HEADER HYDROLASE 23-OCT-15 5EFD TITLE CRYSTAL STRUCTURE OF A SURFACE POCKET CREATING MUTANT (W6A) OF AN TITLE 2 ALKALI THERMOSTABLE GH10 XYLANASE FROM BACILLUS SP. NG-27 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-XYLANASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 52-405; COMPND 5 SYNONYM: ALKALI THERMOSTABLE GH10 XYLANASE; COMPND 6 EC: 3.2.1.8; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SP. NG-27; SOURCE 3 ORGANISM_TAXID: 65673; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS GLYCOSYL HYDROLASE FAMILY 10 (GH10), HYDROLASE, XYLANASE, MUTANT, KEYWDS 2 (BETA/ALPHA)8-TIM BARREL EXPDTA X-RAY DIFFRACTION AUTHOR P.MAHANTA,A.BHARDWAJ,V.S.REDDY,S.RAMAKUMAR REVDAT 3 20-MAR-24 5EFD 1 REMARK REVDAT 2 24-MAR-21 5EFD 1 JRNL REMARK LINK REVDAT 1 26-OCT-16 5EFD 0 JRNL AUTH H.BANSIA,P.MAHANTA,N.H.YENNAWAR,S.RAMAKUMAR JRNL TITL SMALL GLYCOLS DISCOVER CRYPTIC POCKETS ON PROTEINS FOR JRNL TITL 2 FRAGMENT-BASED APPROACHES. JRNL REF J.CHEM.INF.MODEL. 2021 JRNL REFN ESSN 1549-960X JRNL PMID 33570386 JRNL DOI 10.1021/ACS.JCIM.0C01126 REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 88.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 82205 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4338 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) : 1.67 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5982 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 313 REMARK 3 BIN FREE R VALUE : 0.2380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5772 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 442 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.83000 REMARK 3 B22 (A**2) : -0.77000 REMARK 3 B33 (A**2) : -0.06000 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): 0.089 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.992 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6033 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5448 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8230 ; 1.621 ; 1.928 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12501 ; 0.870 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 718 ; 5.872 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 346 ;33.222 ;24.740 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 933 ;11.575 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;14.138 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 854 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7030 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1480 ; 0.001 ; 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): 2857 ; 0.975 ; 0.943 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2856 ; 0.975 ; 0.942 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3577 ; 1.559 ; 1.411 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 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 1 A 354 REMARK 3 ORIGIN FOR THE GROUP (A): 10.6620 -16.0870 -44.0900 REMARK 3 T TENSOR REMARK 3 T11: 0.0125 T22: 0.1349 REMARK 3 T33: 0.0055 T12: 0.0033 REMARK 3 T13: 0.0030 T23: -0.0058 REMARK 3 L TENSOR REMARK 3 L11: 0.2457 L22: 0.2307 REMARK 3 L33: 0.5535 L12: 0.0330 REMARK 3 L13: 0.2915 L23: -0.1753 REMARK 3 S TENSOR REMARK 3 S11: 0.0253 S12: 0.0006 S13: -0.0097 REMARK 3 S21: 0.0216 S22: -0.0032 S23: 0.0058 REMARK 3 S31: 0.0079 S32: 0.0136 S33: -0.0222 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 354 REMARK 3 ORIGIN FOR THE GROUP (A): 5.1440 -0.5250 -4.8720 REMARK 3 T TENSOR REMARK 3 T11: 0.0032 T22: 0.1266 REMARK 3 T33: 0.0063 T12: -0.0011 REMARK 3 T13: 0.0003 T23: -0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.5380 L22: 0.1467 REMARK 3 L33: 0.5149 L12: -0.0252 REMARK 3 L13: 0.2025 L23: -0.0242 REMARK 3 S TENSOR REMARK 3 S11: -0.0060 S12: 0.0111 S13: -0.0337 REMARK 3 S21: -0.0075 S22: 0.0251 S23: -0.0007 REMARK 3 S31: 0.0090 S32: -0.0096 S33: -0.0190 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5EFD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000214814. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-12 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 : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.82656 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SCALA REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 86625 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.674 REMARK 200 RESOLUTION RANGE LOW (A) : 88.245 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07700 REMARK 200 FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.42100 REMARK 200 R SYM FOR SHELL (I) : 0.42100 REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NACL, 0.16M MGCL2, 0.05M TRIS HCL REMARK 280 PH 8.5, 20% PEG 8000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 27.49500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.24500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.30000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 88.24500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.49500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.30000 REMARK 290 SMTRY3 4 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 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 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 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL 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 MET A 0 REMARK 465 MET B 0 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 ARG A 33 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 33 CG CD NE CZ NH1 NH2 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 ARG A 14 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ASP A 289 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 323 NE - CZ - NH1 ANGL. DEV. = 4.4 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 ASN A 49 -24.48 -141.79 REMARK 500 GLU A 163 51.09 -90.88 REMARK 500 GLU A 259 42.10 -142.13 REMARK 500 ALA A 335 69.69 -161.94 REMARK 500 GLU B 259 42.53 -140.75 REMARK 500 ALA B 335 70.66 -158.55 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 NA A 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 18 O REMARK 620 2 ASP A 302 O 114.4 REMARK 620 3 LEU A 305 O 93.1 87.9 REMARK 620 4 HOH A 688 O 89.3 86.3 174.2 REMARK 620 5 HOH A 708 O 153.9 91.5 89.9 90.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 292 OD1 REMARK 620 2 ARG A 351 O 89.5 REMARK 620 3 ASP A 354 OD1 159.4 86.8 REMARK 620 4 HOH A 521 O 79.3 89.2 80.4 REMARK 620 5 HOH A 540 O 124.7 87.5 75.3 155.7 REMARK 620 6 HOH A 625 O 71.1 84.4 128.5 149.7 53.7 REMARK 620 7 HOH A 662 O 89.8 176.2 95.2 94.4 89.8 91.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 18 O REMARK 620 2 ASP B 302 O 119.9 REMARK 620 3 LEU B 305 O 88.3 89.2 REMARK 620 4 HOH B 690 O 86.7 85.8 170.1 REMARK 620 5 HOH B 700 O 85.6 152.5 102.7 85.5 REMARK 620 6 HOH B 705 O 143.0 97.1 91.6 97.5 58.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 292 OD1 REMARK 620 2 ARG B 351 O 92.2 REMARK 620 3 ASP B 354 OD1 145.5 85.5 REMARK 620 4 HOH B 501 O 71.5 86.0 74.0 REMARK 620 5 HOH B 517 O 138.1 89.6 76.4 150.3 REMARK 620 6 HOH B 593 O 75.9 83.9 137.7 145.3 62.7 REMARK 620 7 HOH B 597 O 88.2 179.6 94.2 94.2 90.1 96.2 REMARK 620 N 1 2 3 4 5 6 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5EB8 RELATED DB: PDB REMARK 900 RELATED ID: 5EBA RELATED DB: PDB REMARK 900 RELATED ID: 5EBF RELATED DB: PDB DBREF 5EFD A 1 354 UNP O30700 O30700_9BACI 52 405 DBREF 5EFD B 1 354 UNP O30700 O30700_9BACI 52 405 SEQADV 5EFD MET A 0 UNP O30700 EXPRESSION TAG SEQADV 5EFD ALA A 6 UNP O30700 TRP 57 ENGINEERED MUTATION SEQADV 5EFD MET B 0 UNP O30700 EXPRESSION TAG SEQADV 5EFD ALA B 6 UNP O30700 TRP 57 ENGINEERED MUTATION SEQRES 1 A 355 MET VAL GLN PRO PHE ALA ALA GLN VAL ALA SER LEU ALA SEQRES 2 A 355 ASP ARG TYR GLU GLU SER PHE ASP ILE GLY ALA ALA VAL SEQRES 3 A 355 GLU PRO HIS GLN LEU ASN GLY ARG GLN GLY LYS VAL LEU SEQRES 4 A 355 LYS HIS HIS TYR ASN SER ILE VAL ALA GLU ASN ALA MET SEQRES 5 A 355 LYS PRO ILE SER LEU GLN PRO GLU GLU GLY VAL PHE THR SEQRES 6 A 355 TRP ASP GLY ALA ASP ALA ILE VAL GLU PHE ALA ARG LYS SEQRES 7 A 355 ASN ASN MET ASN LEU ARG PHE HIS THR LEU VAL TRP HIS SEQRES 8 A 355 ASN GLN VAL PRO ASP TRP PHE PHE LEU ASP GLU GLU GLY SEQRES 9 A 355 ASN PRO MET VAL GLU GLU THR ASN GLU ALA LYS ARG GLN SEQRES 10 A 355 ALA ASN LYS GLU LEU LEU LEU GLU ARG LEU GLU THR HIS SEQRES 11 A 355 ILE LYS THR VAL VAL GLU ARG TYR LYS ASP ASP VAL THR SEQRES 12 A 355 ALA TRP ASP VAL VAL ASN GLU VAL VAL ASP ASP GLY THR SEQRES 13 A 355 PRO ASN GLU ARG GLY LEU ARG GLU SER VAL TRP TYR GLN SEQRES 14 A 355 ILE THR GLY ASP GLU TYR ILE ARG VAL ALA PHE GLU THR SEQRES 15 A 355 ALA ARG LYS TYR ALA GLY GLU ASP ALA LYS LEU PHE ILE SEQRES 16 A 355 ASN ASP TYR ASN THR GLU VAL THR PRO LYS ARG ASP HIS SEQRES 17 A 355 LEU TYR ASN LEU VAL GLN ASP LEU LEU ALA ASP GLY VAL SEQRES 18 A 355 PRO ILE ASP GLY VAL GLY HIS GLN ALA HIS ILE GLN ILE SEQRES 19 A 355 ASP TRP PRO THR ILE ASP GLU ILE ARG THR SER MET GLU SEQRES 20 A 355 MET PHE ALA GLY LEU GLY LEU ASP ASN GLN VAL THR GLU SEQRES 21 A 355 LEU ASP VAL SER LEU TYR GLY TRP PRO PRO ARG PRO ALA SEQRES 22 A 355 PHE PRO THR TYR ASP ALA ILE PRO GLN GLU ARG PHE GLN SEQRES 23 A 355 ALA GLN ALA ASP ARG TYR ASN GLN LEU PHE GLU LEU TYR SEQRES 24 A 355 GLU GLU LEU ASP ALA ASP LEU SER SER VAL THR PHE TRP SEQRES 25 A 355 GLY ILE ALA ASP ASN HIS THR TRP LEU ASP ASP ARG ALA SEQRES 26 A 355 ARG GLU TYR ASN ASP GLY VAL GLY LYS ASP ALA PRO PHE SEQRES 27 A 355 VAL PHE ASP PRO ASN TYR ARG VAL LYS PRO ALA PHE TRP SEQRES 28 A 355 ARG ILE ILE ASP SEQRES 1 B 355 MET VAL GLN PRO PHE ALA ALA GLN VAL ALA SER LEU ALA SEQRES 2 B 355 ASP ARG TYR GLU GLU SER PHE ASP ILE GLY ALA ALA VAL SEQRES 3 B 355 GLU PRO HIS GLN LEU ASN GLY ARG GLN GLY LYS VAL LEU SEQRES 4 B 355 LYS HIS HIS TYR ASN SER ILE VAL ALA GLU ASN ALA MET SEQRES 5 B 355 LYS PRO ILE SER LEU GLN PRO GLU GLU GLY VAL PHE THR SEQRES 6 B 355 TRP ASP GLY ALA ASP ALA ILE VAL GLU PHE ALA ARG LYS SEQRES 7 B 355 ASN ASN MET ASN LEU ARG PHE HIS THR LEU VAL TRP HIS SEQRES 8 B 355 ASN GLN VAL PRO ASP TRP PHE PHE LEU ASP GLU GLU GLY SEQRES 9 B 355 ASN PRO MET VAL GLU GLU THR ASN GLU ALA LYS ARG GLN SEQRES 10 B 355 ALA ASN LYS GLU LEU LEU LEU GLU ARG LEU GLU THR HIS SEQRES 11 B 355 ILE LYS THR VAL VAL GLU ARG TYR LYS ASP ASP VAL THR SEQRES 12 B 355 ALA TRP ASP VAL VAL ASN GLU VAL VAL ASP ASP GLY THR SEQRES 13 B 355 PRO ASN GLU ARG GLY LEU ARG GLU SER VAL TRP TYR GLN SEQRES 14 B 355 ILE THR GLY ASP GLU TYR ILE ARG VAL ALA PHE GLU THR SEQRES 15 B 355 ALA ARG LYS TYR ALA GLY GLU ASP ALA LYS LEU PHE ILE SEQRES 16 B 355 ASN ASP TYR ASN THR GLU VAL THR PRO LYS ARG ASP HIS SEQRES 17 B 355 LEU TYR ASN LEU VAL GLN ASP LEU LEU ALA ASP GLY VAL SEQRES 18 B 355 PRO ILE ASP GLY VAL GLY HIS GLN ALA HIS ILE GLN ILE SEQRES 19 B 355 ASP TRP PRO THR ILE ASP GLU ILE ARG THR SER MET GLU SEQRES 20 B 355 MET PHE ALA GLY LEU GLY LEU ASP ASN GLN VAL THR GLU SEQRES 21 B 355 LEU ASP VAL SER LEU TYR GLY TRP PRO PRO ARG PRO ALA SEQRES 22 B 355 PHE PRO THR TYR ASP ALA ILE PRO GLN GLU ARG PHE GLN SEQRES 23 B 355 ALA GLN ALA ASP ARG TYR ASN GLN LEU PHE GLU LEU TYR SEQRES 24 B 355 GLU GLU LEU ASP ALA ASP LEU SER SER VAL THR PHE TRP SEQRES 25 B 355 GLY ILE ALA ASP ASN HIS THR TRP LEU ASP ASP ARG ALA SEQRES 26 B 355 ARG GLU TYR ASN ASP GLY VAL GLY LYS ASP ALA PRO PHE SEQRES 27 B 355 VAL PHE ASP PRO ASN TYR ARG VAL LYS PRO ALA PHE TRP SEQRES 28 B 355 ARG ILE ILE ASP HET MG A 401 1 HET NA A 402 1 HET EDO A 403 4 HET EDO A 404 4 HET EDO A 405 4 HET CL A 406 1 HET MG B 401 1 HET NA B 402 1 HET EDO B 403 4 HET EDO B 404 4 HET EDO B 405 4 HET EDO B 406 4 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 MG 2(MG 2+) FORMUL 4 NA 2(NA 1+) FORMUL 5 EDO 7(C2 H6 O2) FORMUL 8 CL CL 1- FORMUL 15 HOH *442(H2 O) HELIX 1 AA1 PHE A 4 VAL A 8 5 5 HELIX 2 AA2 SER A 10 TYR A 15 1 6 HELIX 3 AA3 GLU A 26 LEU A 30 5 5 HELIX 4 AA4 ASN A 31 TYR A 42 1 12 HELIX 5 AA5 LYS A 52 GLN A 57 1 6 HELIX 6 AA6 TRP A 65 ASN A 78 1 14 HELIX 7 AA7 PRO A 94 LEU A 99 5 6 HELIX 8 AA8 PRO A 105 GLU A 109 5 5 HELIX 9 AA9 ASN A 111 LYS A 138 1 28 HELIX 10 AB1 SER A 164 GLY A 171 1 8 HELIX 11 AB2 ASP A 172 GLY A 187 1 16 HELIX 12 AB3 PRO A 203 ASP A 218 1 16 HELIX 13 AB4 THR A 237 LEU A 251 1 15 HELIX 14 AB5 THR A 275 ILE A 279 5 5 HELIX 15 AB6 PRO A 280 LEU A 301 1 22 HELIX 16 AB7 THR A 318 ASN A 328 1 11 HELIX 17 AB8 LYS A 346 ASP A 354 1 9 HELIX 18 AB9 PHE B 4 VAL B 8 5 5 HELIX 19 AC1 SER B 10 TYR B 15 1 6 HELIX 20 AC2 GLU B 26 LEU B 30 5 5 HELIX 21 AC3 ASN B 31 TYR B 42 1 12 HELIX 22 AC4 LYS B 52 GLN B 57 1 6 HELIX 23 AC5 TRP B 65 ASN B 78 1 14 HELIX 24 AC6 PRO B 94 LEU B 99 5 6 HELIX 25 AC7 PRO B 105 GLU B 109 5 5 HELIX 26 AC8 ASN B 111 LYS B 138 1 28 HELIX 27 AC9 SER B 164 GLY B 171 1 8 HELIX 28 AD1 ASP B 172 GLY B 187 1 16 HELIX 29 AD2 PRO B 203 ASP B 218 1 16 HELIX 30 AD3 THR B 237 GLY B 250 1 14 HELIX 31 AD4 PRO B 280 LEU B 301 1 22 HELIX 32 AD5 THR B 318 ASN B 328 1 11 HELIX 33 AD6 LYS B 346 ASP B 354 1 9 SHEET 1 AA110 HIS A 230 GLN A 232 0 SHEET 2 AA110 ASP A 254 SER A 263 1 O SER A 263 N ILE A 231 SHEET 3 AA110 LEU A 305 PHE A 310 1 O THR A 309 N VAL A 257 SHEET 4 AA110 ASP A 20 VAL A 25 1 N GLY A 22 O PHE A 310 SHEET 5 AA110 SER A 44 ALA A 47 1 O VAL A 46 N VAL A 25 SHEET 6 AA110 ASN A 81 HIS A 85 1 O ARG A 83 N ILE A 45 SHEET 7 AA110 ALA A 143 ASN A 148 1 O ASP A 145 N PHE A 84 SHEET 8 AA110 LEU A 192 ASP A 196 1 O PHE A 193 N TRP A 144 SHEET 9 AA110 GLY A 224 HIS A 227 1 O GLY A 226 N ILE A 194 SHEET 10 AA110 ASP A 254 SER A 263 1 O GLN A 256 N HIS A 227 SHEET 1 AA210 HIS B 230 GLN B 232 0 SHEET 2 AA210 ASP B 254 SER B 263 1 O SER B 263 N ILE B 231 SHEET 3 AA210 LEU B 305 PHE B 310 1 O THR B 309 N VAL B 257 SHEET 4 AA210 ASP B 20 VAL B 25 1 N GLY B 22 O PHE B 310 SHEET 5 AA210 SER B 44 ALA B 47 1 O VAL B 46 N VAL B 25 SHEET 6 AA210 ASN B 81 HIS B 85 1 O ARG B 83 N ILE B 45 SHEET 7 AA210 ALA B 143 ASN B 148 1 O ASP B 145 N PHE B 84 SHEET 8 AA210 LEU B 192 ASP B 196 1 O PHE B 193 N TRP B 144 SHEET 9 AA210 GLY B 224 HIS B 227 1 O GLY B 226 N ILE B 194 SHEET 10 AA210 ASP B 254 SER B 263 1 O GLN B 256 N HIS B 227 LINK O SER A 18 NA NA A 402 1555 1555 2.20 LINK OD1 ASN A 292 MG MG A 401 1555 1555 2.07 LINK O ASP A 302 NA NA A 402 1555 1555 2.23 LINK O LEU A 305 NA NA A 402 1555 1555 2.37 LINK O ARG A 351 MG MG A 401 1555 1555 2.19 LINK OD1 ASP A 354 MG MG A 401 1555 1555 2.25 LINK MG MG A 401 O HOH A 521 1555 1555 2.45 LINK MG MG A 401 O HOH A 540 1555 1555 2.11 LINK MG MG A 401 O HOH A 625 1555 1555 2.74 LINK MG MG A 401 O HOH A 662 1555 1555 2.10 LINK NA NA A 402 O HOH A 688 1555 1555 2.23 LINK NA NA A 402 O HOH A 708 1555 1555 2.37 LINK O SER B 18 NA NA B 402 1555 1555 2.16 LINK OD1 ASN B 292 MG MG B 401 1555 1555 2.02 LINK O ASP B 302 NA NA B 402 1555 1555 2.21 LINK O LEU B 305 NA NA B 402 1555 1555 2.35 LINK O ARG B 351 MG MG B 401 1555 1555 2.09 LINK OD1 ASP B 354 MG MG B 401 1555 1555 2.16 LINK MG MG B 401 O HOH B 501 1555 1555 2.67 LINK MG MG B 401 O HOH B 517 1555 1555 2.06 LINK MG MG B 401 O HOH B 593 1555 1555 2.49 LINK MG MG B 401 O HOH B 597 1555 1555 2.03 LINK NA NA B 402 O HOH B 690 1555 1555 2.37 LINK NA NA B 402 O HOH B 700 1555 1555 2.54 LINK NA NA B 402 O HOH B 705 1555 1555 2.38 CISPEP 1 HIS A 85 THR A 86 0 2.46 CISPEP 2 THR A 202 PRO A 203 0 6.93 CISPEP 3 TRP A 235 PRO A 236 0 -9.10 CISPEP 4 TRP A 235 PRO A 236 0 -4.30 CISPEP 5 TRP A 267 PRO A 268 0 9.47 CISPEP 6 ARG A 270 PRO A 271 0 -3.38 CISPEP 7 HIS B 85 THR B 86 0 5.56 CISPEP 8 THR B 202 PRO B 203 0 2.85 CISPEP 9 TRP B 235 PRO B 236 0 -8.56 CISPEP 10 TRP B 235 PRO B 236 0 -4.96 CISPEP 11 TRP B 267 PRO B 268 0 -11.37 CISPEP 12 TRP B 267 PRO B 268 0 0.97 CISPEP 13 ARG B 270 PRO B 271 0 -4.16 SITE 1 AC1 7 ASN A 292 ARG A 351 ASP A 354 HOH A 521 SITE 2 AC1 7 HOH A 540 HOH A 625 HOH A 662 SITE 1 AC2 5 SER A 18 ASP A 302 LEU A 305 HOH A 688 SITE 2 AC2 5 HOH A 708 SITE 1 AC3 6 PHE A 4 ALA A 5 ALA A 6 LYS A 36 SITE 2 AC3 6 TYR A 343 HOH A 635 SITE 1 AC4 4 HIS A 90 ASN A 91 GLU A 149 ARG A 162 SITE 1 AC5 4 ALA A 75 ARG A 76 MET A 80 ASP A 140 SITE 1 AC6 1 ARG A 162 SITE 1 AC7 7 ASN B 292 ARG B 351 ASP B 354 HOH B 501 SITE 2 AC7 7 HOH B 517 HOH B 593 HOH B 597 SITE 1 AC8 6 SER B 18 ASP B 302 LEU B 305 HOH B 690 SITE 2 AC8 6 HOH B 700 HOH B 705 SITE 1 AC9 6 PHE B 4 ALA B 5 ALA B 6 ARG B 33 SITE 2 AC9 6 TYR B 343 HOH B 662 SITE 1 AD1 8 HIS B 230 ILE B 231 GLN B 232 TRP B 267 SITE 2 AD1 8 TRP B 319 ARG B 323 HOH B 541 HOH B 574 SITE 1 AD2 5 ASP B 153 VAL B 201 THR B 202 PRO B 203 SITE 2 AD2 5 LYS B 204 SITE 1 AD3 4 ASN A 342 ASP B 206 TYR B 209 ASN B 210 CRYST1 54.990 76.600 176.490 90.00 90.00 90.00 P 21 21 21 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 0.018185 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013055 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005666 0.00000