HEADER HYDROLASE 29-MAY-13 4BQ1 TITLE CRYSTAL STRUCTURE OF OF LAMACAT FROM ZOBELLIA GALACTANIVORANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,3-BETA-GLUCANASE, FAMILY GH16; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 136-383; COMPND 5 EC: 3.2.1.39; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZOBELLIA GALACTANIVORANS; SOURCE 3 ORGANISM_TAXID: 63186; SOURCE 4 STRAIN: DSIJT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PFO4; SOURCE 10 OTHER_DETAILS: GERMAN COLLECTION OF MICROORGANISMS (DSM) AND INHOUSE SOURCE 11 AT ROSCOFF COLLECTION. KEYWDS MARINE LAMINARINASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.LABOUREL,M.JAM,A.JEUDY,G.MICHEL,M.CZJZEK REVDAT 6 20-DEC-23 4BQ1 1 REMARK LINK REVDAT 5 08-MAY-19 4BQ1 1 REMARK REVDAT 4 03-APR-19 4BQ1 1 REMARK REVDAT 3 05-FEB-14 4BQ1 1 JRNL REVDAT 2 25-DEC-13 4BQ1 1 JRNL REVDAT 1 18-DEC-13 4BQ1 0 JRNL AUTH A.LABOUREL,M.JAM,A.JEUDY,J.H.HEHEMANN,M.CZJZEK,G.MICHEL JRNL TITL THE BETA GLUCANASE ZGLAMA FROM ZOBELLIA GALACTANIVORANS JRNL TITL 2 EVOLVED A BENT ACTIVE SITE ADAPTED FOR EFFICIENT DEGRADATION JRNL TITL 3 OF ALGAL LAMINARIN JRNL REF J.BIOL.CHEM. V. 289 2027 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 24337571 JRNL DOI 10.1074/JBC.M113.538843 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 74179 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) : 0.139 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3929 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5145 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1870 REMARK 3 BIN FREE R VALUE SET COUNT : 273 REMARK 3 BIN FREE R VALUE : 0.2330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4050 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 526 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.36000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : -0.96000 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): 0.079 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.064 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.037 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.163 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4235 ; 0.028 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5776 ; 2.290 ; 1.920 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 518 ; 7.534 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 227 ;35.541 ;25.242 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 651 ;12.705 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;27.510 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 587 ; 0.242 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3380 ; 0.016 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 4235 ; 9.749 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 137 ;19.255 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4495 ;11.660 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 140 A 380 5 REMARK 3 1 B 140 B 380 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 955 ; 0.20 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 955 ; 0.20 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 953 ; 0.48 ; 5.00 REMARK 3 LOOSE POSITIONAL 1 B (A): 953 ; 0.48 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 955 ; 5.78 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 955 ; 5.78 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 953 ; 6.44 ; 10.00 REMARK 3 LOOSE THERMAL 1 B (A**2): 953 ; 6.44 ; 10.00 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 133 A 383 REMARK 3 ORIGIN FOR THE GROUP (A): 3.4827 20.3822 30.0626 REMARK 3 T TENSOR REMARK 3 T11: 0.0005 T22: 0.0031 REMARK 3 T33: 0.0014 T12: -0.0003 REMARK 3 T13: -0.0001 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.0092 L22: 0.0116 REMARK 3 L33: 0.0094 L12: -0.0022 REMARK 3 L13: 0.0039 L23: -0.0008 REMARK 3 S TENSOR REMARK 3 S11: -0.0001 S12: 0.0001 S13: -0.0003 REMARK 3 S21: 0.0008 S22: 0.0006 S23: -0.0006 REMARK 3 S31: -0.0017 S32: 0.0007 S33: -0.0005 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 133 B 383 REMARK 3 ORIGIN FOR THE GROUP (A): -5.4068 39.3161 -4.1401 REMARK 3 T TENSOR REMARK 3 T11: 0.0025 T22: 0.0019 REMARK 3 T33: 0.0009 T12: -0.0005 REMARK 3 T13: -0.0002 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.0167 L22: 0.0013 REMARK 3 L33: 0.0307 L12: -0.0011 REMARK 3 L13: -0.0065 L23: -0.0051 REMARK 3 S TENSOR REMARK 3 S11: 0.0021 S12: 0.0008 S13: -0.0002 REMARK 3 S21: 0.0011 S22: -0.0012 S23: 0.0002 REMARK 3 S31: -0.0070 S32: 0.0004 S33: -0.0009 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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. HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT. U REMARK 3 VALUES WITH TLS ADDED. REMARK 4 REMARK 4 4BQ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1290057061. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979150 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 86903 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 47.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3ILN REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MONO-CRYSTALS WERE GROWN AT 4 DEGREE REMARK 280 CELSIUS IN HANGING DROPS COMPOSED OF 2 MICROL OF ENZYME AT 10 REMARK 280 MG.ML-1 AND 2 MICROL OF RESERVOIR SOLUTION CONTAINING 24% PEG REMARK 280 3350 AND 100 MM NA CITRATE PH 5.2, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 22.27950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.05950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.28200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.05950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.27950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.28200 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 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 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 HIS A 128 REMARK 465 HIS A 129 REMARK 465 HIS A 130 REMARK 465 HIS A 131 REMARK 465 HIS A 132 REMARK 465 HIS B 128 REMARK 465 HIS B 129 REMARK 465 HIS B 130 REMARK 465 HIS B 131 REMARK 465 HIS B 132 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 2118 O HOH A 2121 2.14 REMARK 500 NZ LYS A 338 O HOH A 2276 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 147 CG GLU A 147 CD -0.303 REMARK 500 GLU A 281 CG GLU A 281 CD -0.101 REMARK 500 SER A 282 CB SER A 282 OG -0.138 REMARK 500 THR A 343 CB THR A 343 CG2 -0.216 REMARK 500 SER B 135 C ALA B 136 N -0.146 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 ASP A 144 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 228 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 MET A 325 CG - SD - CE ANGL. DEV. = -17.6 DEGREES REMARK 500 ARG B 180 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 LEU B 300 CA - CB - CG ANGL. DEV. = 14.1 DEGREES REMARK 500 TYR B 335 CG - CD1 - CE1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG B 380 NE - CZ - NH2 ANGL. DEV. = -4.2 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 GLU A 147 48.36 -103.56 REMARK 500 TYR A 222 155.73 72.42 REMARK 500 ASN A 261 76.19 -152.89 REMARK 500 ASP A 330 -121.50 53.12 REMARK 500 PRO A 344 39.05 -88.95 REMARK 500 PHE B 218 129.33 -170.80 REMARK 500 TYR B 222 151.23 74.75 REMARK 500 ASN B 261 78.27 -153.85 REMARK 500 ASP B 330 -125.61 54.33 REMARK 500 THR B 370 -72.27 -100.07 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 GLN A 175 HIS A 176 149.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2056 DISTANCE = 6.80 ANGSTROMS 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 CA A 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 145 O REMARK 620 2 GLY A 189 O 97.5 REMARK 620 3 ASP A 377 O 85.9 103.5 REMARK 620 4 ASP A 377 OD1 166.3 90.5 81.4 REMARK 620 5 HOH A2013 O 90.6 90.3 166.1 100.4 REMARK 620 6 HOH A2014 O 91.7 159.1 95.7 84.5 70.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 145 O REMARK 620 2 GLY B 189 O 91.5 REMARK 620 3 ASP B 377 O 79.6 104.1 REMARK 620 4 ASP B 377 OD1 164.2 92.9 84.6 REMARK 620 5 HOH B2011 O 90.1 160.7 95.1 90.7 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4BOW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LAMA_E269S FROM Z. GALACTANIVORANS IN COMPLEX REMARK 900 WITH LAMINARITRIOSE AND LAMINARITETRAOSE REMARK 900 RELATED ID: 4BPZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LAMA_E269S FROM ZOBELLIA GALACTANIVORANS IN REMARK 900 COMPLEX WITH A TRISACCHARIDE OF 1,3 -1,4-BETA-D-GLUCAN. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCTION CONTAINS THE CATALYTIC MODULE ONLY. THE N- REMARK 999 TERMINAL PKD-MODULE HAS NOT BEEN CLONED. DBREF 4BQ1 A 136 383 UNP G0L5X4 G0L5X4_ZOBGA 136 383 DBREF 4BQ1 B 136 383 UNP G0L5X4 G0L5X4_ZOBGA 136 383 SEQADV 4BQ1 HIS A 128 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS A 129 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS A 130 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS A 131 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS A 132 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS A 133 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 GLY A 134 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 SER A 135 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 128 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 129 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 130 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 131 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 132 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 HIS B 133 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 GLY B 134 UNP G0L5X4 EXPRESSION TAG SEQADV 4BQ1 SER B 135 UNP G0L5X4 EXPRESSION TAG SEQRES 1 A 256 HIS HIS HIS HIS HIS HIS GLY SER ALA PHE ASN THR LEU SEQRES 2 A 256 VAL PHE SER ASP GLU PHE GLU TYR GLU GLY LYS PRO ASP SEQRES 3 A 256 PRO GLU LYS TRP HIS TYR GLN VAL ILE PRO PRO ASN ASN SEQRES 4 A 256 GLY SER TRP HIS ASN ASN GLU LEU GLN HIS TYR THR ASN SEQRES 5 A 256 ARG SER GLU ASN SER PHE VAL SER ASP GLY THR LEU LYS SEQRES 6 A 256 ILE ARG ALA ILE LYS GLU LYS TYR THR PHE GLU GLY SER SEQRES 7 A 256 THR LYS ASP TYR THR SER ALA ARG LEU ASN SER LYS PHE SEQRES 8 A 256 ALA PHE THR TYR GLY LYS VAL GLU VAL ARG ALA LYS LEU SEQRES 9 A 256 PRO SER LYS LYS GLY THR TRP PRO ALA ILE TRP THR LEU SEQRES 10 A 256 GLY ALA ASN SER ASN GLU THR GLY ASN TYR PHE GLY GLU SEQRES 11 A 256 GLN TYR GLY ASN ALA GLU TRP PRO ALA CYS GLY GLU ILE SEQRES 12 A 256 ASP ILE LEU GLU GLN ASN GLY TRP ASP LYS GLU SER THR SEQRES 13 A 256 ILE ALA HIS PHE HIS TRP SER ASP LEU ASN SER ASP GLU SEQRES 14 A 256 TYR GLN ASN LEU GLY GLY THR THR PRO ILE THR ASN ALA SEQRES 15 A 256 SER GLY SER PHE HIS VAL TYR SER LEU GLU TRP ASN ALA SEQRES 16 A 256 SER ALA MET LYS VAL PHE LEU ASP ASP THR LEU VAL TYR SEQRES 17 A 256 GLU LEU LYS ASN SER GLN ASN THR PRO TYR ASN ALA PRO SEQRES 18 A 256 HIS TYR LEU LEU LEU ASN ILE ALA MET GLY GLY THR LEU SEQRES 19 A 256 GLY GLY ASP ILE PRO GLU ASN PHE THR ASP ASP ILE PHE SEQRES 20 A 256 GLU ILE ASP TYR VAL ARG ILE TYR GLN SEQRES 1 B 256 HIS HIS HIS HIS HIS HIS GLY SER ALA PHE ASN THR LEU SEQRES 2 B 256 VAL PHE SER ASP GLU PHE GLU TYR GLU GLY LYS PRO ASP SEQRES 3 B 256 PRO GLU LYS TRP HIS TYR GLN VAL ILE PRO PRO ASN ASN SEQRES 4 B 256 GLY SER TRP HIS ASN ASN GLU LEU GLN HIS TYR THR ASN SEQRES 5 B 256 ARG SER GLU ASN SER PHE VAL SER ASP GLY THR LEU LYS SEQRES 6 B 256 ILE ARG ALA ILE LYS GLU LYS TYR THR PHE GLU GLY SER SEQRES 7 B 256 THR LYS ASP TYR THR SER ALA ARG LEU ASN SER LYS PHE SEQRES 8 B 256 ALA PHE THR TYR GLY LYS VAL GLU VAL ARG ALA LYS LEU SEQRES 9 B 256 PRO SER LYS LYS GLY THR TRP PRO ALA ILE TRP THR LEU SEQRES 10 B 256 GLY ALA ASN SER ASN GLU THR GLY ASN TYR PHE GLY GLU SEQRES 11 B 256 GLN TYR GLY ASN ALA GLU TRP PRO ALA CYS GLY GLU ILE SEQRES 12 B 256 ASP ILE LEU GLU GLN ASN GLY TRP ASP LYS GLU SER THR SEQRES 13 B 256 ILE ALA HIS PHE HIS TRP SER ASP LEU ASN SER ASP GLU SEQRES 14 B 256 TYR GLN ASN LEU GLY GLY THR THR PRO ILE THR ASN ALA SEQRES 15 B 256 SER GLY SER PHE HIS VAL TYR SER LEU GLU TRP ASN ALA SEQRES 16 B 256 SER ALA MET LYS VAL PHE LEU ASP ASP THR LEU VAL TYR SEQRES 17 B 256 GLU LEU LYS ASN SER GLN ASN THR PRO TYR ASN ALA PRO SEQRES 18 B 256 HIS TYR LEU LEU LEU ASN ILE ALA MET GLY GLY THR LEU SEQRES 19 B 256 GLY GLY ASP ILE PRO GLU ASN PHE THR ASP ASP ILE PHE SEQRES 20 B 256 GLU ILE ASP TYR VAL ARG ILE TYR GLN HET CA A 400 1 HET GOL A 401 6 HET CA B 400 1 HET GOL B 401 6 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CA 2(CA 2+) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 7 HOH *526(H2 O) HELIX 1 1 GLY A 358 GLY A 363 1 6 HELIX 2 2 GLY B 358 GLY B 363 1 6 SHEET 1 AA 2 THR A 139 ASP A 144 0 SHEET 2 AA 2 ASP A 371 GLN A 383 -1 O VAL A 379 N ASP A 144 SHEET 1 AB 8 GLN A 175 TYR A 177 0 SHEET 2 AB 8 SER A 205 SER A 211 1 O TYR A 209 N HIS A 176 SHEET 3 AB 8 THR A 190 PHE A 202 -1 O ILE A 196 N THR A 210 SHEET 4 AB 8 ASP A 371 GLN A 383 -1 O ASP A 372 N ALA A 195 SHEET 5 AB 8 GLY A 223 LYS A 230 -1 O LYS A 224 N TYR A 382 SHEET 6 AB 8 HIS A 314 TRP A 320 -1 O HIS A 314 N ALA A 229 SHEET 7 AB 8 ALA A 324 LEU A 329 -1 O LYS A 326 N GLU A 319 SHEET 8 AB 8 THR A 332 LYS A 338 -1 O THR A 332 N LEU A 329 SHEET 1 AC 4 GLN A 175 TYR A 177 0 SHEET 2 AC 4 SER A 205 SER A 211 1 O TYR A 209 N HIS A 176 SHEET 3 AC 4 THR A 190 PHE A 202 -1 O ILE A 196 N THR A 210 SHEET 4 AC 4 SER A 184 SER A 187 1 O PHE A 185 N LYS A 192 SHEET 1 AD 7 TRP A 157 TYR A 159 0 SHEET 2 AD 7 ARG A 213 PHE A 220 -1 O ASN A 215 N HIS A 158 SHEET 3 AD 7 HIS A 349 MET A 357 -1 O HIS A 349 N PHE A 220 SHEET 4 AD 7 THR A 237 GLY A 245 -1 O TRP A 238 N ALA A 356 SHEET 5 AD 7 GLU A 269 GLU A 274 -1 O ILE A 270 N THR A 243 SHEET 6 AD 7 SER A 282 SER A 290 -1 O ILE A 284 N GLU A 274 SHEET 7 AD 7 TYR A 297 PRO A 305 -1 O GLN A 298 N TRP A 289 SHEET 1 BA 2 THR B 139 ASP B 144 0 SHEET 2 BA 2 ASP B 371 GLN B 383 -1 O VAL B 379 N ASP B 144 SHEET 1 BB 8 GLN B 175 TYR B 177 0 SHEET 2 BB 8 SER B 205 SER B 211 1 O TYR B 209 N HIS B 176 SHEET 3 BB 8 THR B 190 PHE B 202 -1 O ILE B 196 N THR B 210 SHEET 4 BB 8 ASP B 371 GLN B 383 -1 O ASP B 372 N ALA B 195 SHEET 5 BB 8 GLY B 223 LYS B 230 -1 O LYS B 224 N TYR B 382 SHEET 6 BB 8 HIS B 314 TRP B 320 -1 O HIS B 314 N ALA B 229 SHEET 7 BB 8 ALA B 324 LEU B 329 -1 O LYS B 326 N GLU B 319 SHEET 8 BB 8 THR B 332 LYS B 338 -1 O THR B 332 N LEU B 329 SHEET 1 BC 4 GLN B 175 TYR B 177 0 SHEET 2 BC 4 SER B 205 SER B 211 1 O TYR B 209 N HIS B 176 SHEET 3 BC 4 THR B 190 PHE B 202 -1 O ILE B 196 N THR B 210 SHEET 4 BC 4 SER B 184 SER B 187 1 O PHE B 185 N LYS B 192 SHEET 1 BD 7 TRP B 157 GLN B 160 0 SHEET 2 BD 7 ARG B 213 PHE B 220 -1 O ARG B 213 N GLN B 160 SHEET 3 BD 7 HIS B 349 MET B 357 -1 O HIS B 349 N PHE B 220 SHEET 4 BD 7 THR B 237 GLY B 245 -1 O TRP B 238 N ALA B 356 SHEET 5 BD 7 GLU B 269 GLU B 274 -1 O ILE B 270 N THR B 243 SHEET 6 BD 7 SER B 282 SER B 290 -1 O ILE B 284 N GLU B 274 SHEET 7 BD 7 TYR B 297 PRO B 305 -1 O GLN B 298 N TRP B 289 LINK O GLU A 145 CA CA A 400 1555 1555 2.31 LINK O GLY A 189 CA CA A 400 1555 1555 2.26 LINK O ASP A 377 CA CA A 400 1555 1555 2.31 LINK OD1 ASP A 377 CA CA A 400 1555 1555 2.38 LINK CA CA A 400 O HOH A2013 1555 1555 2.36 LINK CA CA A 400 O HOH A2014 1555 1555 2.45 LINK O GLU B 145 CA CA B 400 1555 1555 2.35 LINK O GLY B 189 CA CA B 400 1555 1555 2.31 LINK O ASP B 377 CA CA B 400 1555 1555 2.28 LINK OD1 ASP B 377 CA CA B 400 1555 1555 2.29 LINK CA CA B 400 O HOH B2011 1555 1555 2.48 CISPEP 1 TRP A 264 PRO A 265 0 16.15 CISPEP 2 TRP B 264 PRO B 265 0 9.60 SITE 1 AC1 5 GLU A 145 GLY A 189 ASP A 377 HOH A2013 SITE 2 AC1 5 HOH A2014 SITE 1 AC2 11 ASN A 171 TRP A 238 ALA A 240 TRP A 242 SITE 2 AC2 11 GLU A 269 ASP A 271 GLU A 274 HOH A2068 SITE 3 AC2 11 HOH A2168 HOH A2209 HOH A2312 SITE 1 AC3 4 GLU B 145 GLY B 189 ASP B 377 HOH B2011 SITE 1 AC4 12 ASN B 171 TRP B 238 ALA B 240 TRP B 242 SITE 2 AC4 12 GLU B 269 ASP B 271 GLU B 274 HOH B2046 SITE 3 AC4 12 HOH B2051 HOH B2085 HOH B2112 HOH B2214 CRYST1 44.559 76.564 142.119 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 0.022442 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013061 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007036 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.749431 -0.295660 -0.592400 16.71359 1 MTRIX2 2 -0.270280 -0.953423 0.133918 56.94989 1 MTRIX3 2 -0.604401 0.059752 -0.794436 21.14620 1