HEADER LYASE 05-AUG-15 5D2J TITLE 4-OXALOCROTONATE DECARBOXYLASE FROM PSEUDOMONAS PUTIDA G7 - COMPLEXED TITLE 2 WITH MAGNESIUM AND ADIPATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 4-OXALOCROTONATE DECARBOXYLASE NAHK; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.77; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303; SOURCE 4 GENE: NAHK; 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: PET28A-TEV KEYWDS NAPHTHALENE DEGRADATION, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.L.GUIMARAES,R.A.P.NAGEM REVDAT 5 27-SEP-23 5D2J 1 LINK REVDAT 4 08-JAN-20 5D2J 1 REMARK REVDAT 3 17-APR-19 5D2J 1 JRNL REMARK REVDAT 2 25-MAY-16 5D2J 1 JRNL REVDAT 1 04-MAY-16 5D2J 0 JRNL AUTH S.L.GUIMARAES,J.B.COITINHO,D.M.COSTA,S.S.ARAUJO,C.P.WHITMAN, JRNL AUTH 2 R.A.NAGEM JRNL TITL CRYSTAL STRUCTURES OF APO AND LIGANDED 4-OXALOCROTONATE JRNL TITL 2 DECARBOXYLASE UNCOVER A STRUCTURAL BASIS FOR THE JRNL TITL 3 METAL-ASSISTED DECARBOXYLATION OF A VINYLOGOUS BETA-KETO JRNL TITL 4 ACID. JRNL REF BIOCHEMISTRY V. 55 2632 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 27082660 JRNL DOI 10.1021/ACS.BIOCHEM.6B00050 REMARK 2 REMARK 2 RESOLUTION. 1.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1309 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) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 51551 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 2531 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 40.6062 - 4.5011 0.99 2893 159 0.1484 0.1864 REMARK 3 2 4.5011 - 3.5733 1.00 2846 135 0.1272 0.1509 REMARK 3 3 3.5733 - 3.1218 1.00 2850 125 0.1477 0.1745 REMARK 3 4 3.1218 - 2.8365 1.00 2821 146 0.1642 0.1910 REMARK 3 5 2.8365 - 2.6332 1.00 2800 134 0.1641 0.1987 REMARK 3 6 2.6332 - 2.4780 1.00 2820 124 0.1586 0.2067 REMARK 3 7 2.4780 - 2.3539 1.00 2829 154 0.1551 0.2147 REMARK 3 8 2.3539 - 2.2514 1.00 2757 156 0.1450 0.1676 REMARK 3 9 2.2514 - 2.1648 1.00 2797 139 0.1475 0.1781 REMARK 3 10 2.1648 - 2.0901 1.00 2792 145 0.1467 0.1571 REMARK 3 11 2.0901 - 2.0247 1.00 2749 163 0.1512 0.2186 REMARK 3 12 2.0247 - 1.9668 1.00 2798 143 0.1591 0.1877 REMARK 3 13 1.9668 - 1.9151 0.99 2750 142 0.1642 0.1916 REMARK 3 14 1.9151 - 1.8683 0.99 2782 145 0.1841 0.2817 REMARK 3 15 1.8683 - 1.8259 0.96 2658 148 0.1956 0.2698 REMARK 3 16 1.8259 - 1.7870 0.93 2570 146 0.1958 0.2517 REMARK 3 17 1.7870 - 1.7513 0.85 2369 121 0.1937 0.2468 REMARK 3 18 1.7513 - 1.7182 0.78 2139 106 0.2075 0.2489 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.670 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.76 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.15 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 : 0.006 4105 REMARK 3 ANGLE : 1.062 5570 REMARK 3 CHIRALITY : 0.076 648 REMARK 3 PLANARITY : 0.004 728 REMARK 3 DIHEDRAL : 12.953 1506 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 81 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.7408 14.8410 18.5462 REMARK 3 T TENSOR REMARK 3 T11: 0.1094 T22: 0.1283 REMARK 3 T33: 0.1153 T12: -0.0077 REMARK 3 T13: 0.0051 T23: 0.0106 REMARK 3 L TENSOR REMARK 3 L11: 1.4945 L22: 1.9058 REMARK 3 L33: 2.0965 L12: -0.3777 REMARK 3 L13: 0.5209 L23: -0.4066 REMARK 3 S TENSOR REMARK 3 S11: -0.0324 S12: -0.2306 S13: -0.0633 REMARK 3 S21: 0.2001 S22: 0.0489 S23: 0.1475 REMARK 3 S31: 0.0006 S32: -0.1673 S33: 0.0050 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 82 THROUGH 171 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.8005 14.8279 6.0664 REMARK 3 T TENSOR REMARK 3 T11: 0.0781 T22: 0.1026 REMARK 3 T33: 0.1112 T12: -0.0243 REMARK 3 T13: 0.0193 T23: 0.0036 REMARK 3 L TENSOR REMARK 3 L11: 1.7416 L22: 1.4212 REMARK 3 L33: 1.2210 L12: -0.6358 REMARK 3 L13: 0.2388 L23: -0.0723 REMARK 3 S TENSOR REMARK 3 S11: -0.0044 S12: -0.0197 S13: -0.1103 REMARK 3 S21: 0.0277 S22: -0.0095 S23: 0.0473 REMARK 3 S31: 0.0450 S32: 0.0330 S33: -0.0052 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 172 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.1006 13.9869 0.5764 REMARK 3 T TENSOR REMARK 3 T11: 0.0764 T22: 0.1082 REMARK 3 T33: 0.1327 T12: -0.0013 REMARK 3 T13: 0.0245 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.7952 L22: 1.4189 REMARK 3 L33: 1.0190 L12: -0.2103 REMARK 3 L13: 0.0553 L23: 0.5266 REMARK 3 S TENSOR REMARK 3 S11: -0.0366 S12: 0.0441 S13: -0.1208 REMARK 3 S21: -0.0690 S22: 0.0336 S23: 0.0671 REMARK 3 S31: 0.0041 S32: 0.0091 S33: 0.0153 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 38 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6477 -9.2788 31.5077 REMARK 3 T TENSOR REMARK 3 T11: 0.1134 T22: 0.1500 REMARK 3 T33: 0.1733 T12: -0.0285 REMARK 3 T13: 0.0094 T23: 0.0180 REMARK 3 L TENSOR REMARK 3 L11: 1.7457 L22: 1.8639 REMARK 3 L33: 4.5167 L12: -0.3094 REMARK 3 L13: 0.4831 L23: -0.4059 REMARK 3 S TENSOR REMARK 3 S11: 0.0116 S12: -0.2072 S13: -0.0251 REMARK 3 S21: 0.0862 S22: 0.0036 S23: 0.2028 REMARK 3 S31: 0.0068 S32: -0.4136 S33: 0.0033 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 39 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2836 -4.7979 28.8340 REMARK 3 T TENSOR REMARK 3 T11: 0.0818 T22: 0.0958 REMARK 3 T33: 0.1018 T12: 0.0113 REMARK 3 T13: -0.0115 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 1.6901 L22: 1.9765 REMARK 3 L33: 1.8350 L12: 1.2415 REMARK 3 L13: 0.1299 L23: 0.7095 REMARK 3 S TENSOR REMARK 3 S11: 0.0500 S12: -0.0656 S13: 0.0028 REMARK 3 S21: 0.0494 S22: 0.0207 S23: 0.0947 REMARK 3 S31: 0.0796 S32: -0.0528 S33: -0.0399 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 77 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7743 -0.0820 22.2230 REMARK 3 T TENSOR REMARK 3 T11: 0.1150 T22: 0.0662 REMARK 3 T33: 0.0901 T12: 0.0170 REMARK 3 T13: 0.0154 T23: 0.0020 REMARK 3 L TENSOR REMARK 3 L11: 1.4349 L22: 0.9453 REMARK 3 L33: 1.0447 L12: 0.0526 REMARK 3 L13: 0.5617 L23: -0.0372 REMARK 3 S TENSOR REMARK 3 S11: 0.0255 S12: 0.0703 S13: 0.0099 REMARK 3 S21: -0.0092 S22: 0.0086 S23: 0.0500 REMARK 3 S31: 0.0095 S32: -0.0268 S33: -0.0410 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 171 THROUGH 207 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.1256 12.1165 15.5627 REMARK 3 T TENSOR REMARK 3 T11: 0.1368 T22: 0.0953 REMARK 3 T33: 0.1127 T12: -0.0170 REMARK 3 T13: 0.0470 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 1.9372 L22: 1.8146 REMARK 3 L33: 2.8869 L12: 0.0765 REMARK 3 L13: 0.7467 L23: 0.6167 REMARK 3 S TENSOR REMARK 3 S11: -0.0488 S12: 0.0253 S13: 0.1820 REMARK 3 S21: -0.0437 S22: 0.0220 S23: -0.2063 REMARK 3 S31: -0.0898 S32: 0.0711 S33: 0.0386 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 208 THROUGH 247 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.8873 1.1915 25.7821 REMARK 3 T TENSOR REMARK 3 T11: 0.1299 T22: 0.0834 REMARK 3 T33: 0.1165 T12: -0.0015 REMARK 3 T13: 0.0093 T23: -0.0114 REMARK 3 L TENSOR REMARK 3 L11: 0.9787 L22: 0.2038 REMARK 3 L33: 1.5373 L12: -0.2981 REMARK 3 L13: 0.8682 L23: -0.2717 REMARK 3 S TENSOR REMARK 3 S11: -0.0131 S12: 0.0190 S13: 0.0021 REMARK 3 S21: 0.0140 S22: -0.0024 S23: 0.0378 REMARK 3 S31: -0.0555 S32: 0.0371 S33: 0.0024 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 248 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.0393 6.7670 6.9845 REMARK 3 T TENSOR REMARK 3 T11: 0.1370 T22: 0.1574 REMARK 3 T33: 0.0806 T12: 0.0103 REMARK 3 T13: 0.0195 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 5.1009 L22: 1.3194 REMARK 3 L33: 3.1657 L12: 1.0242 REMARK 3 L13: 2.6442 L23: 0.5003 REMARK 3 S TENSOR REMARK 3 S11: -0.0891 S12: 0.3412 S13: 0.1097 REMARK 3 S21: -0.0880 S22: 0.0709 S23: 0.0211 REMARK 3 S31: -0.2478 S32: 0.2505 S33: 0.0708 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 5D2J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212438. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 - 10.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : W01B-MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.459 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51584 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.718 REMARK 200 RESOLUTION RANGE LOW (A) : 40.595 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.3600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.008 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 2EB4 REMARK 200 REMARK 200 REMARK: NEEDLE-SHAPED REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM ACETATE TRIHYDRATE, PEG 4000, REMARK 280 PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 22.27350 REMARK 290 SMTRY3 2 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 GLY A -4 REMARK 465 HIS A -3 REMARK 465 MET A -2 REMARK 465 ALA A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY B -4 REMARK 465 HIS B -3 REMARK 465 MET B -2 REMARK 465 ALA B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 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 TRP A 70 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 70 CZ3 CH2 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 HIS A 105 69.04 -159.20 REMARK 500 ASP A 145 81.39 -160.23 REMARK 500 ASN A 150 25.20 49.14 REMARK 500 THR A 166 -44.29 -155.07 REMARK 500 HIS A 207 126.64 -170.97 REMARK 500 THR B 68 37.80 -93.99 REMARK 500 PRO B 81 -177.46 -68.56 REMARK 500 HIS B 105 66.05 -156.72 REMARK 500 ASP B 145 85.45 -159.83 REMARK 500 ASN B 150 -163.68 -108.78 REMARK 500 ASP B 161 30.63 -89.95 REMARK 500 THR B 166 -40.86 -152.71 REMARK 500 LEU B 205 -7.05 68.76 REMARK 500 HIS B 207 117.59 -164.81 REMARK 500 REMARK 500 REMARK: NULL 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 647 DISTANCE = 7.14 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 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 22 O REMARK 620 2 HOH A 571 O 86.9 REMARK 620 3 HOH A 615 O 105.4 102.0 REMARK 620 4 HOH B 425 O 111.5 93.4 140.6 REMARK 620 5 HOH B 563 O 163.7 77.1 75.6 72.9 REMARK 620 6 HOH B 608 O 106.9 165.3 69.8 86.5 88.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 109 OE1 REMARK 620 2 GLU A 111 OE2 88.1 REMARK 620 3 GLU A 142 OE1 94.9 94.2 REMARK 620 4 0L1 A 303 O2 92.2 174.6 91.2 REMARK 620 5 HOH A 416 O 82.3 95.1 170.1 79.5 REMARK 620 6 HOH A 447 O 168.7 81.5 90.3 97.8 94.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 109 OE1 REMARK 620 2 GLU B 111 OE2 91.6 REMARK 620 3 GLU B 142 OE1 95.3 96.4 REMARK 620 4 ACT B 305 O 86.3 173.0 90.4 REMARK 620 5 HOH B 433 O 79.9 94.2 168.5 78.9 REMARK 620 6 HOH B 450 O 173.8 83.3 88.8 98.3 96.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 0L1 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5D2F RELATED DB: PDB REMARK 900 5D2F CONTAINS THE SAME PROTEIN IN APO FORM REMARK 900 RELATED ID: 5D2G RELATED DB: PDB REMARK 900 RELATED ID: 5D2H RELATED DB: PDB REMARK 900 RELATED ID: 5D2I RELATED DB: PDB REMARK 900 RELATED ID: 5D2K RELATED DB: PDB DBREF 5D2J A 1 264 UNP Q1XGK3 Q1XGK3_PSEPU 1 264 DBREF 5D2J B 1 264 UNP Q1XGK3 Q1XGK3_PSEPU 1 264 SEQADV 5D2J GLY A -4 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J HIS A -3 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J MET A -2 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J ALA A -1 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J SER A 0 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J PRO A 155 UNP Q1XGK3 LEU 155 ENGINEERED MUTATION SEQADV 5D2J GLY B -4 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J HIS B -3 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J MET B -2 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J ALA B -1 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J SER B 0 UNP Q1XGK3 EXPRESSION TAG SEQADV 5D2J PRO B 155 UNP Q1XGK3 LEU 155 ENGINEERED MUTATION SEQRES 1 A 269 GLY HIS MET ALA SER MET ASN ARG THR LEU THR ARG GLU SEQRES 2 A 269 GLN VAL LEU ALA LEU ALA GLU HIS ILE GLU ASN ALA GLU SEQRES 3 A 269 LEU ASN VAL HIS ASP ILE GLY LYS VAL THR ASN ASP PHE SEQRES 4 A 269 PRO GLU MET THR PHE ALA ASP ALA TYR ASP VAL GLN TRP SEQRES 5 A 269 GLU ILE ARG ARG ARG LYS GLU ALA ARG GLY ASN LYS ILE SEQRES 6 A 269 VAL GLY LEU LYS MET GLY LEU THR SER TRP ALA LYS MET SEQRES 7 A 269 ALA GLN MET GLY VAL GLU THR PRO ILE TYR GLY PHE LEU SEQRES 8 A 269 ALA ASP TYR PHE SER VAL PRO ASP GLY GLY VAL VAL ASP SEQRES 9 A 269 CYS SER LYS LEU ILE HIS PRO LYS ILE GLU ALA GLU ILE SEQRES 10 A 269 SER VAL VAL THR LYS ALA PRO LEU HIS GLY PRO GLY CYS SEQRES 11 A 269 HIS LEU GLY ASP VAL ILE ALA ALA ILE ASP TYR VAL ILE SEQRES 12 A 269 PRO THR VAL GLU VAL ILE ASP SER ARG TYR GLU ASN PHE SEQRES 13 A 269 LYS PHE ASP PRO ILE SER VAL VAL ALA ASP ASN ALA SER SEQRES 14 A 269 SER THR ARG PHE ILE THR GLY GLY ARG MET ALA SER LEU SEQRES 15 A 269 GLU GLU VAL ASP LEU ARG THR LEU GLY VAL VAL MET GLU SEQRES 16 A 269 LYS ASN GLY GLU VAL VAL GLU LEU GLY ALA GLY ALA ALA SEQRES 17 A 269 VAL LEU GLY HIS PRO LEU SER SER VAL ALA MET LEU ALA SEQRES 18 A 269 ASN LEU LEU ALA GLU ARG GLY GLU HIS ILE PRO ALA GLY SEQRES 19 A 269 THR PHE ILE MET THR GLY GLY ILE THR ALA ALA VAL PRO SEQRES 20 A 269 VAL ALA PRO GLY ASP ASN ILE THR VAL ARG TYR GLN GLY SEQRES 21 A 269 LEU GLY SER VAL SER ALA ARG PHE ILE SEQRES 1 B 269 GLY HIS MET ALA SER MET ASN ARG THR LEU THR ARG GLU SEQRES 2 B 269 GLN VAL LEU ALA LEU ALA GLU HIS ILE GLU ASN ALA GLU SEQRES 3 B 269 LEU ASN VAL HIS ASP ILE GLY LYS VAL THR ASN ASP PHE SEQRES 4 B 269 PRO GLU MET THR PHE ALA ASP ALA TYR ASP VAL GLN TRP SEQRES 5 B 269 GLU ILE ARG ARG ARG LYS GLU ALA ARG GLY ASN LYS ILE SEQRES 6 B 269 VAL GLY LEU LYS MET GLY LEU THR SER TRP ALA LYS MET SEQRES 7 B 269 ALA GLN MET GLY VAL GLU THR PRO ILE TYR GLY PHE LEU SEQRES 8 B 269 ALA ASP TYR PHE SER VAL PRO ASP GLY GLY VAL VAL ASP SEQRES 9 B 269 CYS SER LYS LEU ILE HIS PRO LYS ILE GLU ALA GLU ILE SEQRES 10 B 269 SER VAL VAL THR LYS ALA PRO LEU HIS GLY PRO GLY CYS SEQRES 11 B 269 HIS LEU GLY ASP VAL ILE ALA ALA ILE ASP TYR VAL ILE SEQRES 12 B 269 PRO THR VAL GLU VAL ILE ASP SER ARG TYR GLU ASN PHE SEQRES 13 B 269 LYS PHE ASP PRO ILE SER VAL VAL ALA ASP ASN ALA SER SEQRES 14 B 269 SER THR ARG PHE ILE THR GLY GLY ARG MET ALA SER LEU SEQRES 15 B 269 GLU GLU VAL ASP LEU ARG THR LEU GLY VAL VAL MET GLU SEQRES 16 B 269 LYS ASN GLY GLU VAL VAL GLU LEU GLY ALA GLY ALA ALA SEQRES 17 B 269 VAL LEU GLY HIS PRO LEU SER SER VAL ALA MET LEU ALA SEQRES 18 B 269 ASN LEU LEU ALA GLU ARG GLY GLU HIS ILE PRO ALA GLY SEQRES 19 B 269 THR PHE ILE MET THR GLY GLY ILE THR ALA ALA VAL PRO SEQRES 20 B 269 VAL ALA PRO GLY ASP ASN ILE THR VAL ARG TYR GLN GLY SEQRES 21 B 269 LEU GLY SER VAL SER ALA ARG PHE ILE HET MG A 301 1 HET MG A 302 1 HET 0L1 A 303 10 HET EDO A 304 4 HET EDO A 305 4 HET MG B 301 1 HET EDO B 302 4 HET EDO B 303 4 HET EDO B 304 4 HET ACT B 305 4 HET ACT B 306 4 HETNAM MG MAGNESIUM ION HETNAM 0L1 HEXANEDIOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETSYN 0L1 ADIPIC ACID HETSYN EDO ETHYLENE GLYCOL FORMUL 3 MG 3(MG 2+) FORMUL 5 0L1 C6 H10 O4 FORMUL 6 EDO 5(C2 H6 O2) FORMUL 12 ACT 2(C2 H3 O2 1-) FORMUL 14 HOH *511(H2 O) HELIX 1 AA1 THR A 6 ASN A 23 1 18 HELIX 2 AA2 LYS A 29 ASP A 33 5 5 HELIX 3 AA3 THR A 38 ARG A 56 1 19 HELIX 4 AA4 SER A 69 MET A 76 1 8 HELIX 5 AA5 SER A 101 LEU A 103 5 3 HELIX 6 AA6 HIS A 126 ILE A 131 1 6 HELIX 7 AA7 TYR A 148 LYS A 152 5 5 HELIX 8 AA8 ASP A 154 ASP A 161 1 8 HELIX 9 AA9 SER A 176 VAL A 180 5 5 HELIX 10 AB1 ALA A 202 VAL A 204 5 3 HELIX 11 AB2 HIS A 207 GLU A 221 1 15 HELIX 12 AB3 THR B 6 ASN B 23 1 18 HELIX 13 AB4 LYS B 29 PHE B 34 1 6 HELIX 14 AB5 THR B 38 ARG B 56 1 19 HELIX 15 AB6 SER B 69 GLY B 77 1 9 HELIX 16 AB7 SER B 101 LEU B 103 5 3 HELIX 17 AB8 HIS B 126 ALA B 132 1 7 HELIX 18 AB9 ASP B 154 ASP B 161 1 8 HELIX 19 AC1 SER B 176 VAL B 180 5 5 HELIX 20 AC2 ALA B 202 VAL B 204 5 3 HELIX 21 AC3 HIS B 207 GLU B 221 1 15 SHEET 1 AA1 7 ILE A 82 ALA A 87 0 SHEET 2 AA1 7 ILE A 60 GLY A 66 -1 N GLY A 66 O ILE A 82 SHEET 3 AA1 7 PHE A 231 MET A 233 1 O MET A 233 N LEU A 63 SHEET 4 AA1 7 LYS A 107 THR A 116 -1 N VAL A 114 O ILE A 232 SHEET 5 AA1 7 ILE A 134 ILE A 144 -1 O THR A 140 N GLU A 111 SHEET 6 AA1 7 SER A 165 THR A 170 -1 O ILE A 169 N VAL A 141 SHEET 7 AA1 7 SER A 91 VAL A 92 1 N VAL A 92 O PHE A 168 SHEET 1 AA2 5 ILE A 82 ALA A 87 0 SHEET 2 AA2 5 ILE A 60 GLY A 66 -1 N GLY A 66 O ILE A 82 SHEET 3 AA2 5 PHE A 231 MET A 233 1 O MET A 233 N LEU A 63 SHEET 4 AA2 5 LYS A 107 THR A 116 -1 N VAL A 114 O ILE A 232 SHEET 5 AA2 5 VAL A 241 PRO A 242 -1 O VAL A 241 N ILE A 108 SHEET 1 AA3 5 GLY A 96 ASP A 99 0 SHEET 2 AA3 5 SER A 258 ILE A 264 1 O ARG A 262 N VAL A 98 SHEET 3 AA3 5 ASN A 248 TYR A 253 -1 N VAL A 251 O VAL A 259 SHEET 4 AA3 5 GLY A 186 LYS A 191 -1 N VAL A 188 O ARG A 252 SHEET 5 AA3 5 GLU A 194 ALA A 200 -1 O GLU A 197 N MET A 189 SHEET 1 AA4 7 ILE B 82 ALA B 87 0 SHEET 2 AA4 7 ILE B 60 GLY B 66 -1 N GLY B 66 O ILE B 82 SHEET 3 AA4 7 PHE B 231 MET B 233 1 O MET B 233 N LEU B 63 SHEET 4 AA4 7 LYS B 107 THR B 116 -1 N VAL B 114 O ILE B 232 SHEET 5 AA4 7 ILE B 134 ILE B 144 -1 O ASP B 135 N VAL B 115 SHEET 6 AA4 7 SER B 165 THR B 170 -1 O ILE B 169 N VAL B 141 SHEET 7 AA4 7 SER B 91 VAL B 92 1 N VAL B 92 O PHE B 168 SHEET 1 AA5 5 ILE B 82 ALA B 87 0 SHEET 2 AA5 5 ILE B 60 GLY B 66 -1 N GLY B 66 O ILE B 82 SHEET 3 AA5 5 PHE B 231 MET B 233 1 O MET B 233 N LEU B 63 SHEET 4 AA5 5 LYS B 107 THR B 116 -1 N VAL B 114 O ILE B 232 SHEET 5 AA5 5 VAL B 241 PRO B 242 -1 O VAL B 241 N ILE B 108 SHEET 1 AA6 5 GLY B 96 ASP B 99 0 SHEET 2 AA6 5 SER B 258 ILE B 264 1 O ARG B 262 N VAL B 98 SHEET 3 AA6 5 ASN B 248 TYR B 253 -1 N VAL B 251 O VAL B 259 SHEET 4 AA6 5 GLY B 186 LYS B 191 -1 N GLU B 190 O THR B 250 SHEET 5 AA6 5 GLU B 194 ALA B 200 -1 O GLU B 197 N MET B 189 LINK O LEU A 22 MG MG A 302 1555 1555 2.48 LINK OE1 GLU A 109 MG MG A 301 1555 1555 2.18 LINK OE2 GLU A 111 MG MG A 301 1555 1555 2.07 LINK OE1 GLU A 142 MG MG A 301 1555 1555 2.10 LINK MG MG A 301 O2 0L1 A 303 1555 1555 2.20 LINK MG MG A 301 O HOH A 416 1555 1555 2.16 LINK MG MG A 301 O HOH A 447 1555 1555 2.18 LINK MG MG A 302 O HOH A 571 1555 1555 2.01 LINK MG MG A 302 O HOH A 615 1555 1555 2.37 LINK MG MG A 302 O HOH B 425 1555 1555 2.40 LINK MG MG A 302 O HOH B 563 1555 1555 2.49 LINK MG MG A 302 O HOH B 608 1555 1555 2.64 LINK OE1 GLU B 109 MG MG B 301 1555 1555 2.04 LINK OE2 GLU B 111 MG MG B 301 1555 1555 2.01 LINK OE1 GLU B 142 MG MG B 301 1555 1555 2.01 LINK MG MG B 301 O ACT B 305 1555 1555 2.21 LINK MG MG B 301 O HOH B 433 1555 1555 2.04 LINK MG MG B 301 O HOH B 450 1555 1555 2.08 CISPEP 1 GLY A 122 PRO A 123 0 -1.11 CISPEP 2 GLY B 122 PRO B 123 0 0.21 SITE 1 AC1 6 GLU A 109 GLU A 111 GLU A 142 0L1 A 303 SITE 2 AC1 6 HOH A 416 HOH A 447 SITE 1 AC2 6 LEU A 22 HOH A 571 HOH A 615 HOH B 425 SITE 2 AC2 6 HOH B 563 HOH B 608 SITE 1 AC3 13 LYS A 64 GLY A 66 LEU A 67 LYS A 72 SITE 2 AC3 13 GLU A 109 GLU A 142 ALA A 163 SER A 164 SITE 3 AC3 13 MG A 301 HOH A 403 HOH A 416 HOH A 430 SITE 4 AC3 13 HOH A 537 SITE 1 AC4 6 TYR A 43 TYR A 83 LEU A 218 GLU A 221 SITE 2 AC4 6 ARG A 222 HOH A 614 SITE 1 AC5 3 ARG A 50 ILE A 60 HOH A 493 SITE 1 AC6 6 GLU B 109 GLU B 111 GLU B 142 ACT B 305 SITE 2 AC6 6 HOH B 433 HOH B 450 SITE 1 AC7 3 ASP B 99 LYS B 102 ARG B 167 SITE 1 AC8 2 ASN B 19 ASN B 23 SITE 1 AC9 5 HIS B 105 ILE B 144 SER B 146 HOH B 459 SITE 2 AC9 5 HOH B 560 SITE 1 AD1 8 LYS B 64 GLY B 66 GLU B 109 GLU B 142 SITE 2 AD1 8 ALA B 163 MG B 301 HOH B 415 HOH B 433 SITE 1 AD2 4 ARG B 3 GLU B 221 ARG B 222 HOH B 413 CRYST1 78.774 44.547 81.253 90.00 118.76 90.00 P 1 21 1 4 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 0.012695 0.000000 0.006968 0.00000 SCALE2 0.000000 0.022448 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014039 0.00000