HEADER HYDROLASE 27-FEB-17 5NA6 TITLE STRUCTURE OF CYS-NULL SE-MET DPP III FROM BACTEROIDES THETAIOTAOMICRON COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE DIPEPTIDYL-PEPTIDASE III; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.14.4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON (STRAIN ATCC 29148 SOURCE 3 / DSM 2079 / NCTC 10582 / E50 / VPI-5482); SOURCE 4 ORGANISM_TAXID: 226186; SOURCE 5 GENE: BT_1846; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLAZMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-21B(+) KEYWDS BACTEROIDES THETAIOTAOMICRON, METALLOPEPTIDASE, DIPEPTIDYL PEPTIDASE KEYWDS 2 III, ZINC-HYDROLASE, CYS-NULL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR I.SABLJIC,M.LUIC REVDAT 1 15-NOV-17 5NA6 0 JRNL AUTH I.SABLJIC,N.MESTROVIC,B.VUKELIC,P.MACHEROUX,K.GRUBER,M.LUIC, JRNL AUTH 2 M.ABRAMIC JRNL TITL CRYSTAL STRUCTURE OF DIPEPTIDYL PEPTIDASE III FROM THE HUMAN JRNL TITL 2 GUT SYMBIONT BACTEROIDES THETAIOTAOMICRON. JRNL REF PLOS ONE V. 12 87295 2017 JRNL REFN ESSN 1932-6203 JRNL PMID 29095893 JRNL DOI 10.1371/JOURNAL.PONE.0187295 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.57 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 69078 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.820 REMARK 3 FREE R VALUE TEST SET COUNT : 3331 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.5823 - 5.4784 1.00 2935 150 0.1669 0.1766 REMARK 3 2 5.4784 - 4.3493 1.00 2822 155 0.1434 0.1458 REMARK 3 3 4.3493 - 3.7997 1.00 2770 141 0.1356 0.1322 REMARK 3 4 3.7997 - 3.4524 1.00 2764 160 0.1582 0.1837 REMARK 3 5 3.4524 - 3.2050 1.00 2791 123 0.1711 0.1983 REMARK 3 6 3.2050 - 3.0161 1.00 2767 133 0.1848 0.2213 REMARK 3 7 3.0161 - 2.8651 1.00 2740 150 0.1826 0.2488 REMARK 3 8 2.8651 - 2.7404 1.00 2719 171 0.1840 0.2371 REMARK 3 9 2.7404 - 2.6349 1.00 2730 145 0.1836 0.2164 REMARK 3 10 2.6349 - 2.5440 1.00 2756 137 0.1841 0.2530 REMARK 3 11 2.5440 - 2.4644 1.00 2713 131 0.1866 0.2161 REMARK 3 12 2.4644 - 2.3940 1.00 2766 127 0.1735 0.1912 REMARK 3 13 2.3940 - 2.3310 1.00 2747 121 0.1797 0.2315 REMARK 3 14 2.3310 - 2.2741 1.00 2731 131 0.1846 0.2300 REMARK 3 15 2.2741 - 2.2224 1.00 2730 156 0.1716 0.2054 REMARK 3 16 2.2224 - 2.1751 1.00 2726 109 0.1827 0.2100 REMARK 3 17 2.1751 - 2.1316 1.00 2718 140 0.1846 0.2159 REMARK 3 18 2.1316 - 2.0914 1.00 2725 135 0.1849 0.1936 REMARK 3 19 2.0914 - 2.0540 1.00 2696 148 0.1922 0.2497 REMARK 3 20 2.0540 - 2.0192 1.00 2723 127 0.1978 0.2363 REMARK 3 21 2.0192 - 1.9866 1.00 2687 124 0.2073 0.2880 REMARK 3 22 1.9866 - 1.9561 1.00 2712 158 0.2271 0.2631 REMARK 3 23 1.9561 - 1.9273 1.00 2694 130 0.2394 0.3100 REMARK 3 24 1.9273 - 1.9001 0.95 2585 129 0.2837 0.3365 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.25 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 : 0.008 5333 REMARK 3 ANGLE : 0.869 7230 REMARK 3 CHIRALITY : 0.056 784 REMARK 3 PLANARITY : 0.005 942 REMARK 3 DIHEDRAL : 14.064 3162 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 329 THROUGH 414) REMARK 3 ORIGIN FOR THE GROUP (A): 30.8807 5.6978 9.8952 REMARK 3 T TENSOR REMARK 3 T11: 0.2707 T22: 0.2718 REMARK 3 T33: 0.3208 T12: 0.0035 REMARK 3 T13: -0.0823 T23: -0.0461 REMARK 3 L TENSOR REMARK 3 L11: 0.6545 L22: 0.1118 REMARK 3 L33: 0.9355 L12: 0.1345 REMARK 3 L13: -0.7212 L23: 0.0195 REMARK 3 S TENSOR REMARK 3 S11: -0.1191 S12: 0.0628 S13: 0.2131 REMARK 3 S21: -0.1134 S22: -0.0098 S23: 0.2026 REMARK 3 S31: -0.2138 S32: -0.3466 S33: 0.1290 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 415 THROUGH 623) REMARK 3 ORIGIN FOR THE GROUP (A): 29.9444 9.4783 30.4271 REMARK 3 T TENSOR REMARK 3 T11: 0.1724 T22: 0.2042 REMARK 3 T33: 0.1691 T12: -0.0047 REMARK 3 T13: 0.0148 T23: 0.0106 REMARK 3 L TENSOR REMARK 3 L11: 1.9569 L22: 1.1885 REMARK 3 L33: 1.1543 L12: -0.5201 REMARK 3 L13: 0.0255 L23: 0.1119 REMARK 3 S TENSOR REMARK 3 S11: 0.0771 S12: 0.0520 S13: 0.0426 REMARK 3 S21: -0.0472 S22: -0.0554 S23: 0.0899 REMARK 3 S31: -0.0852 S32: -0.0503 S33: -0.0178 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 24 THROUGH 328 ) REMARK 3 ORIGIN FOR THE GROUP (A): 56.2778 14.2519 3.1776 REMARK 3 T TENSOR REMARK 3 T11: 0.3707 T22: 0.1035 REMARK 3 T33: 0.2389 T12: -0.0955 REMARK 3 T13: -0.0726 T23: 0.0567 REMARK 3 L TENSOR REMARK 3 L11: 1.5232 L22: 1.3029 REMARK 3 L33: 1.0762 L12: 0.9206 REMARK 3 L13: 0.6753 L23: 0.8097 REMARK 3 S TENSOR REMARK 3 S11: -0.3125 S12: 0.0925 S13: 0.3049 REMARK 3 S21: -0.3841 S22: 0.1045 S23: 0.1970 REMARK 3 S31: -0.3052 S32: 0.0189 S33: 0.0641 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 624 THROUGH 675 ) REMARK 3 ORIGIN FOR THE GROUP (A): 58.9482 -0.1518 4.5665 REMARK 3 T TENSOR REMARK 3 T11: 0.2651 T22: 0.1457 REMARK 3 T33: 0.2065 T12: -0.0841 REMARK 3 T13: 0.0068 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 1.5994 L22: 0.7220 REMARK 3 L33: 0.2415 L12: 0.4397 REMARK 3 L13: 0.1639 L23: 0.0904 REMARK 3 S TENSOR REMARK 3 S11: -0.1110 S12: 0.2216 S13: -0.2059 REMARK 3 S21: -0.2255 S22: 0.1046 S23: -0.0807 REMARK 3 S31: -0.0903 S32: 0.1385 S33: 0.0144 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 5NA6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1200003671. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97180 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69127 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.570 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.72400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE, 0.1 M MES PH REMARK 280 6.5, 30% GLYCEROL ETHOXYLATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.07500 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 94.15000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 94.15000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.07500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 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 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 A1159 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 MSE A 1 REMARK 465 ALA A 2 REMARK 465 VAL A 3 REMARK 465 THR A 4 REMARK 465 ALA A 5 REMARK 465 THR A 6 REMARK 465 ILE A 7 REMARK 465 LEU A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 SER A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 ALA A 14 REMARK 465 LYS A 15 REMARK 465 THR A 16 REMARK 465 THR A 17 REMARK 465 THR A 18 REMARK 465 ALA A 19 REMARK 465 GLU A 20 REMARK 465 ALA A 21 REMARK 465 ASP A 22 REMARK 465 LYS A 23 REMARK 465 GLU A 227 REMARK 465 ASP A 228 REMARK 465 GLY A 229 REMARK 465 LYS A 230 REMARK 465 LEU A 676 REMARK 465 GLU A 677 REMARK 465 HIS A 678 REMARK 465 HIS A 679 REMARK 465 HIS A 680 REMARK 465 HIS A 681 REMARK 465 HIS A 682 REMARK 465 HIS A 683 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 LYS A 92 CD CE NZ REMARK 470 GLN A 144 CG CD OE1 NE2 REMARK 470 GLN A 177 CG CD OE1 NE2 REMARK 470 LYS A 208 CG CD CE NZ REMARK 470 LYS A 211 CG CD CE NZ REMARK 470 GLU A 213 CB CG CD OE1 OE2 REMARK 470 LYS A 226 CG CD CE NZ REMARK 470 LYS A 234 CE NZ REMARK 470 LYS A 282 CD CE NZ REMARK 470 LYS A 326 CD CE NZ REMARK 470 ARG A 333 NE CZ NH1 NH2 REMARK 470 LYS A 352 CG CD CE NZ REMARK 470 LYS A 358 CD CE NZ REMARK 470 LYS A 360 CD CE NZ REMARK 470 VAL A 362 CG1 CG2 REMARK 470 SER A 363 OG REMARK 470 LYS A 365 CG CD CE NZ REMARK 470 GLU A 442 CG CD OE1 OE2 REMARK 470 GLU A 571 CD OE1 OE2 REMARK 470 LYS A 606 CG CD CE NZ REMARK 470 LYS A 641 CG CD CE NZ REMARK 470 ASP A 642 CG OD1 OD2 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 28 -67.35 -107.97 REMARK 500 ALA A 32 -129.66 53.44 REMARK 500 VAL A 41 77.51 -116.75 REMARK 500 MSE A 122 -8.85 72.71 REMARK 500 ASP A 182 98.42 -69.89 REMARK 500 THR A 306 -71.96 -111.50 REMARK 500 VAL A 315 -61.06 -106.37 REMARK 500 LYS A 468 -130.38 54.27 REMARK 500 MSE A 517 -58.28 -145.07 REMARK 500 ASN A 653 58.09 -96.67 REMARK 500 ASP A 655 -168.18 -100.05 REMARK 500 ASN A 674 70.77 -119.25 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 A1372 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A1373 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH A1374 DISTANCE = 6.86 ANGSTROMS REMARK 525 HOH A1375 DISTANCE = 6.87 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PE3 A 708 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 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 448 NE2 REMARK 620 2 HIS A 453 NE2 95.1 REMARK 620 3 GLU A 476 OE1 93.6 96.4 REMARK 620 4 TRS A 707 N 170.8 91.7 91.8 REMARK 620 5 TRS A 707 N 168.4 95.4 90.3 3.9 REMARK 620 6 TRS A 707 O1 95.5 169.3 84.5 77.6 73.9 REMARK 620 7 TRS A 707 O2 99.7 94.4 162.0 73.5 74.4 82.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 706 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1072 O REMARK 620 2 HOH A1077 O 101.7 REMARK 620 3 HOH A 994 O 84.7 88.2 REMARK 620 4 HOH A1151 O 83.4 167.6 103.6 REMARK 620 5 HOH A1133 O 101.9 85.6 171.7 82.3 REMARK 620 6 HOH A1100 O 164.8 88.3 84.1 89.2 90.2 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 ZN A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 707 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PE3 A 708 DBREF 5NA6 A 1 675 UNP Q8A6N1 Q8A6N1_BACTN 1 675 SEQADV 5NA6 SER A 11 UNP Q8A6N1 CYS 11 ENGINEERED MUTATION SEQADV 5NA6 SER A 158 UNP Q8A6N1 CYS 158 ENGINEERED MUTATION SEQADV 5NA6 SER A 189 UNP Q8A6N1 CYS 189 ENGINEERED MUTATION SEQADV 5NA6 SER A 425 UNP Q8A6N1 CYS 425 ENGINEERED MUTATION SEQADV 5NA6 SER A 450 UNP Q8A6N1 CYS 450 ENGINEERED MUTATION SEQADV 5NA6 LEU A 676 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 GLU A 677 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 678 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 679 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 680 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 681 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 682 UNP Q8A6N1 EXPRESSION TAG SEQADV 5NA6 HIS A 683 UNP Q8A6N1 EXPRESSION TAG SEQRES 1 A 683 MSE ALA VAL THR ALA THR ILE LEU ALA SER SER GLY GLY SEQRES 2 A 683 ALA LYS THR THR THR ALA GLU ALA ASP LYS PHE ASP TYR SEQRES 3 A 683 THR VAL GLU GLN PHE ALA ASP LEU GLN ILE LEU ARG TYR SEQRES 4 A 683 LYS VAL PRO GLU PHE GLU THR LEU THR LEU LYS GLN LYS SEQRES 5 A 683 GLU LEU VAL TYR TYR LEU THR GLN ALA ALA LEU GLU GLY SEQRES 6 A 683 ARG ASP ILE LEU PHE ASP GLN ASN GLY LYS TYR ASN LEU SEQRES 7 A 683 ARG ILE ARG ARG MSE LEU GLU ALA VAL TYR THR ASN TYR SEQRES 8 A 683 LYS GLY ASP LYS SER ALA PRO ASP PHE LYS ASN MSE GLU SEQRES 9 A 683 VAL TYR LEU LYS ARG VAL TRP PHE SER ASN GLY ILE HIS SEQRES 10 A 683 HIS HIS TYR GLY MSE GLU LYS PHE VAL PRO GLY PHE SER SEQRES 11 A 683 GLN ASP PHE LEU LYS GLN ALA VAL LEU GLY THR ASP ALA SEQRES 12 A 683 GLN LEU LEU PRO LEU SER GLU GLY GLN THR ALA GLU GLN SEQRES 13 A 683 LEU SER ASP GLU LEU PHE PRO VAL MSE PHE ASP PRO ALA SEQRES 14 A 683 ILE LEU ALA LYS ARG VAL ASN GLN ALA ASP GLY GLU ASP SEQRES 15 A 683 LEU VAL LEU THR SER ALA SER ASN TYR TYR ASP GLY VAL SEQRES 16 A 683 THR GLN GLN GLU ALA GLU SER PHE TYR GLY ALA MSE LYS SEQRES 17 A 683 ASP PRO LYS ASP GLU THR PRO VAL SER TYR GLY LEU ASN SEQRES 18 A 683 SER ARG LEU VAL LYS GLU ASP GLY LYS ILE GLN GLU LYS SEQRES 19 A 683 VAL TRP LYS VAL GLY GLY LEU TYR THR GLN ALA ILE GLU SEQRES 20 A 683 LYS ILE VAL TYR TRP LEU LYS LYS ALA GLU THR VAL ALA SEQRES 21 A 683 GLU ASN ASP ALA GLN LYS ALA VAL ILE SER LYS LEU ILE SEQRES 22 A 683 GLN PHE TYR GLU THR GLY SER LEU LYS ASP PHE ASP GLU SEQRES 23 A 683 TYR ALA ILE LEU TRP VAL LYS ASP LEU ASP SER ARG ILE SEQRES 24 A 683 ASP PHE VAL ASN GLY PHE THR GLU SER TYR GLY ASP PRO SEQRES 25 A 683 LEU GLY VAL LYS ALA SER TRP GLU SER LEU VAL ASN PHE SEQRES 26 A 683 LYS ASP LEU ASP ALA THR HIS ARG THR GLU ILE ILE SER SEQRES 27 A 683 SER ASN ALA GLN TRP PHE GLU ASP HIS SER PRO VAL ASP SEQRES 28 A 683 LYS SER PHE LYS LYS GLU LYS VAL LYS GLY VAL SER ALA SEQRES 29 A 683 LYS VAL ILE THR ALA ALA ILE LEU ALA GLY ASP LEU TYR SEQRES 30 A 683 PRO ALA THR ALA ILE GLY ILE ASN LEU PRO ASN ALA ASN SEQRES 31 A 683 TRP ILE ARG ALA HIS HIS GLY SER LYS SER VAL THR ILE SEQRES 32 A 683 GLY ASN ILE THR ASP ALA TYR ASN LYS ALA ALA HIS GLY SEQRES 33 A 683 ASN GLY PHE ASN GLU GLU PHE VAL SER ASN ASP GLU GLU SEQRES 34 A 683 ARG GLN ARG ILE ASP GLN TYR GLY ASP LEU THR GLY GLU SEQRES 35 A 683 LEU HIS THR ASP LEU HIS GLU SER LEU GLY HIS GLY SER SEQRES 36 A 683 GLY LYS LEU LEU PRO GLY VAL ASP PRO ASP ALA LEU LYS SEQRES 37 A 683 ALA TYR GLY SER THR ILE GLU GLU ALA ARG ALA ASP LEU SEQRES 38 A 683 PHE GLY LEU TYR TYR VAL ALA ASP PRO LYS LEU VAL GLU SEQRES 39 A 683 LEU LYS LEU VAL PRO ASP ALA GLU ALA TYR LYS ALA GLU SEQRES 40 A 683 TYR TYR THR PHE LEU MSE ASN GLY LEU MSE THR GLN LEU SEQRES 41 A 683 VAL ARG ILE GLU PRO GLY ASN ASN ILE GLU GLU ALA HIS SEQRES 42 A 683 MSE ARG ASN ARG GLN LEU ILE ALA ARG TRP VAL PHE GLU SEQRES 43 A 683 LYS GLY ALA PRO ASP LYS VAL VAL GLU MSE VAL LYS LYS SEQRES 44 A 683 ASP GLY LYS THR TYR VAL VAL VAL ASN ASP TYR GLU LYS SEQRES 45 A 683 VAL ARG GLN LEU PHE GLY GLU LEU LEU ALA GLU ILE GLN SEQRES 46 A 683 ARG ILE LYS SER THR GLY ASP PHE GLU GLY ALA ARG THR SEQRES 47 A 683 LEU VAL GLU ASN TYR ALA VAL LYS VAL ASP PRO ALA LEU SEQRES 48 A 683 HIS ALA GLU VAL LEU ALA ARG TYR LYS LYS LEU ASN LEU SEQRES 49 A 683 ALA PRO TYR LYS GLY PHE ILE ASN PRO VAL TYR GLU LEU SEQRES 50 A 683 VAL THR ASP LYS ASP GLY ASN ILE THR ASP VAL THR VAL SEQRES 51 A 683 SER TYR ASN GLU ASP TYR VAL GLU GLN MSE LEU ARG TYR SEQRES 52 A 683 SER LYS ASP TYR SER PRO LEU PRO SER VAL ASN ASN LEU SEQRES 53 A 683 GLU HIS HIS HIS HIS HIS HIS MODRES 5NA6 MSE A 83 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 103 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 122 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 165 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 207 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 513 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 517 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 534 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 556 MET MODIFIED RESIDUE MODRES 5NA6 MSE A 660 MET MODIFIED RESIDUE HET MSE A 83 8 HET MSE A 103 8 HET MSE A 122 8 HET MSE A 165 8 HET MSE A 207 8 HET MSE A 513 8 HET MSE A 517 8 HET MSE A 534 8 HET MSE A 556 8 HET MSE A 660 8 HET ZN A 701 1 HET ACT A 702 4 HET ACT A 703 4 HET ACT A 704 4 HET ACT A 705 4 HET NA A 706 1 HET TRS A 707 16 HET PE3 A 708 35 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM ACT ACETATE ION HETNAM NA SODIUM ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM PE3 3,6,9,12,15,18,21,24,27,30,33,36,39- HETNAM 2 PE3 TRIDECAOXAHENTETRACONTANE-1,41-DIOL HETSYN TRS TRIS BUFFER HETSYN PE3 POLYETHYLENE GLYCOL FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 ACT 4(C2 H3 O2 1-) FORMUL 7 NA NA 1+ FORMUL 8 TRS C4 H12 N O3 1+ FORMUL 9 PE3 C28 H58 O15 FORMUL 10 HOH *575(H2 O) HELIX 1 AA1 GLU A 43 LEU A 47 5 5 HELIX 2 AA2 THR A 48 GLU A 64 1 17 HELIX 3 AA3 GLY A 65 ASN A 73 1 9 HELIX 4 AA4 TYR A 76 TYR A 91 1 16 HELIX 5 AA5 ALA A 97 ASN A 114 1 18 HELIX 6 AA6 SER A 130 GLY A 140 1 11 HELIX 7 AA7 ASP A 142 LEU A 146 5 5 HELIX 8 AA8 THR A 153 ASP A 167 1 15 HELIX 9 AA9 THR A 196 LYS A 208 1 13 HELIX 10 AB1 TYR A 242 VAL A 259 1 18 HELIX 11 AB2 ASN A 262 GLY A 279 1 18 HELIX 12 AB3 SER A 280 ASP A 294 1 15 HELIX 13 AB4 ASP A 327 ASN A 340 1 14 HELIX 14 AB5 ASN A 340 SER A 348 1 9 HELIX 15 AB6 ASP A 351 LYS A 355 5 5 HELIX 16 AB7 ALA A 389 HIS A 396 1 8 HELIX 17 AB8 GLY A 404 HIS A 415 1 12 HELIX 18 AB9 GLY A 418 VAL A 424 1 7 HELIX 19 AC1 ASN A 426 LEU A 451 1 26 HELIX 20 AC2 LEU A 467 ALA A 469 5 3 HELIX 21 AC3 TYR A 470 ALA A 488 1 19 HELIX 22 AC4 PRO A 490 LEU A 495 1 6 HELIX 23 AC5 ALA A 503 MSE A 517 1 15 HELIX 24 AC6 THR A 518 ILE A 523 5 6 HELIX 25 AC7 GLU A 531 ALA A 549 1 19 HELIX 26 AC8 PRO A 550 LYS A 552 5 3 HELIX 27 AC9 ASP A 569 GLY A 591 1 23 HELIX 28 AD1 ASP A 592 ALA A 604 1 13 HELIX 29 AD2 ASP A 608 LYS A 621 1 14 HELIX 30 AD3 ASP A 655 TYR A 667 1 13 SHEET 1 AA1 3 THR A 27 PHE A 31 0 SHEET 2 AA1 3 LEU A 34 ARG A 38 -1 O ILE A 36 N GLU A 29 SHEET 3 AA1 3 TYR A 627 ILE A 631 1 O GLY A 629 N LEU A 37 SHEET 1 AA2 3 TYR A 192 ASP A 193 0 SHEET 2 AA2 3 SER A 222 VAL A 225 1 O LEU A 224 N ASP A 193 SHEET 3 AA2 3 GLN A 232 VAL A 235 -1 O LYS A 234 N ARG A 223 SHEET 1 AA3 5 ILE A 299 PHE A 305 0 SHEET 2 AA3 5 TRP A 319 LYS A 326 -1 O ASN A 324 N ASP A 300 SHEET 3 AA3 5 LYS A 365 GLY A 374 -1 O ALA A 370 N VAL A 323 SHEET 4 AA3 5 LYS A 399 ILE A 403 1 O THR A 402 N ILE A 367 SHEET 5 AA3 5 GLY A 383 LEU A 386 -1 N LEU A 386 O LYS A 399 SHEET 1 AA4 2 VAL A 554 LYS A 559 0 SHEET 2 AA4 2 LYS A 562 VAL A 567 -1 O VAL A 566 N GLU A 555 SHEET 1 AA5 2 VAL A 634 THR A 639 0 SHEET 2 AA5 2 ILE A 645 SER A 651 -1 O THR A 646 N VAL A 638 LINK C ARG A 82 N MSE A 83 1555 1555 1.33 LINK C MSE A 83 N LEU A 84 1555 1555 1.33 LINK C ASN A 102 N MSE A 103 1555 1555 1.32 LINK C MSE A 103 N GLU A 104 1555 1555 1.33 LINK C GLY A 121 N MSE A 122 1555 1555 1.34 LINK C MSE A 122 N GLU A 123 1555 1555 1.33 LINK C VAL A 164 N MSE A 165 1555 1555 1.33 LINK C MSE A 165 N PHE A 166 1555 1555 1.33 LINK C ALA A 206 N MSE A 207 1555 1555 1.33 LINK C MSE A 207 N LYS A 208 1555 1555 1.33 LINK NE2 HIS A 448 ZN ZN A 701 1555 1555 2.09 LINK NE2 HIS A 453 ZN ZN A 701 1555 1555 2.07 LINK OE1 GLU A 476 ZN ZN A 701 1555 1555 2.18 LINK C LEU A 512 N MSE A 513 1555 1555 1.33 LINK C MSE A 513 N ASN A 514 1555 1555 1.33 LINK C LEU A 516 N MSE A 517 1555 1555 1.33 LINK C MSE A 517 N THR A 518 1555 1555 1.34 LINK C HIS A 533 N MSE A 534 1555 1555 1.34 LINK C MSE A 534 N ARG A 535 1555 1555 1.33 LINK C GLU A 555 N MSE A 556 1555 1555 1.33 LINK C MSE A 556 N VAL A 557 1555 1555 1.33 LINK C GLN A 659 N MSE A 660 1555 1555 1.32 LINK C MSE A 660 N LEU A 661 1555 1555 1.34 LINK ZN ZN A 701 N ATRS A 707 1555 1555 2.15 LINK ZN ZN A 701 N BTRS A 707 1555 1555 2.24 LINK ZN ZN A 701 O1 BTRS A 707 1555 1555 2.12 LINK ZN ZN A 701 O2 BTRS A 707 1555 1555 2.40 LINK NA NA A 706 O HOH A1072 1555 1555 2.66 LINK NA NA A 706 O HOH A1077 1555 1555 2.45 LINK NA NA A 706 O HOH A 994 1555 1555 2.43 LINK NA NA A 706 O HOH A1151 1555 1555 2.47 LINK NA NA A 706 O HOH A1133 1555 1555 2.36 LINK NA NA A 706 O HOH A1100 1555 5555 2.38 CISPEP 1 TYR A 377 PRO A 378 0 -6.83 CISPEP 2 LEU A 386 PRO A 387 0 -1.84 SITE 1 AC1 4 HIS A 448 HIS A 453 GLU A 476 TRS A 707 SITE 1 AC2 4 LYS A 356 GLU A 357 LYS A 358 LYS A 457 SITE 1 AC3 4 LEU A 49 TYR A 76 HOH A 810 HOH A1089 SITE 1 AC4 6 ARG A 432 LYS A 505 LYS A 552 TYR A 570 SITE 2 AC4 6 HOH A1072 HOH A1083 SITE 1 AC5 5 TRP A 291 ASP A 300 PHE A 301 ASN A 324 SITE 2 AC5 5 HOH A 817 SITE 1 AC6 6 HOH A 994 HOH A1072 HOH A1077 HOH A1100 SITE 2 AC6 6 HOH A1133 HOH A1151 SITE 1 AC7 8 HIS A 448 GLU A 449 HIS A 453 GLU A 476 SITE 2 AC7 8 HIS A 533 ZN A 701 HOH A 903 HOH A1004 SITE 1 AC8 9 TYR A 410 ASN A 411 ALA A 414 ARG A 522 SITE 2 AC8 9 TYR A 619 ALA A 625 PRO A 626 LYS A 628 SITE 3 AC8 9 HOH A 925 CRYST1 103.442 103.442 141.225 90.00 90.00 120.00 P 31 2 1 6 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 0.009667 0.005581 0.000000 0.00000 SCALE2 0.000000 0.011163 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007081 0.00000