HEADER HYDROLASE 02-MAR-16 5FXM TITLE STRUCTURE OF FAE SOLVED BY SAD FROM DATA COLLECTED BY DIRECT DATA TITLE 2 COLLECTION (DDC) USING THE ESRF ROBODIFF GONIOMETER COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-XYLANASE Y; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 792-1077; COMPND 5 SYNONYM: XYLANASE Y, 1,4-BETA-D-XYLAN XYLANOHYDROLASE Y, XYLY, COMPND 6 FERULIC ACID ESTERASE; COMPND 7 EC: 3.1.1.73; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINICLOSTRIDIUM THERMOCELLUM; SOURCE 3 ORGANISM_TAXID: 1515; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.W.BOWLER,D.NURIZZO REVDAT 4 20-NOV-24 5FXM 1 REMARK LINK REVDAT 3 23-AUG-17 5FXM 1 REMARK REVDAT 2 17-AUG-16 5FXM 1 JRNL REVDAT 1 16-MAR-16 5FXM 0 JRNL AUTH D.NURIZZO,M.W.BOWLER,H.CASEROTTO,F.DOBIAS,T.GIRAUD,J.SURR, JRNL AUTH 2 N.GUICHARD,G.PAPP,M.GUIJARRO,C.MUELLER-DIECKMANN,D.FLOT, JRNL AUTH 3 S.MCSWEENEY,F.CIPRIANI,P.THEVENEAU,G.A.LEONARD JRNL TITL ROBODIFF: COMBINING A SAMPLE CHANGER AND GONIOMETER FOR JRNL TITL 2 HIGHLY AUTOMATED MACROMOLECULAR CRYSTALLOGRAPHY EXPERIMENTS. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 72 966 2016 JRNL REFN ISSN 0907-4449 JRNL PMID 27487827 JRNL DOI 10.1107/S205979831601158X REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 79.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 27216 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1531 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1807 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.05 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2290 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.05000 REMARK 3 B22 (A**2) : 1.05000 REMARK 3 B33 (A**2) : -2.10000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.862 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2401 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2127 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3264 ; 1.723 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4897 ; 1.661 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 282 ; 5.894 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;37.131 ;23.906 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 334 ;14.008 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;18.375 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 322 ; 0.174 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2781 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 634 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1131 ; 1.454 ; 2.513 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1130 ; 1.452 ; 2.512 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1412 ; 2.203 ; 3.761 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1270 ; 1.903 ; 2.759 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 803 A 3090 REMARK 3 ORIGIN FOR THE GROUP (A): 8.0821 24.0285 17.6578 REMARK 3 T TENSOR REMARK 3 T11: 0.0490 T22: 0.0304 REMARK 3 T33: 0.0375 T12: -0.0054 REMARK 3 T13: -0.0340 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 1.5025 L22: 1.3456 REMARK 3 L33: 2.4613 L12: -0.5212 REMARK 3 L13: 0.1432 L23: -0.4440 REMARK 3 S TENSOR REMARK 3 S11: 0.0513 S12: 0.0023 S13: 0.0411 REMARK 3 S21: -0.0152 S22: -0.0781 S23: -0.0230 REMARK 3 S31: 0.1155 S32: 0.1121 S33: 0.0268 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 5FXM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1290066322. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JAN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : C110 REMARK 200 OPTICS : BE CRL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32088 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 49.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 24.50 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.8 REMARK 200 DATA REDUNDANCY IN SHELL : 22.40 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXDE REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 33.01550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.98700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.98700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 16.50775 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.98700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.98700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.52325 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.98700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.98700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 16.50775 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.98700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.98700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 49.52325 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 33.01550 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.4 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MSE A 789 REMARK 465 ALA A 790 REMARK 465 SER A 791 REMARK 465 ASP A 792 REMARK 465 LYS A 793 REMARK 465 PHE A 794 REMARK 465 PRO A 795 REMARK 465 VAL A 796 REMARK 465 ALA A 797 REMARK 465 GLU A 798 REMARK 465 ASN A 799 REMARK 465 PRO A 800 REMARK 465 SER A 801 REMARK 465 SER A 802 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2032 O HOH A 2032 7556 1.96 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 VAL A 965 CG1 - CB - CG2 ANGL. DEV. = 10.4 DEGREES REMARK 500 ASP A 980 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ILE A1019 CG1 - CB - CG2 ANGL. DEV. = 16.1 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 TYR A 851 120.81 -34.58 REMARK 500 VAL A 878 -50.28 -128.48 REMARK 500 SEP A 954 -113.04 57.51 REMARK 500 ASN A1047 17.57 -149.90 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 CD A3086 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 823 SG REMARK 620 2 HIS A 886 ND1 99.0 REMARK 620 3 MSE A 889 SE 78.3 172.7 REMARK 620 4 GLU A1017 OE1 108.3 86.8 100.5 REMARK 620 5 GLU A1017 OE2 155.0 95.4 89.5 52.1 REMARK 620 6 HOH A2027 O 129.2 92.6 84.1 121.7 70.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A3087 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 894 OE2 REMARK 620 2 GLU A 894 OE1 49.5 REMARK 620 3 HIS A1076 ND1 91.7 89.9 REMARK 620 4 GLU A1079 OE1 131.9 83.3 98.0 REMARK 620 5 GLU A1079 OE2 166.0 135.7 100.9 52.8 REMARK 620 6 HIS A1083 ND1 84.6 86.6 176.1 83.5 82.9 REMARK 620 7 HIS A1085 NE2 91.1 140.4 86.3 136.3 83.6 95.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A3089 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 947 NE2 REMARK 620 2 HIS A1080 NE2 92.0 REMARK 620 3 HOH A2035 O 100.5 122.8 REMARK 620 4 HOH A2036 O 108.8 157.4 63.1 REMARK 620 5 HOH A2038 O 87.8 100.4 135.3 72.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A3088 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1007 OE1 REMARK 620 2 GLU A1007 OE2 54.3 REMARK 620 3 HIS A1082 NE2 140.0 86.0 REMARK 620 4 HIS A1084 NE2 95.1 115.7 108.8 REMARK 620 5 HOH A2049 O 89.2 91.8 86.4 148.8 REMARK 620 6 HOH A2050 O 94.2 136.1 114.6 94.6 54.2 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 CD A 3086 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 3087 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 3088 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 3089 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 3090 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FXL RELATED DB: PDB REMARK 900 STRUCTURE OF TRYPSIN SOLVED BY MR FROM DATA COLLECTED BY DIRECT REMARK 900 DATA COLLECTION (DDC) USING THE ESRF ROBODIFF GONIOMETER REMARK 900 RELATED ID: 5FXN RELATED DB: PDB REMARK 900 STRUCTURE OF THERMOLYSIN SOLVED BY SAD FROM DATA COLLECTED BY REMARK 900 DIRECT DATA COLLECTION (DDC) USING THE ESRF ROBODIFF GONIOMETER DBREF 5FXM A 792 1077 UNP P51584 XYNY_CLOTM 792 1077 SEQADV 5FXM MSE A 789 UNP P51584 EXPRESSION TAG SEQADV 5FXM ALA A 790 UNP P51584 EXPRESSION TAG SEQADV 5FXM SER A 791 UNP P51584 EXPRESSION TAG SEQADV 5FXM LEU A 1078 UNP P51584 EXPRESSION TAG SEQADV 5FXM GLU A 1079 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1080 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1081 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1082 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1083 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1084 UNP P51584 EXPRESSION TAG SEQADV 5FXM HIS A 1085 UNP P51584 EXPRESSION TAG SEQADV 5FXM GLU A 1017 UNP P51584 ASP 1017 CONFLICT SEQADV 5FXM ASP A 1018 UNP P51584 HIS 1018 CONFLICT SEQRES 1 A 297 MSE ALA SER ASP LYS PHE PRO VAL ALA GLU ASN PRO SER SEQRES 2 A 297 SER SER PHE LYS TYR GLU SER ALA VAL GLN TYR ARG PRO SEQRES 3 A 297 ALA PRO ASP SER TYR LEU ASN PRO CYS PRO GLN ALA GLY SEQRES 4 A 297 ARG ILE VAL LYS GLU THR TYR THR GLY ILE ASN GLY THR SEQRES 5 A 297 LYS SER LEU ASN VAL TYR LEU PRO TYR GLY TYR ASP PRO SEQRES 6 A 297 ASN LYS LYS TYR ASN ILE PHE TYR LEU MSE HIS GLY GLY SEQRES 7 A 297 GLY GLU ASN GLU ASN THR ILE PHE SER ASN ASP VAL LYS SEQRES 8 A 297 LEU GLN ASN ILE LEU ASP HIS ALA ILE MSE ASN GLY GLU SEQRES 9 A 297 LEU GLU PRO LEU ILE VAL VAL THR PRO THR PHE ASN GLY SEQRES 10 A 297 GLY ASN CYS THR ALA GLN ASN PHE TYR GLN GLU PHE ARG SEQRES 11 A 297 GLN ASN VAL ILE PRO PHE VAL GLU SER LYS TYR SER THR SEQRES 12 A 297 TYR ALA GLU SER THR THR PRO GLN GLY ILE ALA ALA SER SEQRES 13 A 297 ARG MSE HIS ARG GLY PHE GLY GLY PHE SEP MSE GLY GLY SEQRES 14 A 297 LEU THR THR TRP TYR VAL MSE VAL ASN CYS LEU ASP TYR SEQRES 15 A 297 VAL ALA TYR PHE MSE PRO LEU SER GLY ASP TYR TRP TYR SEQRES 16 A 297 GLY ASN SER PRO GLN ASP LYS ALA ASN SER ILE ALA GLU SEQRES 17 A 297 ALA ILE ASN ARG SER GLY LEU SER LYS ARG GLU TYR PHE SEQRES 18 A 297 VAL PHE ALA ALA THR GLY SER GLU ASP ILE ALA TYR ALA SEQRES 19 A 297 ASN MSE ASN PRO GLN ILE GLU ALA MSE LYS ALA LEU PRO SEQRES 20 A 297 HIS PHE ASP TYR THR SER ASP PHE SER LYS GLY ASN PHE SEQRES 21 A 297 TYR PHE LEU VAL ALA PRO GLY ALA THR HIS TRP TRP GLY SEQRES 22 A 297 TYR VAL ARG HIS TYR ILE TYR ASP ALA LEU PRO TYR PHE SEQRES 23 A 297 PHE HIS GLU LEU GLU HIS HIS HIS HIS HIS HIS MODRES 5FXM MSE A 863 MET SELENOMETHIONINE MODRES 5FXM MSE A 889 MET SELENOMETHIONINE MODRES 5FXM MSE A 946 MET SELENOMETHIONINE MODRES 5FXM SEP A 954 SER PHOSPHOSERINE MODRES 5FXM MSE A 955 MET SELENOMETHIONINE MODRES 5FXM MSE A 964 MET SELENOMETHIONINE MODRES 5FXM MSE A 975 MET SELENOMETHIONINE MODRES 5FXM MSE A 1024 MET SELENOMETHIONINE MODRES 5FXM MSE A 1031 MET SELENOMETHIONINE HET MSE A 863 8 HET MSE A 889 8 HET MSE A 946 8 HET SEP A 954 10 HET MSE A 955 11 HET MSE A 964 8 HET MSE A 975 8 HET MSE A1024 8 HET MSE A1031 8 HET CD A3086 1 HET CD A3087 1 HET CD A3088 1 HET CD A3089 1 HET CD A3090 1 HETNAM MSE SELENOMETHIONINE HETNAM SEP PHOSPHOSERINE HETNAM CD CADMIUM ION HETSYN SEP PHOSPHONOSERINE FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 CD 5(CD 2+) FORMUL 7 HOH *50(H2 O) HELIX 1 1 PRO A 816 ASN A 821 5 6 HELIX 2 2 LYS A 879 ASN A 890 1 12 HELIX 3 3 ASN A 912 ASN A 920 1 9 HELIX 4 4 ASN A 920 TYR A 929 1 10 HELIX 5 5 THR A 937 SER A 944 1 8 HELIX 6 6 SEP A 954 LEU A 968 1 15 HELIX 7 7 SER A 986 GLY A 1002 1 17 HELIX 8 8 ALA A 1020 LEU A 1034 1 15 HELIX 9 9 TRP A 1059 LEU A 1071 1 13 HELIX 10 10 PRO A 1072 PHE A 1074 5 3 SHEET 1 AA 8 ARG A 828 GLY A 836 0 SHEET 2 AA 8 GLY A 839 LEU A 847 -1 O GLY A 839 N GLY A 836 SHEET 3 AA 8 ILE A 897 THR A 900 -1 O VAL A 898 N TYR A 846 SHEET 4 AA 8 ILE A 859 MSE A 863 1 O PHE A 860 N VAL A 899 SHEET 5 AA 8 ARG A 948 PHE A 953 1 O GLY A 949 N TYR A 861 SHEET 6 AA 8 TYR A 973 LEU A 977 1 O TYR A 973 N PHE A 950 SHEET 7 AA 8 PHE A1009 GLY A1015 1 O PHE A1009 N PHE A 974 SHEET 8 AA 8 PHE A1048 ALA A1053 1 O TYR A1049 N ALA A1012 LINK C LEU A 862 N MSE A 863 1555 1555 1.34 LINK C MSE A 863 N HIS A 864 1555 1555 1.35 LINK C ILE A 888 N MSE A 889 1555 1555 1.31 LINK C MSE A 889 N ASN A 890 1555 1555 1.33 LINK C ARG A 945 N MSE A 946 1555 1555 1.35 LINK C MSE A 946 N HIS A 947 1555 1555 1.33 LINK C PHE A 953 N SEP A 954 1555 1555 1.32 LINK C SEP A 954 N MSE A 955 1555 1555 1.33 LINK C MSE A 955 N GLY A 956 1555 1555 1.33 LINK C VAL A 963 N MSE A 964 1555 1555 1.32 LINK C MSE A 964 N VAL A 965 1555 1555 1.32 LINK C PHE A 974 N MSE A 975 1555 1555 1.33 LINK C MSE A 975 N PRO A 976 1555 1555 1.33 LINK C ASN A1023 N MSE A1024 1555 1555 1.34 LINK C MSE A1024 N ASN A1025 1555 1555 1.33 LINK C ALA A1030 N MSE A1031 1555 1555 1.34 LINK C MSE A1031 N LYS A1032 1555 1555 1.33 LINK SG CYS A 823 CD CD A3086 1555 1555 2.59 LINK ND1 HIS A 886 CD CD A3086 1555 1555 2.40 LINK SE MSE A 889 CD CD A3086 1555 1555 2.79 LINK OE2 GLU A 894 CD CD A3087 1555 1555 2.25 LINK OE1 GLU A 894 CD CD A3087 1555 1555 2.90 LINK NE2 HIS A 947 CD CD A3089 1555 1555 2.38 LINK OE1 GLU A1007 CD CD A3088 1555 1555 2.55 LINK OE2 GLU A1007 CD CD A3088 1555 1555 2.23 LINK OE1 GLU A1017 CD CD A3086 4454 1555 2.48 LINK OE2 GLU A1017 CD CD A3086 4454 1555 2.50 LINK ND1 HIS A1076 CD CD A3087 1555 1555 2.51 LINK OE1 GLU A1079 CD CD A3087 1555 1555 2.19 LINK OE2 GLU A1079 CD CD A3087 1555 1555 2.60 LINK NE2 HIS A1080 CD CD A3089 1555 1555 2.28 LINK ND1 HIS A1081 CD CD A3090 1555 1555 1.84 LINK NE2 HIS A1082 CD CD A3088 7555 1555 2.43 LINK ND1 HIS A1083 CD CD A3087 1555 1555 2.46 LINK NE2 HIS A1084 CD CD A3088 7555 1555 2.25 LINK NE2 HIS A1085 CD CD A3087 1555 1555 2.37 LINK O HOH A2027 CD CD A3086 1555 1555 2.40 LINK O HOH A2035 CD CD A3089 1555 1555 2.74 LINK O HOH A2036 CD CD A3089 1555 1555 2.16 LINK O HOH A2038 CD CD A3089 1555 1555 1.78 LINK O HOH A2049 CD CD A3088 7555 1555 2.73 LINK O HOH A2050 CD CD A3088 7555 1555 2.45 SITE 1 AC1 5 CYS A 823 HIS A 886 MSE A 889 GLU A1017 SITE 2 AC1 5 HOH A2027 SITE 1 AC2 5 GLU A 894 HIS A1076 GLU A1079 HIS A1083 SITE 2 AC2 5 HIS A1085 SITE 1 AC3 5 GLU A1007 HIS A1082 HIS A1084 HOH A2049 SITE 2 AC3 5 HOH A2050 SITE 1 AC4 5 HIS A 947 HIS A1080 HOH A2035 HOH A2036 SITE 2 AC4 5 HOH A2038 SITE 1 AC5 1 HIS A1081 CRYST1 111.974 111.974 66.031 90.00 90.00 90.00 P 41 21 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 0.008931 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008931 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015144 0.00000