UNP P00811 AMPC_ECOLI 20 377 DBREF 4LV3 B 4 361 UNP P00811 AMPC_ECOLI 20 377 SEQRES 1 A 358 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 A 358 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 A 358 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 A 358 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 A 358 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 A 358 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 A 358 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 A 358 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 A 358 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 A 358 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 A 358 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 A 358 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 A 358 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 A 358 ALA MET GLN THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 A 358 HIS THR TRP ILE ASN VAL PRO PRO ALA GLU GLU LYS ASN SEQRES 16 A 358 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 A 358 SER PRO GLY ALA LEU ASP ALA GLU ALA TYR GLY VAL LYS SEQRES 18 A 358 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 A 358 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 A 358 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 A 358 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 A 358 PRO VAL ASN PRO ASP SER ILE ILE ASN GLY SER ASP ASN SEQRES 23 A 358 LYS ILE ALA LEU ALA ALA ARG PRO VAL LYS ALA ILE THR SEQRES 24 A 358 PRO PRO THR PRO ALA VAL ARG ALA SER TRP VAL HIS LYS SEQRES 25 A 358 THR GLY ALA THR GLY GLY PHE GLY SER TYR VAL ALA PHE SEQRES 26 A 358 ILE PRO GLU LYS GLU LEU GLY ILE VAL MET LEU ALA ASN SEQRES 27 A 358 LYS ASN TYR PRO ASN PRO ALA ARG VAL ASP ALA ALA TRP SEQRES 28 A 358 GLN ILE LEU ASN ALA LEU GLN SEQRES 1 B 358 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 B 358 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 B 358 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 B 358 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 B 358 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 B 358 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 B 358 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 B 358 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 B 358 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 B 358 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 B 358 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 B 358 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 B 358 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 B 358 ALA MET GLN THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 B 358 HIS THR TRP ILE ASN VAL PRO PRO ALA GLU GLU LYS ASN SEQRES 16 B 358 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 B 358 SER PRO GLY ALA LEU ASP ALA GLU ALA TYR GLY VAL LYS SEQRES 18 B 358 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 B 358 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 B 358 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 B 358 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 B 358 PRO VAL ASN PRO ASP SER ILE ILE ASN GLY SER ASP ASN SEQRES 23 B 358 LYS ILE ALA LEU ALA ALA ARG PRO VAL LYS ALA ILE THR SEQRES 24 B 358 PRO PRO THR PRO ALA VAL ARG ALA SER TRP VAL HIS LYS SEQRES 25 B 358 THR GLY ALA THR GLY GLY PHE GLY SER TYR VAL ALA PHE SEQRES 26 B 358 ILE PRO GLU LYS GLU LEU GLY ILE VAL MET LEU ALA ASN SEQRES 27 B 358 LYS ASN TYR PRO ASN PRO ALA ARG VAL ASP ALA ALA TRP SEQRES 28 B 358 GLN ILE LEU ASN ALA LEU GLN HET 25N A 401 17 HET PO4 A 402 5 HET 25N B 401 17 HETNAM 25N (3,5-DI-TERT-BUTYLPHENYL)BORONIC ACID HETNAM PO4 PHOSPHATE ION FORMUL 3 25N 2(C14 H23 B O2) FORMUL 4 PO4 O4 P 3- FORMUL 6 HOH *699(H2 O) HELIX 1 1 PRO A 5 LYS A 24 1 20 HELIX 2 2 VAL A 65 ARG A 80 1 16 HELIX 3 3 PRO A 88 TRP A 93 1 6 HELIX 4 4 ALA A 98 ASN A 102 5 5 HELIX 5 5 THR A 105 THR A 111 1 7 HELIX 6 6 SER A 127 TRP A 138 1 12 HELIX 7 7 ALA A 151 VAL A 163 1 13 HELIX 8 8 SER A 169 VAL A 178 1 10 HELIX 9 9 PRO A 192 TYR A 199 5 8 HELIX 10 10 LEU A 216 TYR A 221 1 6 HELIX 11 11 THR A 226 LYS A 239 1 14 HELIX 12 12 PRO A 240 ILE A 243 5 4 HELIX 13 13 GLU A 245 GLN A 256 1 12 HELIX 14 14 PRO A 330 GLU A 333 5 4 HELIX 15 15 PRO A 345 GLN A 361 1 17 HELIX 16 16 PRO B 5 LYS B 24 1 20 HELIX 17 17 VAL B 65 ARG B 80 1 16 HELIX 18 18 PRO B 88 TRP B 93 1 6 HELIX 19 19 ALA B 98 ASN B 102 5 5 HELIX 20 20 THR B 105 THR B 111 1 7 HELIX 21 21 SER B 127 TRP B 138 1 12 HELIX 22 22 ALA B 151 VAL B 163 1 13 HELIX 23 23 SER B 169 VAL B 178 1 10 HELIX 24 24 PRO B 192 TYR B 199 5 8 HELIX 25 25 LEU B 216 GLY B 222 1 7 HELIX 26 26 ILE B 227 LYS B 239 1 13 HELIX 27 27 PRO B 240 ILE B 243 5 4 HELIX 28 28 GLU B 245 GLN B 256 1 12 HELIX 29 29 ASN B 279 SER B 287 1 9 HELIX 30 30 ASP B 288 LEU B 293 1 6 HELIX 31 31 PRO B 330 GLU B 333 5 4 HELIX 32 32 PRO B 345 GLN B 361 1 17 SHEET 1 A10 GLN A 52 PRO A 53 0 SHEET 2 A10 LYS A 37 ASP A 47 -1 N ALA A 46 O GLN A 52 SHEET 3 A10 GLY A 27 TYR A 34 -1 N VAL A 30 O PHE A 41 SHEET 4 A10 LEU A 334 ALA A 340 -1 O GLY A 335 N ILE A 33 SHEET 5 A10 GLY A 323 ILE A 329 -1 N ILE A 329 O LEU A 334 SHEET 6 A10 SER A 311 ALA A 318 -1 N VAL A 313 O PHE A 328 SHEET 7 A10 GLU A 272 ASP A 275 -1 N LEU A 274 O TRP A 312 SHEET 8 A10 MET A 265 GLN A 267 -1 N TYR A 266 O MET A 273 SHEET 9 A10 ARG A 258 THR A 262 -1 N THR A 262 O MET A 265 SHEET 10 A10 LYS A 299 THR A 305 -1 O LYS A 299 N GLN A 261 SHEET 1 B 2 PHE A 60 GLU A 61 0 SHEET 2 B 2 LYS A 224 SER A 225 -1 O SER A 225 N PHE A 60 SHEET 1 C 2 GLN A 147 ARG A 148 0 SHEET 2 C 2 ARG A 296 PRO A 297 -1 O ARG A 296 N ARG A 148 SHEET 1 D 2 GLY A 202 ARG A 204 0 SHEET 2 D 2 LYS A 207 VAL A 209 -1 O VAL A 209 N GLY A 202 SHEET 1 E10 GLN B 52 PRO B 53 0 SHEET 2 E10 LYS B 37 ASP B 47 -1 N ALA B 46 O GLN B 52 SHEET 3 E10 GLY B 27 TYR B 34 -1 N VAL B 30 O PHE B 41 SHEET 4 E10 LEU B 334 ALA B 340 -1 O GLY B 335 N ILE B 33 SHEET 5 E10 PHE B 322 ILE B 329 -1 N TYR B 325 O MET B 338 SHEET 6 E10 SER B 311 THR B 319 -1 N GLY B 317 O SER B 324 SHEET 7 E10 GLU B 272 ASP B 275 -1 N LEU B 274 O TRP B 312 SHEET 8 E10 MET B 265 GLN B 267 -1 N TYR B 266 O MET B 273 SHEET 9 E10 ARG B 258 THR B 262 -1 N THR B 262 O MET B 265 SHEET 10 E10 LYS B 299 THR B 305 -1 O THR B 305 N ARG B 258 SHEET 1 F 2 LEU B 59 GLU B 61 0 SHEET 2 F 2 LYS B 224 THR B 226 -1 O SER B 225 N PHE B 60 SHEET 1 G 2 GLN B 147 ARG B 148 0 SHEET 2 G 2 ARG B 296 PRO B 297 -1 O ARG B 296 N ARG B 148 SHEET 1 H 2 GLY B 202 ARG B 204 0 SHEET 2 H 2 LYS B 207 VAL B 209 -1 O VAL B 209 N GLY B 202 LINK OG SER A 64 B03 25N A 401 1555 1555 1.47 LINK OG SER B 64 B03 25N B 401 1555 1555 1.46 CISPEP 1 TRP A 276 PRO A 277 0 6.82 CISPEP 2 THR A 302 PRO A 303 0 0.54 CISPEP 3 TRP B 276 PRO B 277 0 3.34 CISPEP 4 THR B 302 PRO B 303 0 0.68 SITE 1 AC1 9 SER A 64 LEU A 119 GLN A 120 TYR A 150 SITE 2 AC1 9 ASN A 152 GLY A 317 ALA A 318 HOH A 573 SITE 3 AC1 9 HOH A 639 SITE 1 AC2 8 ARG A 133 HIS A 186 HOH A 658 HOH A 708 SITE 2 AC2 8 HOH A 772 HOH A 792 HOH A 806 LYS B 290 SITE 1 AC3 9 SER B 64 LEU B 119 TYR B 150 ASN B 152 SITE 2 AC3 9 TYR B 221 GLY B 317 ALA B 318 HOH B 538 SITE 3 AC3 9 HOH B 888 CRYST1 118.550 76.790 98.080 90.00 115.72 90.00 C 1 2 1 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 0.008435 0.000000 0.004063 0.00000 SCALE2 0.000000 0.013023 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011317 0.00000