HEADER ISOMERASE 27-FEB-12 4DX3 TITLE CRYSTAL STRUCTURE OF AN ENOLASE (MANDELATE RACEMASE SUBGROUP, TARGET TITLE 2 EFI-502086) FROM AGROBACTERIUM TUMEFACIENS, WITH A SUCCINIMIDE TITLE 3 RESIDUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MANDELATE RACEMASE / MUCONATE LACTONIZING ENZYME FAMILY COMPND 3 PROTEIN; COMPND 4 CHAIN: A; COMPND 5 EC: 5.1.2.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM TUMEFACIENS; SOURCE 3 ORGANISM_TAXID: 176299; SOURCE 4 STRAIN: C58; SOURCE 5 GENE: ATU5458; 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: PET KEYWDS ENOLASE, MANDELATE RACEMASE SUBGROUP, ENZYME FUNCTION INITIATIVE, KEYWDS 2 EFI, STRUCTURAL GENOMICS, APHA-BETA-BARREL FOLD, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.W.VETTING,J.T.BOUVIER,R.TORO,R.BHOSLE,N.F.AL OBAIDI,L.L.MORISCO, AUTHOR 2 S.R.WASSERMAN,S.SOJITRA,H.J.IMKER,J.A.GERLT,S.C.ALMO,ENZYME FUNCTION AUTHOR 3 INITIATIVE (EFI) REVDAT 3 15-NOV-23 4DX3 1 DBREF LINK ATOM REVDAT 2 13-SEP-23 4DX3 1 REMARK SEQADV LINK REVDAT 1 18-APR-12 4DX3 0 JRNL AUTH M.W.VETTING,J.T.BOUVIER,R.TORO,R.BHOSLE,N.F.AL OBAIDI, JRNL AUTH 2 L.L.MORISCO,S.R.WASSERMAN,S.SOJITRA,H.J.IMKER,J.A.GERLT, JRNL AUTH 3 S.C.ALMO,ENZYME FUNCTION INITIATIVE (EFI) JRNL TITL CRYSTAL STRUCTURE OF AN ENOLASE (MANDELATE RACEMASE JRNL TITL 2 SUBGROUP, TARGET EFI-502086) FROM AGROBACTERIUM TUMEFACIENS, JRNL TITL 3 WITH A SUCCINIMIDE RESIDUE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.3_928 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 51602 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 2624 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 28.5601 - 4.3978 0.98 2716 151 0.1636 0.1565 REMARK 3 2 4.3978 - 3.4927 1.00 2645 140 0.1344 0.1614 REMARK 3 3 3.4927 - 3.0518 1.00 2608 145 0.1515 0.1653 REMARK 3 4 3.0518 - 2.7730 1.00 2635 127 0.1536 0.1489 REMARK 3 5 2.7730 - 2.5744 1.00 2566 142 0.1524 0.1818 REMARK 3 6 2.5744 - 2.4227 1.00 2591 142 0.1536 0.1666 REMARK 3 7 2.4227 - 2.3014 1.00 2553 141 0.1404 0.1540 REMARK 3 8 2.3014 - 2.2013 1.00 2599 121 0.1404 0.1905 REMARK 3 9 2.2013 - 2.1165 1.00 2553 142 0.1383 0.1719 REMARK 3 10 2.1165 - 2.0435 1.00 2578 124 0.1443 0.1879 REMARK 3 11 2.0435 - 1.9797 1.00 2534 140 0.1478 0.1851 REMARK 3 12 1.9797 - 1.9231 1.00 2551 153 0.1452 0.1845 REMARK 3 13 1.9231 - 1.8725 1.00 2564 136 0.1487 0.1828 REMARK 3 14 1.8725 - 1.8268 1.00 2549 137 0.1541 0.1855 REMARK 3 15 1.8268 - 1.7853 1.00 2548 141 0.1593 0.1744 REMARK 3 16 1.7853 - 1.7473 1.00 2544 141 0.1764 0.2157 REMARK 3 17 1.7473 - 1.7123 1.00 2552 135 0.1884 0.2045 REMARK 3 18 1.7123 - 1.6800 1.00 2534 143 0.2109 0.2292 REMARK 3 19 1.6800 - 1.6500 1.00 2558 123 0.2269 0.2513 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.11 REMARK 3 K_SOL : 0.42 REMARK 3 B_SOL : 47.91 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.75500 REMARK 3 B22 (A**2) : 1.75500 REMARK 3 B33 (A**2) : -3.51000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 2952 REMARK 3 ANGLE : 1.103 4013 REMARK 3 CHIRALITY : 0.073 452 REMARK 3 PLANARITY : 0.005 516 REMARK 3 DIHEDRAL : 13.026 1080 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 1:155) REMARK 3 ORIGIN FOR THE GROUP (A): 41.2525 19.2737 2.4854 REMARK 3 T TENSOR REMARK 3 T11: 0.1816 T22: 0.0928 REMARK 3 T33: 0.1760 T12: -0.0523 REMARK 3 T13: 0.0658 T23: -0.0117 REMARK 3 L TENSOR REMARK 3 L11: 0.7792 L22: 0.6041 REMARK 3 L33: 0.5701 L12: -0.1597 REMARK 3 L13: 0.2286 L23: -0.1110 REMARK 3 S TENSOR REMARK 3 S11: -0.0256 S12: -0.0363 S13: -0.1999 REMARK 3 S21: -0.0020 S22: -0.0171 S23: 0.1003 REMARK 3 S31: 0.2408 S32: -0.0984 S33: 0.0305 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 156:210) REMARK 3 ORIGIN FOR THE GROUP (A): 41.8279 39.9515 30.5770 REMARK 3 T TENSOR REMARK 3 T11: 0.2300 T22: 0.2209 REMARK 3 T33: 0.1385 T12: -0.0032 REMARK 3 T13: 0.0851 T23: 0.0311 REMARK 3 L TENSOR REMARK 3 L11: 1.0661 L22: 1.6778 REMARK 3 L33: 0.9061 L12: -0.9735 REMARK 3 L13: 0.4384 L23: -0.4485 REMARK 3 S TENSOR REMARK 3 S11: -0.1067 S12: -0.3035 S13: -0.1743 REMARK 3 S21: 0.3490 S22: 0.0904 S23: 0.2360 REMARK 3 S31: 0.0777 S32: -0.1304 S33: -0.0176 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 211:335) REMARK 3 ORIGIN FOR THE GROUP (A): 47.9115 37.7785 12.8674 REMARK 3 T TENSOR REMARK 3 T11: 0.1112 T22: 0.0885 REMARK 3 T33: 0.0887 T12: -0.0109 REMARK 3 T13: 0.0277 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.4012 L22: 0.7344 REMARK 3 L33: 0.4155 L12: -0.1583 REMARK 3 L13: -0.0768 L23: 0.0604 REMARK 3 S TENSOR REMARK 3 S11: -0.0364 S12: -0.0409 S13: -0.0686 REMARK 3 S21: 0.0395 S22: -0.0283 S23: 0.0061 REMARK 3 S31: 0.0837 S32: -0.0293 S33: 0.0610 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 336:369) REMARK 3 ORIGIN FOR THE GROUP (A): 47.2398 19.4655 21.0028 REMARK 3 T TENSOR REMARK 3 T11: 0.2916 T22: 0.2161 REMARK 3 T33: 0.1706 T12: -0.0529 REMARK 3 T13: 0.0996 T23: 0.0567 REMARK 3 L TENSOR REMARK 3 L11: 0.9283 L22: 1.3348 REMARK 3 L33: 0.0079 L12: 0.9864 REMARK 3 L13: -0.0119 L23: -0.0267 REMARK 3 S TENSOR REMARK 3 S11: 0.0319 S12: -0.2913 S13: -0.1530 REMARK 3 S21: 0.3430 S22: -0.0997 S23: 0.0517 REMARK 3 S31: 0.3033 S32: -0.1910 S33: 0.0003 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 370:400) REMARK 3 ORIGIN FOR THE GROUP (A): 34.3998 9.9238 7.7002 REMARK 3 T TENSOR REMARK 3 T11: 0.3236 T22: 0.1321 REMARK 3 T33: 0.3339 T12: -0.1160 REMARK 3 T13: 0.1038 T23: 0.0376 REMARK 3 L TENSOR REMARK 3 L11: 1.6645 L22: 0.6276 REMARK 3 L33: 0.6451 L12: 0.0085 REMARK 3 L13: 0.7134 L23: 0.2290 REMARK 3 S TENSOR REMARK 3 S11: -0.0016 S12: -0.1494 S13: -0.4696 REMARK 3 S21: 0.0327 S22: -0.0357 S23: 0.3881 REMARK 3 S31: 0.3583 S32: -0.3502 S33: -0.1375 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 4DX3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070891. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51603 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 85.668 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.11600 REMARK 200 FOR THE DATA SET : 15.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.40 REMARK 200 R MERGE FOR SHELL (I) : 0.88300 REMARK 200 R SYM FOR SHELL (I) : 0.88300 REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 2POD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (10 MM TRIS, PH 8.0, 200 MM REMARK 280 NACL, 5 MM MG; RESERVOIR (0.1 M NACITRATE PH 4.0, 0.8 M AMSO4); REMARK 280 CRYOPROTECTION (RESERVOIR, + 20% GLYCEROL AND 50 MM MGCL), REMARK 280 SITTING DROP VAPOR DIFFUCTION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 57.27000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 64.53000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 57.27000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 64.53000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 57.27000 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 64.53000 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 57.27000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 64.53000 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 57.27000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 64.53000 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 57.27000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 64.53000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 57.27000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 64.53000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 57.27000 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 57.27000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 64.53000 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 43200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 84290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -157.0 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 114.54000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 114.54000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 114.54000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 114.54000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 114.54000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 114.54000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 114.54000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 114.54000 REMARK 350 BIOMT3 8 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 654 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 919 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 CYS A 121 REMARK 465 ALA A 122 REMARK 465 GLY A 123 REMARK 465 THR A 124 REMARK 465 GLU A 125 REMARK 465 TYR A 126 REMARK 465 ILE A 127 REMARK 465 LYS A 128 REMARK 465 LYS A 129 REMARK 465 ALA A 130 REMARK 465 THR A 131 REMARK 465 GLY A 132 REMARK 465 GLN A 133 REMARK 465 GLN A 134 REMARK 465 THR A 135 REMARK 465 ALA A 136 REMARK 465 ASN A 137 REMARK 465 TYR A 138 REMARK 465 GLY A 139 REMARK 465 LEU A 140 REMARK 465 SER A 141 REMARK 465 GLY A 142 REMARK 465 GLY A 143 REMARK 465 LYS A 144 REMARK 465 ASP A 145 REMARK 465 TYR A 146 REMARK 465 ASP A 147 REMARK 465 ASP A 148 REMARK 465 LEU A 149 REMARK 465 ASN A 150 REMARK 465 GLY A 151 REMARK 465 PHE A 152 REMARK 465 LEU A 153 REMARK 465 HIS A 154 REMARK 465 ALA A 347 REMARK 465 PHE A 348 REMARK 465 TYR A 349 REMARK 465 LYS A 350 REMARK 465 THR A 351 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 709 O HOH A 756 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 320 C CYS A 320 O 0.146 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS A 320 N - CA - CB ANGL. DEV. = -11.6 DEGREES 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 PHE A 36 133.17 84.40 REMARK 500 MET A 247 46.36 -93.24 REMARK 500 SER A 272 154.92 77.89 REMARK 500 SNN A 319 -130.15 -126.76 REMARK 500 THR A 321 -104.26 -109.73 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 GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DN1 RELATED DB: PDB REMARK 900 RELATED ID: 4DXK RELATED DB: PDB REMARK 900 RELATED ID: EFI-502086 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 319 AND 320 STARTED OUT AS ASP AND CYS. THE SIDECHAIN OF REMARK 999 ASP ATTACKS THE FOLLOWING AMIDE OF CYS TO FORM A SUCCINIMIDE REMARK 999 RESIDUE SNN. DBREF 4DX3 A 1 400 UNP Q7D1T6 Q7D1T6_AGRT5 1 400 SEQADV 4DX3 SNN A 319 UNP Q7D1T6 ASP 319 MODIFIED RESIDUE SEQRES 1 A 400 MET LYS ILE THR LYS LEU GLU THR VAL ARG VAL ALA GLU SEQRES 2 A 400 ARG THR ASN LEU LEU TRP VAL LEU VAL HIS THR ASP GLU SEQRES 3 A 400 GLY ILE THR GLY LEU GLY GLU THR PHE PHE GLY ALA GLU SEQRES 4 A 400 THR VAL GLU THR TYR VAL HIS GLU TYR ILE ALA PRO ARG SEQRES 5 A 400 VAL ILE GLY ARG ASP PRO LEU GLN ILE ASP LEU LEU ALA SEQRES 6 A 400 GLN ASP LEU VAL GLY TYR LEU GLY PHE ARG SER SER GLY SEQRES 7 A 400 ALA GLU VAL ARG GLY ASN SER ALA PHE ASP ILE ALA LEU SEQRES 8 A 400 TRP ASP ILE PHE GLY LYS ALA THR ASN GLN PRO ILE ALA SEQRES 9 A 400 GLN LEU LEU GLY GLY PHE SER ARG ARG GLU ILE ARG THR SEQRES 10 A 400 TYR ASN THR CYS ALA GLY THR GLU TYR ILE LYS LYS ALA SEQRES 11 A 400 THR GLY GLN GLN THR ALA ASN TYR GLY LEU SER GLY GLY SEQRES 12 A 400 LYS ASP TYR ASP ASP LEU ASN GLY PHE LEU HIS ARG ALA SEQRES 13 A 400 ASP GLU LEU ALA HIS SER LEU LEU GLU ASP GLY ILE THR SEQRES 14 A 400 ALA MET LYS ILE TRP PRO PHE ASP ALA ALA ALA GLU LYS SEQRES 15 A 400 THR ARG GLY GLN TYR ILE SER MET PRO ASP LEU LYS SER SEQRES 16 A 400 ALA LEU GLU PRO PHE GLU LYS ILE ARG LYS ALA VAL GLY SEQRES 17 A 400 ASP LYS MET ASP ILE MET VAL GLU PHE HIS SER MET TRP SEQRES 18 A 400 GLN LEU LEU PRO ALA MET GLN ILE ALA LYS ALA LEU THR SEQRES 19 A 400 PRO TYR GLN THR PHE TRP HIS GLU ASP PRO ILE LYS MET SEQRES 20 A 400 ASP SER LEU SER SER LEU THR ARG TYR ALA ALA VAL SER SEQRES 21 A 400 PRO ALA PRO ILE SER ALA SER GLU THR LEU GLY SER ARG SEQRES 22 A 400 TRP ALA PHE ARG ASP LEU LEU GLU THR GLY ALA ALA GLY SEQRES 23 A 400 VAL VAL MET LEU ASP ILE SER TRP CYS GLY GLY LEU SER SEQRES 24 A 400 GLU ALA ARG LYS ILE ALA SER MET ALA GLU ALA TRP HIS SEQRES 25 A 400 LEU PRO VAL ALA PRO HIS SNN CYS THR GLY PRO VAL VAL SEQRES 26 A 400 LEU CYS ALA SER THR HIS LEU SER LEU ASN ALA PRO ASN SEQRES 27 A 400 ALA LEU VAL GLN GLU SER VAL ARG ALA PHE TYR LYS THR SEQRES 28 A 400 TRP TYR ARG ASP LEU VAL THR ALA LEU PRO GLU VAL LYS SEQRES 29 A 400 ASN GLY MET ILE THR VAL PRO PRO GLY ALA GLY LEU GLY SEQRES 30 A 400 MET GLU LEU HIS PRO ASP ILE GLU LYS THR PHE THR VAL SEQRES 31 A 400 SER ARG ARG PHE SER ASP ALA ALA SER ILE MODRES 4DX3 SNN A 319 ASN L-3-AMINOSUCCINIMIDE HET SNN A 319 7 HET GOL A 501 6 HET CL A 502 1 HETNAM SNN L-3-AMINOSUCCINIMIDE HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 SNN C4 H6 N2 O2 FORMUL 2 GOL C3 H8 O3 FORMUL 3 CL CL 1- FORMUL 4 HOH *327(H2 O) HELIX 1 1 GLY A 37 TYR A 48 1 12 HELIX 2 2 TYR A 48 ILE A 54 1 7 HELIX 3 3 GLN A 60 LEU A 68 1 9 HELIX 4 4 GLY A 78 ASN A 100 1 23 HELIX 5 5 PRO A 102 LEU A 107 1 6 HELIX 6 6 ALA A 156 ASP A 166 1 11 HELIX 7 7 PHE A 176 THR A 183 1 8 HELIX 8 8 SER A 189 GLY A 208 1 20 HELIX 9 9 ASP A 209 MET A 211 5 3 HELIX 10 10 GLN A 222 LEU A 233 1 12 HELIX 11 11 THR A 234 GLN A 237 5 4 HELIX 12 12 SER A 249 SER A 251 5 3 HELIX 13 13 SER A 252 ALA A 258 1 7 HELIX 14 14 GLY A 271 THR A 282 1 12 HELIX 15 15 GLY A 296 TRP A 311 1 16 HELIX 16 16 GLY A 322 ALA A 336 1 15 HELIX 17 17 TYR A 353 VAL A 357 1 5 HELIX 18 18 ASP A 383 PHE A 388 1 6 SHEET 1 A 4 GLY A 30 PHE A 35 0 SHEET 2 A 4 LEU A 17 THR A 24 -1 N VAL A 20 O GLY A 32 SHEET 3 A 4 ILE A 3 VAL A 11 -1 N GLU A 7 O LEU A 21 SHEET 4 A 4 VAL A 390 ASP A 396 -1 O ARG A 393 N THR A 8 SHEET 1 B 4 GLN A 342 GLU A 343 0 SHEET 2 B 4 ILE A 115 TYR A 118 1 N ARG A 116 O GLN A 342 SHEET 3 B 4 MET A 367 THR A 369 -1 O ILE A 368 N ILE A 115 SHEET 4 B 4 GLU A 362 LYS A 364 -1 N LYS A 364 O MET A 367 SHEET 1 C 6 ALA A 170 ILE A 173 0 SHEET 2 C 6 ASP A 212 GLU A 216 1 O MET A 214 N MET A 171 SHEET 3 C 6 TRP A 240 GLU A 242 1 O GLU A 242 N VAL A 215 SHEET 4 C 6 ILE A 264 ALA A 266 1 O SER A 265 N HIS A 241 SHEET 5 C 6 VAL A 287 LEU A 290 1 O VAL A 287 N ALA A 266 SHEET 6 C 6 VAL A 315 PRO A 317 1 O ALA A 316 N VAL A 288 LINK C HIS A 318 N SNN A 319 1555 1555 1.42 LINK C SNN A 319 N CYS A 320 1555 1555 1.43 LINK C5 SNN A 319 N CYS A 320 1555 1555 1.43 CISPEP 1 ALA A 266 SER A 267 0 -14.67 SITE 1 AC1 8 GLN A 186 TYR A 187 LEU A 224 PRO A 225 SITE 2 AC1 8 GLN A 228 PHE A 239 PRO A 263 HOH A 644 SITE 1 AC2 2 ARG A 255 HOH A 768 CRYST1 114.540 114.540 129.060 90.00 90.00 90.00 I 4 2 2 16 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 0.008731 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008731 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007748 0.00000