HEADER HYDROLASE 27-OCT-14 4D4B TITLE THE CATALYTIC DOMAIN, BCGH76, OF BACILLUS CIRCULANS AMAN6 IN COMPLEX TITLE 2 WITH MSMSME COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-1,6-MANNANASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 35-375; COMPND 5 EC: 3.2.1.101; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS CIRCULANS; SOURCE 3 ORGANISM_TAXID: 1397; SOURCE 4 STRAIN: TN31; SOURCE 5 ATCC: 29101; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: TUNER; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS HYDROLASE, GLYCOSIDE HYDROLASE, GH76, CAZY, MANNAN, ENZYME- KEYWDS 2 CARBOHYDRATE INTERACTION, GLYCOSIDASE INHIBITION, QUANTUM MECHANICS, KEYWDS 3 TRANSITION STATE EXPDTA X-RAY DIFFRACTION AUTHOR A.J.THOMPSON,G.SPECIALE,J.IGLESIAS-FERNANDEZ,Z.HAKKI,T.BELZ, AUTHOR 2 A.CARTMELL,R.J.SPEARS,J.STEPPER,H.J.GILBERT,C.ROVIRA,S.J.WILLIAMS, AUTHOR 3 G.J.DAVIES REVDAT 4 01-MAY-24 4D4B 1 HETSYN REVDAT 3 29-JUL-20 4D4B 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 06-MAY-15 4D4B 1 JRNL REVDAT 1 25-MAR-15 4D4B 0 JRNL AUTH A.J.THOMPSON,G.SPECIALE,J.IGLESIAS-FERNANDEZ,Z.HAKKI,T.BELZ, JRNL AUTH 2 A.CARTMELL,R.J.SPEARS,E.CHANDLER,M.J.TEMPLE,J.STEPPER, JRNL AUTH 3 H.J.GILBERT,C.ROVIRA,S.J.WILLIAMS,G.J.DAVIES JRNL TITL EVIDENCE FOR A BOAT CONFORMATION AT THE TRANSITION STATE OF JRNL TITL 2 GH76 ALPHA-1,6-MANNANASES- KEY ENZYMES IN BACTERIAL AND JRNL TITL 3 FUNGAL MANNOPROTEIN METABOLISM JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 54 5378 2015 JRNL REFN ISSN 1433-7851 JRNL PMID 25772148 JRNL DOI 10.1002/ANIE.201410502 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 170002 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) : 0.122 REMARK 3 R VALUE (WORKING SET) : 0.121 REMARK 3 FREE R VALUE : 0.152 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 8695 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 12450 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 649 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5382 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 1035 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : 0.07000 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): 0.039 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.039 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.025 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.341 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.984 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.978 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5722 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5010 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7817 ; 1.386 ; 1.902 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11518 ; 0.860 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 712 ; 5.679 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 304 ;37.601 ;25.197 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 852 ;11.548 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;25.646 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 809 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6703 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1452 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2572 ; 0.269 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4953 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2907 ; 0.190 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2280 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 153 ; 0.125 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 2 ; 0.118 ; 0.200 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): 113 ; 0.358 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 100 ; 0.321 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.237 ; 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): 2747 ; 2.048 ; 1.943 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2747 ; 2.048 ; 1.943 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3436 ; 2.462 ; 2.919 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2975 ; 2.761 ; 2.160 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4361 ; 3.142 ; 3.156 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): 10732 ; 2.535 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 254 ;36.348 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 11329 ;12.137 ; 5.000 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. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 4D4B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1290062155. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979490 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 178799 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 43.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.700 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.80 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.40 REMARK 200 R MERGE FOR SHELL (I) : 1.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: PREVIOUSLY SOLVED NATIVE APO STRUCTURE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M AMMONIUM NITRATE, PH 6.5, 20% REMARK 280 PEG 3350 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 41.77500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.00150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.61300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.00150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.77500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.61300 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, C 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, D 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 14 REMARK 465 GLY A 15 REMARK 465 SER A 16 REMARK 465 SER A 17 REMARK 465 HIS A 18 REMARK 465 HIS A 19 REMARK 465 HIS A 20 REMARK 465 HIS A 21 REMARK 465 HIS A 22 REMARK 465 HIS A 23 REMARK 465 SER A 24 REMARK 465 SER A 25 REMARK 465 GLY A 26 REMARK 465 LEU A 27 REMARK 465 GLU A 28 REMARK 465 VAL A 29 REMARK 465 LEU A 30 REMARK 465 PHE A 31 REMARK 465 GLN A 32 REMARK 465 GLY A 33 REMARK 465 PRO A 34 REMARK 465 ALA A 35 REMARK 465 TYR A 36 REMARK 465 THR A 37 REMARK 465 ALA A 38 REMARK 465 LEU A 355 REMARK 465 LEU A 356 REMARK 465 SER A 357 REMARK 465 ILE A 375 REMARK 465 MET B 14 REMARK 465 GLY B 15 REMARK 465 SER B 16 REMARK 465 SER B 17 REMARK 465 HIS B 18 REMARK 465 GLY B 26 REMARK 465 LEU B 27 REMARK 465 GLU B 28 REMARK 465 VAL B 29 REMARK 465 LEU B 30 REMARK 465 PHE B 31 REMARK 465 GLN B 32 REMARK 465 GLY B 33 REMARK 465 PRO B 34 REMARK 465 ALA B 35 REMARK 465 TYR B 36 REMARK 465 THR B 37 REMARK 465 ALA B 38 REMARK 465 ILE B 375 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 SER A 39 OG REMARK 470 GLU A 147 CG CD OE1 OE2 REMARK 470 ARG A 150 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 321 CG CD OE1 OE2 REMARK 470 GLU A 325 CG CD OE1 OE2 REMARK 470 GLN A 354 CG CD OE1 NE2 REMARK 470 SER B 25 OG REMARK 470 GLN B 115 CG CD OE1 NE2 REMARK 470 GLU B 147 CG CD OE1 OE2 REMARK 470 ARG B 150 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 321 CG CD OE1 OE2 REMARK 470 GLU B 335 CG CD OE1 OE2 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 B 2210 O HOH B 2378 1.46 REMARK 500 O HOH B 2450 O HOH B 2451 1.70 REMARK 500 O HOH B 2213 O HOH B 2217 2.01 REMARK 500 NZ LYS B 95 O HOH B 2129 2.06 REMARK 500 O HOH A 2116 O HOH A 2265 2.12 REMARK 500 CE MET B 59 O HOH B 2055 2.16 REMARK 500 O HOH A 2134 O HOH A 2145 2.16 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 2363 O HOH A 2410 4445 2.07 REMARK 500 OH TYR A 137 OG SER B 339 4445 2.14 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 SER A 175 -77.19 -83.60 REMARK 500 HIS A 234 -56.63 -130.50 REMARK 500 SER B 175 -80.44 -86.99 REMARK 500 HIS B 234 -67.27 -149.52 REMARK 500 LEU B 279 44.53 -99.41 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 LEU B 355 LEU B 356 137.40 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 A2084 DISTANCE = 7.14 ANGSTROMS REMARK 525 HOH A2112 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH A2164 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A2170 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH B2141 DISTANCE = 6.74 ANGSTROMS REMARK 525 HOH B2158 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH B2250 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH B2263 DISTANCE = 5.81 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4D4A RELATED DB: PDB REMARK 900 STRUCTURE OF THE CATALYTIC DOMAIN (BCGH76) OF THE BACILLUS REMARK 900 CIRCULANS GH76 ALPHA MANNANASE, AMAN6. REMARK 900 RELATED ID: 4D4C RELATED DB: PDB REMARK 900 THE CATALYTIC DOMAIN, BCGH76, OF BACILLUS CIRCULANS AMAN6 IN REMARK 900 COMPLEX WITH 1,6-MANDMJ REMARK 900 RELATED ID: 4D4D RELATED DB: PDB REMARK 900 THE CATALYTIC DOMAIN, BCGH76, OF BACILLUS CIRCULANS AMAN6 IN REMARK 900 COMPLEX WITH 1,6-MANIFG REMARK 900 RELATED ID: 5AGD RELATED DB: PDB REMARK 900 AN INACTIVE (D125N) VARIANT OF THE CATALYTIC DOMAIN, BCGH76, OF REMARK 900 BACILLUS CIRCULANS AMAN6 IN COMPLEX WITH ALPHA-1,6-MANNOPENTAOSE DBREF 4D4B A 35 375 UNP Q9Z4P9 Q9Z4P9_BACCI 35 375 DBREF 4D4B B 35 375 UNP Q9Z4P9 Q9Z4P9_BACCI 35 375 SEQADV 4D4B MET A 14 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY A 15 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER A 16 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER A 17 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 18 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 19 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 20 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 21 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 22 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS A 23 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER A 24 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER A 25 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY A 26 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B LEU A 27 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLU A 28 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B VAL A 29 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B LEU A 30 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B PHE A 31 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLN A 32 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY A 33 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B PRO A 34 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLN A 341 UNP Q9Z4P9 ARG 341 ENGINEERED MUTATION SEQADV 4D4B MET B 14 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY B 15 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER B 16 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER B 17 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 18 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 19 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 20 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 21 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 22 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B HIS B 23 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER B 24 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B SER B 25 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY B 26 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B LEU B 27 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLU B 28 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B VAL B 29 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B LEU B 30 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B PHE B 31 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLN B 32 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLY B 33 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B PRO B 34 UNP Q9Z4P9 EXPRESSION TAG SEQADV 4D4B GLN B 341 UNP Q9Z4P9 ARG 341 ENGINEERED MUTATION SEQRES 1 A 362 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 362 LEU GLU VAL LEU PHE GLN GLY PRO ALA TYR THR ALA SER SEQRES 3 A 362 ASP GLY ASP THR ALA MET LYS ALA PHE ASN ASP THR PHE SEQRES 4 A 362 TRP ASP PRO ASN ALA LYS MET PHE TRP LYS ASP SER LYS SEQRES 5 A 362 ARG GLU LYS HIS GLN ASP PHE TRP VAL GLU ALA GLU LEU SEQRES 6 A 362 TRP GLU LEU VAL MET ASP ALA TYR GLN HIS THR SER ASP SEQRES 7 A 362 PRO ALA LEU LYS ALA GLU LEU LYS THR GLN ILE ASP ASP SEQRES 8 A 362 VAL TYR ASP GLY THR VAL ALA LYS TYR GLY GLN ASP TRP SEQRES 9 A 362 THR ASN ASN PRO PHE ASN ASP ASP ILE MET TRP TRP ALA SEQRES 10 A 362 MET GLY SER ALA ARG ALA TYR GLN ILE THR GLY ASN PRO SEQRES 11 A 362 ARG TYR LEU GLU ALA ALA ARG ASP HIS PHE ASP PHE VAL SEQRES 12 A 362 TYR ASP THR GLN TRP ASP GLU GLU PHE ALA ASN GLY GLY SEQRES 13 A 362 ILE TRP TRP LEU ASN SER ASP HIS ASN THR LYS ASN ALA SEQRES 14 A 362 CYS ILE ASN PHE PRO ALA ALA GLN ALA ALA LEU TYR LEU SEQRES 15 A 362 TYR ASP ILE THR LYS ASP GLU HIS TYR LEU ASN ALA ALA SEQRES 16 A 362 THR LYS ILE PHE ARG TRP GLY LYS THR MET LEU THR ASP SEQRES 17 A 362 GLY ASN GLY LYS VAL PHE ASP ARG ILE GLU ILE GLU HIS SEQRES 18 A 362 GLY ALA VAL PRO ASP ALA THR HIS TYR ASN GLN GLY THR SEQRES 19 A 362 TYR ILE GLY SER ALA VAL GLY LEU TYR LYS ALA THR GLY SEQRES 20 A 362 ASN ALA VAL TYR LEU ASP ASP ALA VAL LYS ALA ALA LYS SEQRES 21 A 362 PHE THR LYS ASN HIS LEU VAL ASP SER ASN GLY VAL LEU SEQRES 22 A 362 ASN TYR GLU GLY PRO ASN GLY ASP LEU LYS GLY GLY LYS SEQRES 23 A 362 THR ILE LEU MET ARG ASN LEU ALA HIS LEU GLN LYS THR SEQRES 24 A 362 LEU ASP GLU THR GLY GLN TYR PRO GLU PHE SER ALA GLU SEQRES 25 A 362 PHE ASP GLU TRP LEU ALA PHE ASN ILE GLU MET ALA TRP SEQRES 26 A 362 SER HIS GLN ASN SER ASP HIS ILE VAL ASP GLY ASN TRP SEQRES 27 A 362 ALA GLY GLN LEU LEU SER GLY THR TYR GLU SER TRP SER SEQRES 28 A 362 SER ALA ALA ALA VAL GLN ALA LEU ASN GLY ILE SEQRES 1 B 362 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 362 LEU GLU VAL LEU PHE GLN GLY PRO ALA TYR THR ALA SER SEQRES 3 B 362 ASP GLY ASP THR ALA MET LYS ALA PHE ASN ASP THR PHE SEQRES 4 B 362 TRP ASP PRO ASN ALA LYS MET PHE TRP LYS ASP SER LYS SEQRES 5 B 362 ARG GLU LYS HIS GLN ASP PHE TRP VAL GLU ALA GLU LEU SEQRES 6 B 362 TRP GLU LEU VAL MET ASP ALA TYR GLN HIS THR SER ASP SEQRES 7 B 362 PRO ALA LEU LYS ALA GLU LEU LYS THR GLN ILE ASP ASP SEQRES 8 B 362 VAL TYR ASP GLY THR VAL ALA LYS TYR GLY GLN ASP TRP SEQRES 9 B 362 THR ASN ASN PRO PHE ASN ASP ASP ILE MET TRP TRP ALA SEQRES 10 B 362 MET GLY SER ALA ARG ALA TYR GLN ILE THR GLY ASN PRO SEQRES 11 B 362 ARG TYR LEU GLU ALA ALA ARG ASP HIS PHE ASP PHE VAL SEQRES 12 B 362 TYR ASP THR GLN TRP ASP GLU GLU PHE ALA ASN GLY GLY SEQRES 13 B 362 ILE TRP TRP LEU ASN SER ASP HIS ASN THR LYS ASN ALA SEQRES 14 B 362 CYS ILE ASN PHE PRO ALA ALA GLN ALA ALA LEU TYR LEU SEQRES 15 B 362 TYR ASP ILE THR LYS ASP GLU HIS TYR LEU ASN ALA ALA SEQRES 16 B 362 THR LYS ILE PHE ARG TRP GLY LYS THR MET LEU THR ASP SEQRES 17 B 362 GLY ASN GLY LYS VAL PHE ASP ARG ILE GLU ILE GLU HIS SEQRES 18 B 362 GLY ALA VAL PRO ASP ALA THR HIS TYR ASN GLN GLY THR SEQRES 19 B 362 TYR ILE GLY SER ALA VAL GLY LEU TYR LYS ALA THR GLY SEQRES 20 B 362 ASN ALA VAL TYR LEU ASP ASP ALA VAL LYS ALA ALA LYS SEQRES 21 B 362 PHE THR LYS ASN HIS LEU VAL ASP SER ASN GLY VAL LEU SEQRES 22 B 362 ASN TYR GLU GLY PRO ASN GLY ASP LEU LYS GLY GLY LYS SEQRES 23 B 362 THR ILE LEU MET ARG ASN LEU ALA HIS LEU GLN LYS THR SEQRES 24 B 362 LEU ASP GLU THR GLY GLN TYR PRO GLU PHE SER ALA GLU SEQRES 25 B 362 PHE ASP GLU TRP LEU ALA PHE ASN ILE GLU MET ALA TRP SEQRES 26 B 362 SER HIS GLN ASN SER ASP HIS ILE VAL ASP GLY ASN TRP SEQRES 27 B 362 ALA GLY GLN LEU LEU SER GLY THR TYR GLU SER TRP SER SEQRES 28 B 362 SER ALA ALA ALA VAL GLN ALA LEU ASN GLY ILE HET MSX C 1 13 HET MAN C 2 11 HET MSX D 1 13 HET MAN D 2 11 HET EDO A 510 4 HET EDO B 510 4 HETNAM MSX METHYL 1,6-DITHIO-ALPHA-D-MANNOPYRANOSIDE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETSYN MSX 1,6-DIDEOXY-DITHIO-METHYL-ALPHA-D-MANNOSE; METHYL 1,6- HETSYN 2 MSX DITHIO-ALPHA-D-MANNOSIDE; METHYL 1,6-DITHIO-D- HETSYN 3 MSX MANNOSIDE; METHYL 1,6-DITHIO-MANNOSIDE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 MSX 2(C7 H14 O4 S2) FORMUL 3 MAN 2(C6 H12 O6) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *1035(H2 O) HELIX 1 1 SER A 39 PHE A 52 1 14 HELIX 2 2 ASP A 71 THR A 89 1 19 HELIX 3 3 ASP A 91 GLY A 114 1 24 HELIX 4 4 ASP A 116 ASN A 120 5 5 HELIX 5 5 PHE A 122 GLY A 141 1 20 HELIX 6 6 ASN A 142 TRP A 161 1 20 HELIX 7 7 GLU A 164 GLY A 168 5 5 HELIX 8 8 ALA A 182 LYS A 200 1 19 HELIX 9 9 ASP A 201 LEU A 219 1 19 HELIX 10 10 THR A 241 GLY A 260 1 20 HELIX 11 11 ASN A 261 LEU A 279 1 19 HELIX 12 12 GLY A 298 GLY A 317 1 20 HELIX 13 13 TYR A 319 SER A 339 1 21 HELIX 14 14 GLU A 361 LEU A 372 1 12 HELIX 15 15 SER B 39 PHE B 52 1 14 HELIX 16 16 ASP B 71 THR B 89 1 19 HELIX 17 17 ASP B 91 GLY B 114 1 24 HELIX 18 18 PHE B 122 GLY B 141 1 20 HELIX 19 19 ASN B 142 TRP B 161 1 20 HELIX 20 20 ALA B 182 LYS B 200 1 19 HELIX 21 21 ASP B 201 THR B 220 1 20 HELIX 22 22 THR B 241 GLY B 260 1 20 HELIX 23 23 ASN B 261 LEU B 279 1 19 HELIX 24 24 GLY B 298 GLY B 317 1 20 HELIX 25 25 TYR B 319 HIS B 340 1 22 HELIX 26 26 GLU B 361 LEU B 372 1 12 SHEET 1 AA 2 TRP A 53 ASP A 54 0 SHEET 2 AA 2 MET A 59 PHE A 60 -1 O MET A 59 N ASP A 54 SHEET 1 AB 3 THR A 179 ASN A 181 0 SHEET 2 AB 3 ARG A 229 GLU A 231 -1 O ILE A 230 N LYS A 180 SHEET 3 AB 3 GLY A 235 ALA A 236 -1 O GLY A 235 N GLU A 231 SHEET 1 BA 2 TRP B 53 ASP B 54 0 SHEET 2 BA 2 MET B 59 PHE B 60 -1 O MET B 59 N ASP B 54 SHEET 1 BB 3 THR B 179 ASN B 181 0 SHEET 2 BB 3 ARG B 229 GLU B 231 -1 O ILE B 230 N LYS B 180 SHEET 3 BB 3 GLY B 235 ALA B 236 -1 O GLY B 235 N GLU B 231 LINK S MSX C 1 C1 MAN C 2 1555 1555 1.80 LINK S MSX D 1 C1 MAN D 2 1555 1555 1.80 CISPEP 1 GLY A 290 PRO A 291 0 12.15 CISPEP 2 SER B 24 SER B 25 0 24.57 CISPEP 3 GLY B 290 PRO B 291 0 12.14 CRYST1 83.550 85.226 102.003 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 0.011969 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011734 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009804 0.00000