HEADER HYDROLASE 07-FEB-08 3C7G TITLE CRYSTAL STRUCTURE OF A GLYCOSIDE HYDROLASE FAMILY 43 ARABINOXYLAN TITLE 2 ARABINOFURANOHYDROLASE FROM BACILLUS SUBTILIS IN COMPLEX WITH TITLE 3 XYLOTETRAOSE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-XYLANASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: XYLANASE D; COMPND 5 EC: 3.2.1.55; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: XYND; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS 5-BLADED BETA-PROPELLER FOLD, BETA-SANDWICH, XYLAN DEGRADATION, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.VANDERMARLIERE,T.M.BOURGOIS,M.D.WINN,S.VAN CAMPENHOUT,G.VOLCKAERT, AUTHOR 2 S.V.STRELKOV,J.A.DELCOUR,A.RABIJNS,C.M.COURTIN REVDAT 5 30-AUG-23 3C7G 1 HETSYN LINK REVDAT 4 29-JUL-20 3C7G 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 13-JUL-11 3C7G 1 VERSN REVDAT 2 10-FEB-09 3C7G 1 JRNL VERSN REVDAT 1 18-NOV-08 3C7G 0 JRNL AUTH E.VANDERMARLIERE,T.M.BOURGOIS,M.D.WINN,S.VAN CAMPENHOUT, JRNL AUTH 2 G.VOLCKAERT,J.A.DELCOUR,S.V.STRELKOV,A.RABIJNS,C.M.COURTIN JRNL TITL STRUCTURAL ANALYSIS OF A GLYCOSIDE HYDROLASE FAMILY 43 JRNL TITL 2 ARABINOXYLAN ARABINOFURANOHYDROLASE IN COMPLEX WITH JRNL TITL 3 XYLOTETRAOSE REVEALS A DIFFERENT BINDING MECHANISM COMPARED JRNL TITL 4 WITH OTHER MEMBERS OF THE SAME FAMILY. JRNL REF BIOCHEM.J. V. 418 39 2009 JRNL REFN ISSN 0264-6021 JRNL PMID 18980579 JRNL DOI 10.1042/BJ20081256 REMARK 2 REMARK 2 RESOLUTION. 2.02 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.02 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 3 NUMBER OF REFLECTIONS : 31709 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) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1788 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) : 2.02 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1645 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.1540 REMARK 3 BIN FREE R VALUE SET COUNT : 87 REMARK 3 BIN FREE R VALUE : 0.1810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3664 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 446 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 0.17000 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): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.862 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3828 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5221 ; 1.763 ; 1.929 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 491 ;20.515 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 167 ;35.384 ;24.132 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 521 ;12.429 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;17.598 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 556 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3005 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2124 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2646 ; 0.316 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 515 ; 0.167 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 11 ; 0.161 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 55 ; 0.260 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 34 ; 0.324 ; 0.200 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): 2407 ; 0.771 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3849 ; 1.356 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1497 ; 1.896 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1370 ; 2.774 ; 4.500 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 : NULL 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 REMARK 4 REMARK 4 3C7G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046436. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0322 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33537 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.020 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : 4.60000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.02 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.13700 REMARK 200 R SYM FOR SHELL (I) : 13.7000 REMARK 200 FOR SHELL : 8.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRIES 1GYH, 1W9T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4.0 M NA FORMATE , PH 5.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 33.76150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.43450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.20050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.43450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.76150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.20050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 1935 O HOH A 1976 2.01 REMARK 500 O HOH A 1925 O HOH A 2099 2.10 REMARK 500 OE1 GLU A 225 O HOH A 2163 2.12 REMARK 500 O HOH A 1868 O HOH A 2095 2.16 REMARK 500 O3 XYP B 3 O HOH A 2163 2.17 REMARK 500 O4 XYP B 2 O5 XYP B 3 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 1896 O HOH A 2164 4455 1.71 REMARK 500 O HOH A 1766 O HOH A 2165 3555 1.90 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 ARG A 91 N - CA - C ANGL. DEV. = -16.9 DEGREES REMARK 500 GLY A 92 N - CA - C ANGL. DEV. = -19.9 DEGREES REMARK 500 GLY A 285 N - CA - C ANGL. DEV. = -17.0 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 ALA A 7 -36.48 -149.07 REMARK 500 MET A 70 -2.24 79.82 REMARK 500 ALA A 87 119.74 68.65 REMARK 500 ASN A 88 48.10 -6.21 REMARK 500 ALA A 102 63.92 61.41 REMARK 500 SER A 123 -131.21 51.61 REMARK 500 VAL A 185 -121.34 47.52 REMARK 500 PHE A 224 -57.38 -129.91 REMARK 500 GLU A 225 -170.44 -171.82 REMARK 500 GLN A 307 46.05 -90.73 REMARK 500 LYS A 373 107.44 -2.11 REMARK 500 ASP A 427 -39.22 72.47 REMARK 500 THR A 473 166.83 59.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 19 HIS A 20 128.67 REMARK 500 VAL A 34 TYR A 35 146.77 REMARK 500 GLY A 90 ARG A 91 -101.28 REMARK 500 ARG A 91 GLY A 92 -125.13 REMARK 500 GLY A 92 ILE A 93 -132.62 REMARK 500 PRO A 142 ILE A 143 -141.38 REMARK 500 ARG A 272 GLY A 273 -36.59 REMARK 500 ARG A 272 GLY A 273 -38.02 REMARK 500 GLY A 284 GLY A 285 -55.18 REMARK 500 ASN A 289 HIS A 290 -146.50 REMARK 500 HIS A 290 HIS A 291 -138.14 REMARK 500 GLU A 372 LYS A 373 128.01 REMARK 500 ASN A 478 PHE A 479 -131.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 92 10.55 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 A1143 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 290 NE2 REMARK 620 2 HOH A1735 O 84.7 REMARK 620 3 HOH A1777 O 98.1 89.2 REMARK 620 4 HOH A1913 O 173.5 101.7 80.7 REMARK 620 5 HOH A2167 O 97.7 88.1 163.7 84.1 REMARK 620 6 HOH A2168 O 83.2 155.8 113.2 91.4 73.0 REMARK 620 7 HOH A2169 O 75.1 143.8 65.0 98.7 123.7 50.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1141 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 359 OE1 REMARK 620 2 GLU A 361 OE1 107.4 REMARK 620 3 GLU A 361 OE2 88.9 52.8 REMARK 620 4 ASN A 383 OD1 80.7 134.2 83.2 REMARK 620 5 GLN A 384 O 161.6 74.8 77.9 85.0 REMARK 620 6 ASP A 480 O 84.2 75.3 122.6 149.9 113.7 REMARK 620 7 ASP A 480 OD1 101.7 137.1 158.8 80.6 87.2 77.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1142 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 368 O REMARK 620 2 SER A 388 O 105.2 REMARK 620 3 GLN A 390 OE1 160.7 93.6 REMARK 620 4 ASP A 393 OD2 95.2 92.5 88.3 REMARK 620 5 HOH A1927 O 84.7 90.1 91.0 177.3 REMARK 620 6 HOH A1973 O 79.4 174.0 82.1 83.2 94.1 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3C7E RELATED DB: PDB REMARK 900 RELATED ID: 3C7F RELATED DB: PDB REMARK 900 RELATED ID: 3C7H RELATED DB: PDB REMARK 900 RELATED ID: 3C7O RELATED DB: PDB DBREF 3C7G A 1 487 UNP Q45071 Q45071_BACSU 27 513 SEQADV 3C7G SER A 0 UNP Q45071 EXPRESSION TAG SEQRES 1 A 488 SER ALA THR SER THR THR ILE ALA LYS HIS ILE GLY ASN SEQRES 2 A 488 SER ASN PRO LEU ILE ASP HIS HIS LEU GLY ALA ASP PRO SEQRES 3 A 488 VAL ALA LEU THR TYR ASN GLY ARG VAL TYR ILE TYR MET SEQRES 4 A 488 SER SER ASP ASP TYR GLU TYR ASN SER ASN GLY THR ILE SEQRES 5 A 488 LYS ASP ASN SER PHE ALA ASN LEU ASN ARG VAL PHE VAL SEQRES 6 A 488 ILE SER SER ALA ASP MET VAL ASN TRP THR ASP HIS GLY SEQRES 7 A 488 ALA ILE PRO VAL ALA GLY ALA ASN GLY ALA ASN GLY GLY SEQRES 8 A 488 ARG GLY ILE ALA LYS TRP ALA GLY ALA SER TRP ALA PRO SEQRES 9 A 488 SER ILE ALA VAL LYS LYS ILE ASN GLY LYS ASP LYS PHE SEQRES 10 A 488 PHE LEU TYR PHE ALA ASN SER GLY GLY GLY ILE GLY VAL SEQRES 11 A 488 LEU THR ALA ASP SER PRO ILE GLY PRO TRP THR ASP PRO SEQRES 12 A 488 ILE GLY LYS PRO LEU VAL THR PRO SER THR PRO GLY MET SEQRES 13 A 488 SER GLY VAL VAL TRP LEU PHE ASP PRO ALA VAL PHE VAL SEQRES 14 A 488 ASP ASP ASP GLY THR GLY TYR LEU TYR ALA GLY GLY GLY SEQRES 15 A 488 VAL PRO GLY VAL SER ASN PRO THR GLN GLY GLN TRP ALA SEQRES 16 A 488 ASN PRO LYS THR ALA ARG VAL ILE LYS LEU GLY PRO ASP SEQRES 17 A 488 MET THR SER VAL VAL GLY SER ALA SER THR ILE ASP ALA SEQRES 18 A 488 PRO PHE MET PHE GLU ASP SER GLY LEU HIS LYS TYR ASN SEQRES 19 A 488 GLY THR TYR TYR TYR SER TYR CYS ILE ASN PHE GLY GLY SEQRES 20 A 488 THR HIS PRO ALA ASP LYS PRO PRO GLY GLU ILE GLY TYR SEQRES 21 A 488 MET THR SER SER SER PRO MET GLY PRO PHE THR TYR ARG SEQRES 22 A 488 GLY HIS PHE LEU LYS ASN PRO GLY ALA PHE PHE GLY GLY SEQRES 23 A 488 GLY GLY ASN ASN HIS HIS ALA VAL PHE ASN PHE LYS ASN SEQRES 24 A 488 GLU TRP TYR VAL VAL TYR HIS ALA GLN THR VAL SER SER SEQRES 25 A 488 ALA LEU PHE GLY ALA GLY LYS GLY TYR ARG SER PRO HIS SEQRES 26 A 488 ILE ASN LYS LEU VAL HIS ASN ALA ASP GLY SER ILE GLN SEQRES 27 A 488 GLU VAL ALA ALA ASN TYR ALA GLY VAL THR GLN ILE SER SEQRES 28 A 488 ASN LEU ASN PRO TYR ASN ARG VAL GLU ALA GLU THR PHE SEQRES 29 A 488 ALA TRP ASN GLY ARG ILE LEU THR GLU LYS SER THR ALA SEQRES 30 A 488 PRO GLY GLY PRO VAL ASN ASN GLN HIS VAL THR SER ILE SEQRES 31 A 488 GLN ASN GLY ASP TRP ILE ALA VAL GLY ASN ALA ASP PHE SEQRES 32 A 488 GLY ALA GLY GLY ALA ARG SER PHE LYS ALA ASN VAL ALA SEQRES 33 A 488 SER THR LEU GLY GLY LYS ILE GLU VAL ARG LEU ASP SER SEQRES 34 A 488 ALA ASP GLY LYS LEU VAL GLY THR LEU ASN VAL PRO SER SEQRES 35 A 488 THR GLY GLY ALA GLN THR TRP ARG GLU ILE GLU THR ALA SEQRES 36 A 488 VAL SER GLY ALA THR GLY VAL HIS LYS VAL PHE PHE VAL SEQRES 37 A 488 PHE THR GLY THR GLY THR GLY ASN LEU PHE ASN PHE ASP SEQRES 38 A 488 TYR TRP GLN PHE THR GLN ARG HET XYP B 1 10 HET XYP B 2 9 HET XYP B 3 9 HET XYP B 4 9 HET CA A1141 1 HET NA A1142 1 HET NA A1143 1 HET GOL A1733 6 HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 XYP 4(C5 H10 O5) FORMUL 3 CA CA 2+ FORMUL 4 NA 2(NA 1+) FORMUL 6 GOL C3 H8 O3 FORMUL 7 HOH *446(H2 O) HELIX 1 1 THR A 189 ASN A 195 1 7 HELIX 2 2 ASN A 278 GLY A 284 1 7 HELIX 3 3 GLN A 307 GLY A 315 1 9 SHEET 1 A 5 ALA A 23 TYR A 30 0 SHEET 2 A 5 ARG A 33 SER A 39 -1 O ARG A 33 N TYR A 30 SHEET 3 A 5 VAL A 62 SER A 67 -1 O ILE A 65 N ILE A 36 SHEET 4 A 5 TRP A 73 ILE A 79 -1 O ILE A 79 N VAL A 62 SHEET 5 A 5 THR A 362 PHE A 363 -1 O PHE A 363 N TRP A 73 SHEET 1 B 2 GLU A 44 TYR A 45 0 SHEET 2 B 2 ILE A 51 LYS A 52 -1 O LYS A 52 N GLU A 44 SHEET 1 C 4 TRP A 101 ILE A 110 0 SHEET 2 C 4 LYS A 113 ALA A 121 -1 O TYR A 119 N SER A 104 SHEET 3 C 4 ILE A 127 ALA A 132 -1 O ALA A 132 N PHE A 116 SHEET 4 C 4 TRP A 139 THR A 140 -1 O THR A 140 N THR A 131 SHEET 1 D 4 ALA A 165 VAL A 168 0 SHEET 2 D 4 GLY A 174 GLY A 179 -1 O TYR A 177 N ALA A 165 SHEET 3 D 4 ALA A 199 LEU A 204 -1 O ILE A 202 N LEU A 176 SHEET 4 D 4 VAL A 211 ILE A 218 -1 O SER A 216 N VAL A 201 SHEET 1 E 4 MET A 223 TYR A 232 0 SHEET 2 E 4 THR A 235 ILE A 242 -1 O TYR A 237 N HIS A 230 SHEET 3 E 4 ILE A 257 SER A 262 -1 O SER A 262 N TYR A 236 SHEET 4 E 4 THR A 270 LEU A 276 -1 O ARG A 272 N TYR A 259 SHEET 1 F 3 HIS A 291 PHE A 296 0 SHEET 2 F 3 GLU A 299 ALA A 306 -1 O TYR A 301 N PHE A 294 SHEET 3 F 3 SER A 322 LYS A 327 -1 O HIS A 324 N TYR A 304 SHEET 1 G 4 VAL A 358 GLU A 359 0 SHEET 2 G 4 ASN A 478 GLN A 486 -1 O TRP A 482 N VAL A 358 SHEET 3 G 4 ALA A 407 SER A 416 -1 N ASN A 413 O TYR A 481 SHEET 4 G 4 GLY A 444 ALA A 454 -1 O THR A 453 N PHE A 410 SHEET 1 H 5 TRP A 365 GLY A 367 0 SHEET 2 H 5 TRP A 394 ASP A 401 -1 O ALA A 396 N TRP A 365 SHEET 3 H 5 VAL A 461 THR A 469 -1 O PHE A 466 N ILE A 395 SHEET 4 H 5 GLY A 420 LEU A 426 -1 N ARG A 425 O PHE A 465 SHEET 5 H 5 LEU A 433 VAL A 439 -1 O VAL A 434 N VAL A 424 SHEET 1 I 2 LEU A 370 LYS A 373 0 SHEET 2 I 2 GLN A 384 THR A 387 -1 O THR A 387 N LEU A 370 LINK O4 XYP B 1 C1 XYP B 2 1555 1555 1.56 LINK O4 XYP B 2 C1 XYP B 3 1555 1555 1.55 LINK O4 XYP B 3 C1 XYP B 4 1555 1555 1.64 LINK NE2 HIS A 290 NA NA A1143 1555 1555 2.48 LINK OE1 GLU A 359 CA CA A1141 1555 1555 2.19 LINK OE1 GLU A 361 CA CA A1141 1555 1555 2.43 LINK OE2 GLU A 361 CA CA A1141 1555 1555 2.48 LINK O ARG A 368 NA NA A1142 1555 1555 2.32 LINK OD1 ASN A 383 CA CA A1141 1555 1555 2.38 LINK O GLN A 384 CA CA A1141 1555 1555 2.35 LINK O SER A 388 NA NA A1142 1555 1555 2.35 LINK OE1 GLN A 390 NA NA A1142 1555 1555 2.31 LINK OD2 ASP A 393 NA NA A1142 1555 1555 2.26 LINK O ASP A 480 CA CA A1141 1555 1555 2.46 LINK OD1 ASP A 480 CA CA A1141 1555 1555 2.39 LINK NA NA A1142 O HOH A1927 1555 1555 2.61 LINK NA NA A1142 O HOH A1973 1555 1555 2.68 LINK NA NA A1143 O HOH A1735 1555 1555 2.24 LINK NA NA A1143 O HOH A1777 1555 1555 2.02 LINK NA NA A1143 O HOH A1913 1555 1555 2.76 LINK NA NA A1143 O HOH A2167 1555 1555 2.38 LINK NA NA A1143 O HOH A2168 1555 1555 2.44 LINK NA NA A1143 O HOH A2169 1555 1555 2.73 CISPEP 1 ASN A 14 PRO A 15 0 -11.14 CISPEP 2 ASN A 85 GLY A 86 0 -22.55 CISPEP 3 GLY A 86 ALA A 87 0 3.17 CISPEP 4 ALA A 87 ASN A 88 0 -22.85 CISPEP 5 GLY A 137 PRO A 138 0 -0.13 CISPEP 6 GLY A 267 PRO A 268 0 4.25 CISPEP 7 GLY A 285 GLY A 286 0 24.89 CISPEP 8 GLY A 367 ARG A 368 0 -14.50 CISPEP 9 THR A 473 GLY A 474 0 16.52 CISPEP 10 GLN A 486 ARG A 487 0 25.40 CRYST1 67.523 72.401 106.869 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014810 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013812 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009357 0.00000