HEADER HYDROLASE 08-FEB-16 5I2B TITLE CRYSTAL STRUCTURE OF A PEPTIDE DEFORMYLASE FROM BURKHOLDERIA AMBIFARIA TITLE 2 WITH ACTINONIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE DEFORMYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PDF,POLYPEPTIDE DEFORMYLASE; COMPND 5 EC: 3.5.1.88; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA AMBIFARIA IOP40-10; SOURCE 3 ORGANISM_TAXID: 396596; SOURCE 4 GENE: DEF, BAMIOP4010DRAFT_5965; 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: BUAMA.00078.A.B1 KEYWDS SSGCID, BURKHOLDERIA AMBIFARIA, PEPTIDE DEFORMYLASE, STRUCTURAL KEYWDS 2 GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, KEYWDS 3 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 27-SEP-23 5I2B 1 REMARK REVDAT 2 21-SEP-16 5I2B 1 AUTHOR REVDAT 1 09-MAR-16 5I2B 0 JRNL AUTH D.G.CONRADY,D.M.DRANOW,D.D.LORIMER,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF A PEPTIDE DEFORMYLASE FROM BURKHOLDERIA JRNL TITL 2 AMBIFARIA WITH ACTINONIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_2299 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 21506 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.230 REMARK 3 FREE R VALUE TEST SET COUNT : 1986 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 39.0221 - 4.0958 1.00 1498 176 0.1599 0.1790 REMARK 3 2 4.0958 - 3.2514 1.00 1397 159 0.1451 0.1705 REMARK 3 3 3.2514 - 2.8406 1.00 1409 150 0.1795 0.2109 REMARK 3 4 2.8406 - 2.5809 1.00 1420 126 0.1777 0.2743 REMARK 3 5 2.5809 - 2.3960 1.00 1401 136 0.1859 0.2335 REMARK 3 6 2.3960 - 2.2547 1.00 1379 148 0.1789 0.1788 REMARK 3 7 2.2547 - 2.1418 1.00 1367 153 0.1678 0.2167 REMARK 3 8 2.1418 - 2.0486 1.00 1380 159 0.1693 0.2089 REMARK 3 9 2.0486 - 1.9697 1.00 1369 131 0.1826 0.2247 REMARK 3 10 1.9697 - 1.9017 1.00 1397 132 0.1973 0.2320 REMARK 3 11 1.9017 - 1.8423 1.00 1385 117 0.2179 0.2231 REMARK 3 12 1.8423 - 1.7896 1.00 1389 141 0.2172 0.2719 REMARK 3 13 1.7896 - 1.7425 0.99 1353 128 0.2392 0.2545 REMARK 3 14 1.7425 - 1.7000 0.99 1376 130 0.2514 0.2978 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.31 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 : 0.007 1390 REMARK 3 ANGLE : 0.846 1877 REMARK 3 CHIRALITY : 0.058 201 REMARK 3 PLANARITY : 0.007 245 REMARK 3 DIHEDRAL : 13.559 828 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 0 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.2279 79.3353 11.0646 REMARK 3 T TENSOR REMARK 3 T11: 0.4841 T22: 0.1905 REMARK 3 T33: 0.3411 T12: -0.0301 REMARK 3 T13: 0.1909 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 4.4798 L22: 7.4128 REMARK 3 L33: 6.2502 L12: 1.4382 REMARK 3 L13: 0.5124 L23: -4.7607 REMARK 3 S TENSOR REMARK 3 S11: -0.4993 S12: 0.0288 S13: -0.6241 REMARK 3 S21: 0.0683 S22: 0.0476 S23: -0.2127 REMARK 3 S31: 1.0974 S32: -0.1547 S33: -0.0821 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 11 THROUGH 61 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8808 83.8595 21.4239 REMARK 3 T TENSOR REMARK 3 T11: 0.2426 T22: 0.2231 REMARK 3 T33: 0.2288 T12: 0.0061 REMARK 3 T13: 0.0781 T23: 0.0706 REMARK 3 L TENSOR REMARK 3 L11: 1.4575 L22: 2.2239 REMARK 3 L33: 4.7209 L12: 1.1554 REMARK 3 L13: 0.0251 L23: -0.7950 REMARK 3 S TENSOR REMARK 3 S11: -0.0948 S12: -0.1385 S13: -0.4060 REMARK 3 S21: -0.0311 S22: -0.0800 S23: -0.1668 REMARK 3 S31: 0.7524 S32: -0.0616 S33: 0.1769 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 62 THROUGH 77 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.5494 86.0099 23.5702 REMARK 3 T TENSOR REMARK 3 T11: 0.5780 T22: 0.9593 REMARK 3 T33: 0.8594 T12: 0.1965 REMARK 3 T13: 0.0929 T23: 0.1882 REMARK 3 L TENSOR REMARK 3 L11: 6.2879 L22: 1.0387 REMARK 3 L33: 1.3946 L12: 1.4903 REMARK 3 L13: -0.3525 L23: -0.1055 REMARK 3 S TENSOR REMARK 3 S11: 0.0013 S12: -0.1266 S13: -0.9329 REMARK 3 S21: -0.4604 S22: -0.4773 S23: -0.6543 REMARK 3 S31: 0.4322 S32: 1.4144 S33: 0.2449 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 78 THROUGH 87 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3472 95.5054 25.3236 REMARK 3 T TENSOR REMARK 3 T11: 0.1758 T22: 0.2261 REMARK 3 T33: 0.1216 T12: 0.0145 REMARK 3 T13: 0.0313 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 7.1487 L22: 4.2200 REMARK 3 L33: 2.2073 L12: 2.8662 REMARK 3 L13: -1.0452 L23: -2.3271 REMARK 3 S TENSOR REMARK 3 S11: -0.0349 S12: -0.2294 S13: -0.0175 REMARK 3 S21: 0.1317 S22: 0.0003 S23: 0.0246 REMARK 3 S31: 0.0393 S32: 0.1360 S33: 0.1348 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 88 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.9797 93.3626 11.6900 REMARK 3 T TENSOR REMARK 3 T11: 0.2050 T22: 0.1805 REMARK 3 T33: 0.1904 T12: 0.0296 REMARK 3 T13: 0.0728 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 1.0493 L22: 7.5097 REMARK 3 L33: 4.0963 L12: 0.3398 REMARK 3 L13: 0.1590 L23: 4.2919 REMARK 3 S TENSOR REMARK 3 S11: -0.1087 S12: -0.0381 S13: -0.1390 REMARK 3 S21: -0.1990 S22: 0.2659 S23: -0.4490 REMARK 3 S31: 0.1609 S32: 0.3072 S33: -0.1859 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.1822 93.6783 24.8953 REMARK 3 T TENSOR REMARK 3 T11: 0.1375 T22: 0.2006 REMARK 3 T33: 0.1383 T12: 0.0418 REMARK 3 T13: 0.0243 T23: 0.0565 REMARK 3 L TENSOR REMARK 3 L11: 1.9194 L22: 2.5235 REMARK 3 L33: 2.9957 L12: 1.5557 REMARK 3 L13: -0.2152 L23: -0.4782 REMARK 3 S TENSOR REMARK 3 S11: 0.0865 S12: -0.4304 S13: -0.2373 REMARK 3 S21: 0.2256 S22: -0.1018 S23: -0.1008 REMARK 3 S31: 0.0988 S32: 0.0204 S33: 0.0288 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.1602 90.2835 3.7666 REMARK 3 T TENSOR REMARK 3 T11: 0.2773 T22: 0.2488 REMARK 3 T33: 0.1763 T12: 0.0058 REMARK 3 T13: 0.0722 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 4.1411 L22: 4.6439 REMARK 3 L33: 2.3190 L12: -2.6786 REMARK 3 L13: -1.0818 L23: 0.9337 REMARK 3 S TENSOR REMARK 3 S11: 0.1233 S12: -0.0049 S13: -0.0095 REMARK 3 S21: -0.4368 S22: -0.0105 S23: -0.2967 REMARK 3 S31: 0.0390 S32: 0.3968 S33: -0.1163 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 5I2B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218109. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JAN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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 FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21509 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 39.012 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.02800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.380 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5HGW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RIGAKU REAGENTS MORPHEUS SCREEN E8: REMARK 280 12.5% PEG1000, 12.5% PEG3350, 12.5% MPD, 0.1 M MOPS/HEPES PH 7.5, REMARK 280 0.03M DIETHYLENEGLYCOL, 0.03M TRIETHYLENEGLYCOL, 0.03M REMARK 280 TETRAETHYLENEGLYCOL, 0.03M PENTAETHYLENEGLYCOL; REMARK 280 BUAMA.00078.A.B1.PS02512 AT 17.5 MG/ML, TRAY 267396 E8, PUCK REMARK 280 MBF3-1, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 19.29500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.12500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 70.36500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 19.29500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.12500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 70.36500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 19.29500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 35.12500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 70.36500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 19.29500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 35.12500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 70.36500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 38.59000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 331 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 432 LIES ON A SPECIAL POSITION. 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 MET A -7 REMARK 465 ALA 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 GLY A 64 REMARK 465 SER A 65 REMARK 465 ASN A 66 REMARK 465 GLY A 170 REMARK 465 LEU A 171 REMARK 465 ASP A 172 REMARK 465 PRO A 173 REMARK 465 THR A 174 REMARK 465 ASP A 175 REMARK 465 ASP A 176 REMARK 465 ASP 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 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 1 CG SD CE REMARK 470 ARG A 3 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 4 CG CD OE1 OE2 REMARK 470 GLU A 30 CG CD OE1 OE2 REMARK 470 GLU A 37 CG CD OE1 OE2 REMARK 470 ASN A 67 CG OD1 ND2 REMARK 470 ARG A 68 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 165 CG CD OE1 OE2 REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 447 DISTANCE = 6.14 ANGSTROMS 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 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 99 SG REMARK 620 2 HIS A 141 NE2 113.3 REMARK 620 3 HIS A 145 NE2 97.7 106.4 REMARK 620 4 BB2 A 202 O4 90.2 107.4 138.6 REMARK 620 5 BB2 A 202 O2 145.6 100.0 80.0 71.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BB2 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 207 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HGW RELATED DB: PDB DBREF 5I2B A 1 177 UNP B1FPK4 B1FPK4_9BURK 1 177 SEQADV 5I2B MET A -7 UNP B1FPK4 INITIATING METHIONINE SEQADV 5I2B ALA A -6 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A -5 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A -4 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A -3 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A -2 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A -1 UNP B1FPK4 EXPRESSION TAG SEQADV 5I2B HIS A 0 UNP B1FPK4 EXPRESSION TAG SEQRES 1 A 185 MET ALA HIS HIS HIS HIS HIS HIS MET ILE ARG GLU ILE SEQRES 2 A 185 LEU LYS MET GLY ASP PRO ARG LEU LEU GLU VAL ALA LYS SEQRES 3 A 185 PRO VAL ALA GLN PHE ASP THR PRO GLU LEU HIS GLU ILE SEQRES 4 A 185 VAL ALA ASP MET PHE GLU THR MET HIS HIS ALA ASN GLY SEQRES 5 A 185 ALA GLY LEU ALA ALA PRO GLN ILE GLY ILE GLY LEU GLN SEQRES 6 A 185 ILE ILE ILE PHE GLY PHE GLY SER ASN ASN ARG TYR PRO SEQRES 7 A 185 ASP ALA PRO PRO VAL PRO GLU THR VAL LEU ILE ASN PRO SEQRES 8 A 185 LYS LEU GLU TYR MET PRO PRO ASP MET GLU GLU GLY TRP SEQRES 9 A 185 GLU GLY CYS LEU SER VAL PRO GLY MET ARG GLY VAL VAL SEQRES 10 A 185 SER ARG TYR ALA LYS VAL ARG TYR SER GLY TYR ASP GLN SEQRES 11 A 185 PHE GLY ALA LYS ILE ASP ARG VAL ALA GLU GLY PHE HIS SEQRES 12 A 185 ALA ARG VAL VAL GLN HIS GLU TYR ASP HIS LEU ILE GLY SEQRES 13 A 185 LYS LEU TYR PRO MET ARG ILE THR ASP PHE THR ARG PHE SEQRES 14 A 185 GLY PHE THR GLU VAL LEU PHE PRO GLY LEU ASP PRO THR SEQRES 15 A 185 ASP ASP ASP HET ZN A 201 1 HET BB2 A 202 62 HET EDO A 203 10 HET EDO A 204 10 HET EDO A 205 10 HET EDO A 206 10 HET EDO A 207 20 HETNAM ZN ZINC ION HETNAM BB2 ACTINONIN HETNAM EDO 1,2-ETHANEDIOL HETSYN BB2 2-[(FORMYL-HYDROXY-AMINO)-METHYL]-HEPTANOIC ACID [1-(2- HETSYN 2 BB2 HYDROXYMETHYL-PYRROLIDINE-1-CARBONYL)-2-METHYL- HETSYN 3 BB2 PROPYL]-AMIDE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 BB2 C19 H35 N3 O5 FORMUL 4 EDO 5(C2 H6 O2) FORMUL 9 HOH *147(H2 O) HELIX 1 AA1 ASP A 10 GLU A 15 5 6 HELIX 2 AA2 THR A 25 ALA A 42 1 18 HELIX 3 AA3 PRO A 50 GLY A 53 5 4 HELIX 4 AA4 GLY A 133 ILE A 147 1 15 HELIX 5 AA5 LEU A 150 ARG A 154 5 5 HELIX 6 AA6 ASP A 157 THR A 159 5 3 HELIX 7 AA7 THR A 164 PHE A 168 1 5 SHEET 1 AA1 5 GLY A 46 ALA A 48 0 SHEET 2 AA1 5 ILE A 58 PHE A 63 -1 O ILE A 60 N LEU A 47 SHEET 3 AA1 5 VAL A 75 TYR A 87 -1 O LEU A 80 N ILE A 59 SHEET 4 AA1 5 LYS A 114 TYR A 120 -1 O TYR A 120 N ILE A 81 SHEET 5 AA1 5 LYS A 126 GLU A 132 -1 O ALA A 131 N VAL A 115 SHEET 1 AA2 3 MET A 92 CYS A 99 0 SHEET 2 AA2 3 VAL A 102 TYR A 112 -1 O ARG A 111 N GLU A 93 SHEET 3 AA2 3 PHE A 161 PHE A 163 -1 O GLY A 162 N ARG A 106 LINK SG CYS A 99 ZN ZN A 201 1555 1555 2.28 LINK NE2 HIS A 141 ZN ZN A 201 1555 1555 2.17 LINK NE2 HIS A 145 ZN ZN A 201 1555 1555 2.28 LINK ZN ZN A 201 O4 BB2 A 202 1555 1555 2.24 LINK ZN ZN A 201 O2 BB2 A 202 1555 1555 2.34 CISPEP 1 PRO A 89 PRO A 90 0 2.02 SITE 1 AC1 5 GLN A 51 CYS A 99 HIS A 141 HIS A 145 SITE 2 AC1 5 BB2 A 202 SITE 1 AC2 14 GLY A 44 ALA A 45 GLY A 46 GLN A 51 SITE 2 AC2 14 TRP A 96 GLY A 98 CYS A 99 LEU A 100 SITE 3 AC2 14 ARG A 106 PHE A 134 HIS A 141 GLU A 142 SITE 4 AC2 14 HIS A 145 ZN A 201 SITE 1 AC3 6 ARG A 154 HOH A 311 HOH A 319 HOH A 323 SITE 2 AC3 6 HOH A 331 HOH A 399 SITE 1 AC4 6 ASP A 24 PHE A 123 HIS A 135 HOH A 302 SITE 2 AC4 6 HOH A 392 HOH A 406 SITE 1 AC5 3 ALA A 21 PRO A 70 ASP A 71 SITE 1 AC6 4 GLY A 95 TRP A 96 VAL A 108 HOH A 304 SITE 1 AC7 2 PHE A 36 GLN A 122 CRYST1 38.590 70.250 140.730 90.00 90.00 90.00 I 2 2 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 0.025913 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014235 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007106 0.00000