HEADER HYDROLASE 21-MAR-19 6R3U TITLE ENDO-LEVANASE BT1760 MUTANT E221A FROM BACTEROIDES THETAIOTAOMICRON TITLE 2 COMPLEXED WITH LEVANTETRAOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSIDE HYDROLASE FAMILY 32; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON; SOURCE 3 ORGANISM_TAXID: 818; SOURCE 4 GENE: BT_1760; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PURI3-CTER KEYWDS GLYCOSIDE HYDROLASE 32, 5-FOLD BETA-PROPELLER, BETA-SANDWICH, KEYWDS 2 SUBSTRATE COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.EEK,K.ERNITS,T.LUKK,T.ALAMAE REVDAT 4 24-JAN-24 6R3U 1 HETSYN LINK REVDAT 3 29-JUL-20 6R3U 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 26-JUN-19 6R3U 1 JRNL REVDAT 1 19-JUN-19 6R3U 0 JRNL AUTH K.ERNITS,P.EEK,T.LUKK,T.VISNAPUU,T.ALAMAE JRNL TITL FIRST CRYSTAL STRUCTURE OF AN ENDO-LEVANASE - THE BT1760 JRNL TITL 2 FROM A HUMAN GUT COMMENSAL BACTEROIDES THETAIOTAOMICRON. JRNL REF SCI REP V. 9 8443 2019 JRNL REFN ESSN 2045-2322 JRNL PMID 31186460 JRNL DOI 10.1038/S41598-019-44785-0 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15RC3_3435 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) : 47.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 60564 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.370 REMARK 3 FREE R VALUE TEST SET COUNT : 1438 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 47.2100 - 4.0900 1.00 6165 149 0.1489 0.1788 REMARK 3 2 4.0900 - 3.2500 1.00 5953 146 0.1480 0.1616 REMARK 3 3 3.2500 - 2.8400 1.00 5941 144 0.1677 0.1987 REMARK 3 4 2.8400 - 2.5800 1.00 5906 144 0.1609 0.2018 REMARK 3 5 2.5800 - 2.3900 1.00 5887 143 0.1597 0.1955 REMARK 3 6 2.3900 - 2.2500 1.00 5865 143 0.1628 0.1967 REMARK 3 7 2.2500 - 2.1400 1.00 5871 142 0.1755 0.2141 REMARK 3 8 2.1400 - 2.0500 1.00 5819 142 0.1882 0.2245 REMARK 3 9 2.0500 - 1.9700 1.00 5887 143 0.2203 0.2824 REMARK 3 10 1.9700 - 1.9000 1.00 5817 142 0.2302 0.2462 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) : 0.183 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.216 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.02 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 4199 REMARK 3 ANGLE : 1.033 5705 REMARK 3 CHIRALITY : 0.066 586 REMARK 3 PLANARITY : 0.008 737 REMARK 3 DIHEDRAL : 17.370 1497 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 14:32) REMARK 3 ORIGIN FOR THE GROUP (A): -9.0115 -16.1861 -10.4300 REMARK 3 T TENSOR REMARK 3 T11: 0.3218 T22: 0.3444 REMARK 3 T33: 0.3521 T12: -0.0562 REMARK 3 T13: -0.0239 T23: -0.1830 REMARK 3 L TENSOR REMARK 3 L11: 0.1230 L22: 0.2413 REMARK 3 L33: 0.7595 L12: -0.0358 REMARK 3 L13: -0.1848 L23: -0.1775 REMARK 3 S TENSOR REMARK 3 S11: -0.0144 S12: -0.2889 S13: 0.3684 REMARK 3 S21: 0.2826 S22: -0.0936 S23: -0.0818 REMARK 3 S31: -0.0748 S32: 0.1650 S33: -0.6033 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 33:149) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2675 -28.9862 -31.9466 REMARK 3 T TENSOR REMARK 3 T11: 0.2631 T22: 0.2854 REMARK 3 T33: 0.3445 T12: -0.0046 REMARK 3 T13: 0.0331 T23: 0.0205 REMARK 3 L TENSOR REMARK 3 L11: 1.2423 L22: 0.4464 REMARK 3 L33: 0.4830 L12: 0.2462 REMARK 3 L13: -0.3331 L23: -0.0707 REMARK 3 S TENSOR REMARK 3 S11: 0.0496 S12: -0.1852 S13: 0.1654 REMARK 3 S21: -0.0692 S22: -0.0179 S23: -0.3161 REMARK 3 S31: -0.0816 S32: 0.2416 S33: 0.0041 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 150:229) REMARK 3 ORIGIN FOR THE GROUP (A): -1.0880 -40.5584 -42.6803 REMARK 3 T TENSOR REMARK 3 T11: 0.3087 T22: 0.2359 REMARK 3 T33: 0.2778 T12: 0.0430 REMARK 3 T13: 0.0331 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 0.4633 L22: 0.8923 REMARK 3 L33: 0.3464 L12: -0.2131 REMARK 3 L13: -0.2362 L23: -0.0021 REMARK 3 S TENSOR REMARK 3 S11: 0.1232 S12: 0.1383 S13: -0.0827 REMARK 3 S21: -0.2852 S22: -0.0842 S23: -0.1113 REMARK 3 S31: -0.0355 S32: -0.0139 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 230:326) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3746 -35.0191 -30.0313 REMARK 3 T TENSOR REMARK 3 T11: 0.2480 T22: 0.1919 REMARK 3 T33: 0.2335 T12: 0.0054 REMARK 3 T13: -0.0080 T23: 0.0368 REMARK 3 L TENSOR REMARK 3 L11: 1.4554 L22: 0.7601 REMARK 3 L33: 0.6981 L12: -0.2274 REMARK 3 L13: -0.3537 L23: 0.3415 REMARK 3 S TENSOR REMARK 3 S11: 0.0683 S12: -0.0457 S13: -0.0726 REMARK 3 S21: -0.0340 S22: -0.0064 S23: 0.0667 REMARK 3 S31: -0.0107 S32: 0.0035 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 327:346) REMARK 3 ORIGIN FOR THE GROUP (A): -11.5452 -40.2000 -15.5190 REMARK 3 T TENSOR REMARK 3 T11: 0.2959 T22: 0.4551 REMARK 3 T33: 0.2959 T12: 0.0314 REMARK 3 T13: -0.0007 T23: 0.0603 REMARK 3 L TENSOR REMARK 3 L11: 0.3510 L22: 0.8015 REMARK 3 L33: 0.2376 L12: 0.0932 REMARK 3 L13: -0.1512 L23: 0.2783 REMARK 3 S TENSOR REMARK 3 S11: -0.1347 S12: -0.6230 S13: -0.2843 REMARK 3 S21: 0.0057 S22: 0.1982 S23: -0.0874 REMARK 3 S31: 0.1444 S32: 0.3368 S33: -0.0668 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 347:363) REMARK 3 ORIGIN FOR THE GROUP (A): -25.5396 -21.5338 0.5081 REMARK 3 T TENSOR REMARK 3 T11: 0.4730 T22: 0.8350 REMARK 3 T33: 0.1916 T12: 0.0844 REMARK 3 T13: 0.1011 T23: -0.0986 REMARK 3 L TENSOR REMARK 3 L11: 0.2026 L22: 1.3572 REMARK 3 L33: 1.2039 L12: -0.3159 REMARK 3 L13: 0.4546 L23: -0.3226 REMARK 3 S TENSOR REMARK 3 S11: 0.0192 S12: -0.2531 S13: -0.0504 REMARK 3 S21: 0.3943 S22: 0.1160 S23: 0.2090 REMARK 3 S31: 0.0055 S32: 0.5374 S33: 0.5279 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 364:501) REMARK 3 ORIGIN FOR THE GROUP (A): -23.9559 -25.6095 -12.8192 REMARK 3 T TENSOR REMARK 3 T11: 0.3130 T22: 0.4124 REMARK 3 T33: 0.2336 T12: 0.0117 REMARK 3 T13: 0.0519 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 1.5498 L22: 0.6207 REMARK 3 L33: 0.4565 L12: -0.7570 REMARK 3 L13: -0.2205 L23: 0.2631 REMARK 3 S TENSOR REMARK 3 S11: -0.0536 S12: -0.5562 S13: 0.0502 REMARK 3 S21: 0.1277 S22: 0.1222 S23: 0.1270 REMARK 3 S31: 0.0091 S32: -0.0404 S33: 0.0083 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 502:508) REMARK 3 ORIGIN FOR THE GROUP (A): -3.8557 -21.9616 3.8895 REMARK 3 T TENSOR REMARK 3 T11: 0.7112 T22: 1.0856 REMARK 3 T33: 0.4982 T12: 0.1747 REMARK 3 T13: -0.0131 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.0192 L22: 0.0487 REMARK 3 L33: 0.0042 L12: -0.0066 REMARK 3 L13: 0.0112 L23: 0.0010 REMARK 3 S TENSOR REMARK 3 S11: 0.2299 S12: 0.1821 S13: 0.3568 REMARK 3 S21: -0.1188 S22: -0.4609 S23: 0.3646 REMARK 3 S31: -0.2999 S32: -0.2164 S33: 0.0000 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 6R3U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1292101392. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-18 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 : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI(111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60697 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 47.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6000 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) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : 1.12900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 6R3R REMARK 200 REMARK 200 REMARK: ROD CLUSTERS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16 MG/ML PROTEIN; 12-14% (W/V) PEG REMARK 280 6000, 0.5 MM ZNCL2, 0.1 M MES-NAOH, PH 6.5; 2:1 RATIO, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 282K 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 39.05700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.16700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 87.06750 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.05700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.16700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 87.06750 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.05700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 56.16700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 87.06750 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.05700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 56.16700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 87.06750 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: 2300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 GLU A 3 REMARK 465 THR A 4 REMARK 465 ASP A 5 REMARK 465 PRO A 6 REMARK 465 ILE A 7 REMARK 465 LEU A 8 REMARK 465 THR A 9 REMARK 465 GLN A 10 REMARK 465 LYS A 11 REMARK 465 ASN A 12 REMARK 465 TRP A 13 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 SER A 29 -75.20 -131.33 REMARK 500 ALA A 67 -56.65 78.82 REMARK 500 ASP A 79 -3.68 -149.76 REMARK 500 PHE A 167 89.43 -158.77 REMARK 500 TRP A 216 -125.85 46.73 REMARK 500 MET A 243 -77.25 -103.98 REMARK 500 SER A 278 -154.33 -111.87 REMARK 500 ALA A 318 161.37 78.09 REMARK 500 LYS A 382 -143.71 -101.28 REMARK 500 GLN A 458 -118.29 54.41 REMARK 500 HIS A 504 19.55 -162.03 REMARK 500 HIS A 505 65.72 -104.97 REMARK 500 REMARK 500 REMARK: NULL 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 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 26 NE2 REMARK 620 2 HIS A 384 NE2 100.5 REMARK 620 3 HIS A 503 NE2 110.5 130.2 REMARK 620 4 HIS A 507 NE2 117.6 133.7 13.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 503 ND1 REMARK 620 2 HIS A 505 ND1 133.3 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6R3R RELATED DB: PDB REMARK 900 WILD-TYPE ENZYME WITHOUT SUBSTRATE DBREF 6R3U A 2 502 UNP Q8A6W6 Q8A6W6_BACTN 23 523 SEQADV 6R3U MET A 1 UNP Q8A6W6 INITIATING METHIONINE SEQADV 6R3U ALA A 221 UNP Q8A6W6 GLU 242 ENGINEERED MUTATION SEQADV 6R3U HIS A 503 UNP Q8A6W6 EXPRESSION TAG SEQADV 6R3U HIS A 504 UNP Q8A6W6 EXPRESSION TAG SEQADV 6R3U HIS A 505 UNP Q8A6W6 EXPRESSION TAG SEQADV 6R3U HIS A 506 UNP Q8A6W6 EXPRESSION TAG SEQADV 6R3U HIS A 507 UNP Q8A6W6 EXPRESSION TAG SEQADV 6R3U HIS A 508 UNP Q8A6W6 EXPRESSION TAG SEQRES 1 A 508 MET ASP GLU THR ASP PRO ILE LEU THR GLN LYS ASN TRP SEQRES 2 A 508 ASP GLY THR ALA THR TYR PHE GLN SER SER ASP GLU HIS SEQRES 3 A 508 GLY PHE SER MET TYR TYR LYS PRO GLN VAL GLY PHE VAL SEQRES 4 A 508 GLY ASP PRO MET PRO PHE TYR ASP PRO VAL ALA LYS ASP SEQRES 5 A 508 PHE LYS VAL MET TYR LEU GLN ASP TYR ARG PRO ASN PRO SEQRES 6 A 508 GLU ALA THR TYR HIS PRO ILE PHE GLY VAL ALA THR LYS SEQRES 7 A 508 ASP GLY ALA THR TYR GLU SER LEU GLY GLU LEU ILE SER SEQRES 8 A 508 CYS GLY GLY ARG ASP GLU GLN ASP ALA ALA ILE GLY THR SEQRES 9 A 508 GLY GLY THR ILE TYR ASN PRO ALA ASP LYS LEU TYR TYR SEQRES 10 A 508 THR PHE TYR THR GLY ASN LYS PHE LYS PRO SER SER ASP SEQRES 11 A 508 GLN ASN ALA GLN VAL VAL MET VAL ALA THR SER PRO ASP SEQRES 12 A 508 PHE LYS THR TRP THR LYS ASN ARG THR PHE TYR LEU LYS SEQRES 13 A 508 GLY ASP THR TYR GLY TYR ASP LYS ASN ASP PHE ARG ASP SEQRES 14 A 508 PRO PHE LEU PHE GLN THR GLU ASP GLY VAL TYR HIS MET SEQRES 15 A 508 LEU ILE ALA THR ARG LYS ASN GLY LYS GLY HIS ILE ALA SEQRES 16 A 508 GLU PHE THR SER ALA ASP LEU LYS GLU TRP GLU SER ALA SEQRES 17 A 508 GLY THR PHE MET THR MET MET TRP ASP ARG PHE TYR ALA SEQRES 18 A 508 CYS PRO ASP VAL PHE LYS MET GLY ASP TRP TRP TYR LEU SEQRES 19 A 508 ILE TYR SER GLU GLN ALA SER PHE MET ARG LYS VAL GLN SEQRES 20 A 508 TYR PHE LYS GLY ARG THR LEU GLU ASP LEU LYS ALA THR SEQRES 21 A 508 THR ALA ASN ASP ALA GLY ILE TRP PRO ASP ASN ARG GLU SEQRES 22 A 508 GLY MET LEU ASP SER ARG ALA PHE TYR ALA GLY LYS THR SEQRES 23 A 508 ALA SER ASP GLY THR ASN ARG TYR ILE TRP GLY TRP CYS SEQRES 24 A 508 PRO THR ARG ALA GLY ASN ASP ASN GLY ASN VAL GLY ASP SEQRES 25 A 508 VAL GLU PRO GLU TRP ALA GLY ASN LEU VAL ALA GLN ARG SEQRES 26 A 508 LEU ILE GLN HIS GLU ASP GLY THR LEU THR LEU GLY VAL SEQRES 27 A 508 PRO ASP ALA ILE ASP ARG LYS TYR THR SER ALA GLN GLU SEQRES 28 A 508 VAL LYS VAL MET ALA LYS ASP GLY ASN MET ILE GLU SER SEQRES 29 A 508 GLY LYS THR TYR THR LEU GLY GLU GLY ALA SER VAL ILE SEQRES 30 A 508 PHE ASN ARG LEU LYS VAL HIS ASN LYS ILE SER PHE THR SEQRES 31 A 508 VAL LYS THR ALA SER ASN THR ASP ARG PHE GLY ILE SER SEQRES 32 A 508 PHE VAL ARG GLY THR ASP SER ALA SER TRP TYR SER ILE SEQRES 33 A 508 HIS VAL ASN ALA ASP GLU GLY LYS ALA ASN PHE GLU LYS SEQRES 34 A 508 ASP GLY ASP ASP ALA LYS TYR LEU PHE ASP ASN LYS PHE SEQRES 35 A 508 ASN ILE PRO ALA ASP ASN GLU TYR ARG VAL THR ILE TYR SEQRES 36 A 508 SER ASP GLN SER VAL CYS VAL THR TYR ILE ASN ASP GLN SEQRES 37 A 508 LEU SER PHE THR ASN ARG ILE TYR GLN MET GLN LYS ASN SEQRES 38 A 508 PRO TRP SER LEU CYS CYS TYR LYS GLY GLU ILE THR VAL SEQRES 39 A 508 SER ASP VAL GLN VAL SER THR TYR HIS HIS HIS HIS HIS SEQRES 40 A 508 HIS HET FRU B 1 23 HET FRU B 2 21 HET FRU B 3 21 HET FRU B 4 22 HET ZN A 601 1 HET ZN A 602 1 HET GOL A 603 13 HET GOL A 604 14 HET GOL A 605 14 HETNAM FRU BETA-D-FRUCTOFURANOSE HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETSYN FRU BETA-D-FRUCTOSE; D-FRUCTOSE; FRUCTOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FRU 4(C6 H12 O6) FORMUL 3 ZN 2(ZN 2+) FORMUL 5 GOL 3(C3 H8 O3) FORMUL 8 HOH *326(H2 O) HELIX 1 AA1 LYS A 156 GLY A 161 5 6 HELIX 2 AA2 THR A 253 THR A 260 1 8 HELIX 3 AA3 THR A 261 ALA A 265 5 5 HELIX 4 AA4 ARG A 302 ASP A 306 5 5 HELIX 5 AA5 ALA A 341 LYS A 345 5 5 SHEET 1 AA1 4 PHE A 38 ASP A 47 0 SHEET 2 AA1 4 ASP A 52 ASP A 60 -1 O MET A 56 N MET A 43 SHEET 3 AA1 4 ILE A 72 THR A 77 -1 O VAL A 75 N VAL A 55 SHEET 4 AA1 4 GLU A 84 ILE A 90 -1 O LEU A 86 N GLY A 74 SHEET 1 AA2 4 ALA A 101 ASN A 110 0 SHEET 2 AA2 4 LEU A 115 ASN A 123 -1 O ASN A 123 N ALA A 101 SHEET 3 AA2 4 GLN A 134 SER A 141 -1 O VAL A 135 N GLY A 122 SHEET 4 AA2 4 THR A 148 LYS A 149 -1 O THR A 148 N THR A 140 SHEET 1 AA3 4 PHE A 167 GLN A 174 0 SHEET 2 AA3 4 TYR A 180 ARG A 187 -1 O HIS A 181 N PHE A 173 SHEET 3 AA3 4 GLY A 192 SER A 199 -1 O HIS A 193 N THR A 186 SHEET 4 AA3 4 GLU A 206 THR A 213 -1 O MET A 212 N ILE A 194 SHEET 1 AA4 3 TYR A 220 MET A 228 0 SHEET 2 AA4 3 TRP A 231 GLU A 238 -1 O ILE A 235 N ASP A 224 SHEET 3 AA4 3 VAL A 246 GLY A 251 -1 O GLY A 251 N TRP A 232 SHEET 1 AA5 4 TYR A 282 SER A 288 0 SHEET 2 AA5 4 ARG A 293 PRO A 300 -1 O TRP A 296 N LYS A 285 SHEET 3 AA5 4 GLY A 319 GLN A 328 -1 O LEU A 326 N ARG A 293 SHEET 4 AA5 4 LEU A 334 GLY A 337 -1 O GLY A 337 N ARG A 325 SHEET 1 AA6 4 SER A 348 GLN A 350 0 SHEET 2 AA6 4 GLU A 491 THR A 501 -1 O VAL A 499 N GLN A 350 SHEET 3 AA6 4 THR A 367 GLY A 371 -1 N TYR A 368 O VAL A 494 SHEET 4 AA6 4 MET A 361 SER A 364 -1 N SER A 364 O THR A 367 SHEET 1 AA7 6 SER A 348 GLN A 350 0 SHEET 2 AA7 6 GLU A 491 THR A 501 -1 O VAL A 499 N GLN A 350 SHEET 3 AA7 6 ASN A 385 THR A 393 -1 N SER A 388 O GLN A 498 SHEET 4 AA7 6 GLU A 449 ASP A 457 -1 O TYR A 450 N VAL A 391 SHEET 5 AA7 6 VAL A 460 ILE A 465 -1 O TYR A 464 N THR A 453 SHEET 6 AA7 6 LEU A 469 ARG A 474 -1 O ASN A 473 N CYS A 461 SHEET 1 AA8 7 VAL A 354 ASP A 358 0 SHEET 2 AA8 7 SER A 375 PHE A 378 -1 O ILE A 377 N MET A 355 SHEET 3 AA8 7 TRP A 483 LYS A 489 -1 O TRP A 483 N PHE A 378 SHEET 4 AA8 7 ARG A 399 PHE A 404 -1 N SER A 403 O SER A 484 SHEET 5 AA8 7 SER A 412 ASN A 419 -1 O VAL A 418 N PHE A 400 SHEET 6 AA8 7 LYS A 424 GLY A 431 -1 O ASP A 430 N TRP A 413 SHEET 7 AA8 7 LYS A 435 LYS A 441 -1 O PHE A 438 N PHE A 427 LINK O6 FRU B 1 C2 FRU B 2 1555 1555 1.46 LINK O6 FRU B 2 C2 FRU B 3 1555 1555 1.45 LINK O6 FRU B 3 C2 FRU B 4 1555 1555 1.45 LINK NE2 HIS A 26 ZN ZN A 601 1555 1555 1.90 LINK NE2 HIS A 384 ZN ZN A 601 1555 1555 2.07 LINK NE2 HIS A 503 ZN ZN A 601 1555 1555 1.83 LINK ND1 HIS A 503 ZN ZN A 602 1555 1555 1.79 LINK ND1 HIS A 505 ZN ZN A 602 1555 3555 2.33 LINK NE2 HIS A 507 ZN ZN A 601 1555 3555 2.06 CISPEP 1 ARG A 62 PRO A 63 0 3.04 CRYST1 78.114 112.334 174.135 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 0.012802 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008902 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005743 0.00000