PDB Short entry for 1OB0 HEADER HYDROLASE 21-JAN-03 1OB0 TITLE KINETIC STABILIZATION OF BACILLUS LICHENIFORMIS ALPHA-AMYLASE THROUGH TITLE 2 INTRODUCTION OF HYDROPHOBIC RESIDUES AT THE SURFACE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-AMYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-ALPHA-D-GLUCAN-4-GLUCANOHYDROLASE; COMPND 5 EC: 3.2.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS LICHENIFORMIS; SOURCE 3 ORGANISM_TAXID: 1402; SOURCE 4 EXPRESSION_SYSTEM: BACILLUS SUBTILIS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1423 KEYWDS HYDROLASE, GLYCOSYLTRANSFERASE, STARCH DEGRADATION, THERMOSTABILITY, KEYWDS 2 CALCIUM, SODIUM EXPDTA X-RAY DIFFRACTION AUTHOR M.MACHIUS,N.DECLERCK,R.HUBER,G.WIEGAND REVDAT 5 25-SEP-19 1OB0 1 REMARK REVDAT 4 22-JAN-14 1OB0 1 TITLE KEYWDS REMARK VERSN REVDAT 4 2 1 FORMUL ATOM REVDAT 3 24-FEB-09 1OB0 1 VERSN REVDAT 2 03-APR-03 1OB0 1 JRNL REVDAT 1 30-JAN-03 1OB0 0 JRNL AUTH M.MACHIUS,N.DECLERCK,R.HUBER,G.WIEGAND JRNL TITL KINETIC STABILIZATION OF BACILLUS LICHENIFORMIS JRNL TITL 2 ALPHA-AMYLASE THROUGH INTRODUCTION OF HYDROPHOBIC RESIDUES JRNL TITL 3 AT THE SURFACE JRNL REF J.BIOL.CHEM. V. 278 11546 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12540849 JRNL DOI 10.1074/JBC.M212618200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.Y.HWANG,H.K.SONG,C.CHANG,J.LEE,S.Y.LEE,K.K.KIM,S.CHOE, REMARK 1 AUTH 2 R.M.SWEET,S.W.SUH REMARK 1 TITL CRYSTAL STRUCTURE OF THERMOSTABLE ALPHA-AMYLASE FROM REMARK 1 TITL 2 BACILLUS LICHENIFORMIS REFINED AT 1.7 A RESOLUTION REMARK 1 REF MOL.CELLS V. 7 251 1997 REMARK 1 REFN ISSN 1016-8478 REMARK 1 PMID 9163741 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.MACHIUS,N.DECLERCK,R.HUBER,G.WIEGAND REMARK 1 TITL ACTIVATION OF BACILLUS LICHENIFORMIS ALPHA-AMYLASE THROUGH A REMARK 1 TITL 2 DISORDER-->ORDER TRANSITION OF THE SUBSTRATE-BINDING SITE REMARK 1 TITL 3 MEDIATED BY A CALCIUM-SODIUM-CALCIUM METAL TRIAD REMARK 1 REF STRUCTURE V. 6 281 1998 REMARK 1 REFN ISSN 0969-2126 REMARK 1 PMID 9551551 REMARK 1 DOI 10.1016/S0969-2126(98)00032-X REMARK 1 REFERENCE 3 REMARK 1 AUTH M.MACHIUS,G.WIEGAND,R.HUBER REMARK 1 TITL CRYSTAL STRUCTURE OF CALCIUM-DEPLETED BACILLUS LICHENIFORMIS REMARK 1 TITL 2 ALPHA-AMYLASE AT 2.2 A RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 246 545 1995 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 7877175 REMARK 1 DOI 10.1006/JMBI.1994.0106 REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 987507.060 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 53205 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 SET) : 0.147 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1448 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.94 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 8072 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE : 0.2230 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 2.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 215 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3909 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 324 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.34000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : 0.69000 REMARK 3 B12 (A**2) : 0.23000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.16 REMARK 3 ESD FROM SIGMAA (A) : 0.14 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.16 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.15 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.840 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.150 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.660 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.040 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.140 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 48.39 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OB0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-03. REMARK 100 THE DEPOSITION ID IS D_1290011966. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-97 REMARK 200 TEMPERATURE (KELVIN) : 278.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : BEAM FOCUSSING MIRROR SYSTEM REMARK 200 (MSC, USA) REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55286 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 25.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1BPL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLIZED BY VAPOR REMARK 280 DIFFUSION FROM DROPS CONTAINING 4 UL OF PROTEIN SOLUTION (10 MG/ REMARK 280 ML IN 50 MM TRIS/HCL, PH 8.0) PLUS 4 UL OF RESERVOIR SOLUTION REMARK 280 (50 MM HEPES, 1 M AMMONIUM SULFATE, 1% (V/V) PEG 500, PH 7.0) REMARK 280 EQUILIBRATED AGAINST 1 ML OF RESERVOIR SOLUTION., PH 7.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.82200 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 91.64400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 68.73300 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 114.55500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 22.91100 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 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 400 REMARK 400 COMPOUND REMARK 400 CATALYSES ENDOHYDROLYSIS OF 1,4-ALPHA-GLUCOSIDIC REMARK 400 LINKAGES IN OLIGOSACCHARIDES AND POLYSACCHARIDES. REMARK 400 PRIMARILY USED IN THE FOOD INDUSTRY FOR HIGH TEMPERATURE REMARK 400 LIQUEFACTION OF STARCH-CONTAINING MASHES AND IN THE REMARK 400 DETERGENT INDUSTRY TO REMOVE STARCH. REMARK 400 ACTIVE AT RELATIVELY HIGH PH VALUES (UP TO PH 11) REMARK 400 AND AT HIGH TEMPERATURES (UP TO 100 DEGREE REMARK 400 CELSIUS). REMARK 400 ENGINEERED RESIDUES HIS (133) VAL REMARK 400 ASN (190) PHE REMARK 400 ALA (209) VAL REMARK 400 GLN (264) SER REMARK 400 ASN (265) TYR 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 ALA A 1 REMARK 465 ASN A 2 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 GLY A 57 C GLY A 57 O 0.172 REMARK 500 GLY A 57 C ALA A 58 N 0.175 REMARK 500 GLU A 185 C VAL A 186 N 0.178 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 GLY A 57 O - C - N ANGL. DEV. = 21.3 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 PHE A 11 162.71 178.61 REMARK 500 ALA A 58 87.95 30.89 REMARK 500 ALA A 58 87.95 -31.61 REMARK 500 LEU A 64 42.24 -91.96 REMARK 500 TYR A 150 -34.24 75.64 REMARK 500 TYR A 198 -147.96 52.09 REMARK 500 SER A 337 53.81 -166.88 REMARK 500 PHE A 403 64.46 -118.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 195 0.09 SIDE CHAIN 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 GLU A 465 -16.47 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 CA A 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 194 OD1 REMARK 620 2 ASP A 194 O 80.8 REMARK 620 3 ASP A 200 OD1 112.7 78.3 REMARK 620 4 ASP A 200 OD2 69.3 84.8 45.7 REMARK 620 5 HOH A2060 O 98.4 161.3 84.9 77.6 REMARK 620 6 HIS A 235 O 80.3 90.7 161.0 149.6 107.6 REMARK 620 7 ASN A 104 OD1 161.7 102.4 85.6 128.8 84.3 81.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 161 OD1 REMARK 620 2 ALA A 181 O 87.5 REMARK 620 3 ASP A 183 OD1 81.0 109.5 REMARK 620 4 ASP A 204 OD1 157.8 93.8 77.7 REMARK 620 5 HOH A2122 O 124.9 82.6 152.8 77.2 REMARK 620 6 ASP A 161 OD2 50.3 83.1 129.8 151.8 74.6 REMARK 620 7 ASP A 202 OD2 91.2 160.2 89.7 94.8 82.0 80.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 302 O REMARK 620 2 HIS A 406 O 78.8 REMARK 620 3 ASP A 430 OD1 117.1 96.1 REMARK 620 4 GLY A 300 O 105.2 157.3 101.6 REMARK 620 5 ASP A 430 OD2 81.6 124.1 49.9 78.5 REMARK 620 6 ASP A 407 OD2 150.5 80.2 85.6 86.9 127.7 REMARK 620 7 HOH A2204 O 76.4 81.5 165.7 77.9 142.0 80.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 194 OD2 REMARK 620 2 ASP A 200 OD2 87.8 REMARK 620 3 ASP A 183 OD2 89.9 151.3 REMARK 620 4 ILE A 201 O 164.4 88.5 86.1 REMARK 620 5 ASP A 161 OD1 87.2 115.5 92.9 108.0 REMARK 620 N 1 2 3 4 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BLI RELATED DB: PDB REMARK 900 BACILLUS LICHENIFORMIS ALPHA-AMYLASE REMARK 900 RELATED ID: 1BPL RELATED DB: PDB REMARK 900 GLYCOSYLTRANSFERASE REMARK 900 RELATED ID: 1E3X RELATED DB: PDB REMARK 900 NATIVE STRUCTURE OF CHIMAERIC AMYLASE FROM B. AMYLOLIQUEFACIENS AND REMARK 900 B. LICHENIFORMIS AT 1.92A REMARK 900 RELATED ID: 1E3Z RELATED DB: PDB REMARK 900 ACARBOSE COMPLEX OF CHIMAERIC AMYLASE FROM B. AMYLOLIQUEFACIENS AND REMARK 900 B. LICHENIFORMIS AT 1.93A REMARK 900 RELATED ID: 1E40 RELATED DB: PDB REMARK 900 TRIS/MALTOTRIOSE COMPLEX OF CHIMAERIC AMYLASE FROM B. REMARK 900 AMYLOLIQUEFACIENS AND B. LICHENIFORMIS AT 2.2A REMARK 900 RELATED ID: 1E43 RELATED DB: PDB REMARK 900 NATIVE STRUCTURE OF CHIMAERIC AMYLASE FROM B. AMYLOLIQUEFACIENS AND REMARK 900 B. LICHENIFORMIS AT 1.7A REMARK 900 RELATED ID: 1VJS RELATED DB: PDB REMARK 900 STRUCTURE OF ALPHA-AMYLASE PRECURSOR REMARK 999 REMARK 999 SEQUENCE REMARK 999 DATABASE ENTRY SWS P06278 CONTAINS A 29 RESIDUE PRECURSOR. REMARK 999 NUMBERING IN THE PDB ENTRY STARTS WITH 1 WHICH CORRESPONDS REMARK 999 TO RESIDUE 30 IN THE DATABASE ENTRY. DBREF 1OB0 A 1 483 UNP P06278 AMY_BACLI 30 512 SEQADV 1OB0 VAL A 133 UNP P06278 HIS 162 ENGINEERED MUTATION SEQADV 1OB0 LEU A 134 UNP P06278 ARG 163 CONFLICT SEQADV 1OB0 PHE A 190 UNP P06278 ASN 219 ENGINEERED MUTATION SEQADV 1OB0 VAL A 209 UNP P06278 ALA 238 ENGINEERED MUTATION SEQADV 1OB0 SER A 264 UNP P06278 GLN 293 ENGINEERED MUTATION SEQADV 1OB0 TYR A 265 UNP P06278 ASN 294 ENGINEERED MUTATION SEQADV 1OB0 GLY A 310 UNP P06278 SER 339 CONFLICT SEQADV 1OB0 SER A 320 UNP P06278 ALA 349 CONFLICT SEQRES 1 A 483 ALA ASN LEU ASN GLY THR LEU MET GLN TYR PHE GLU TRP SEQRES 2 A 483 TYR MET PRO ASN ASP GLY GLN HIS TRP LYS ARG LEU GLN SEQRES 3 A 483 ASN ASP SER ALA TYR LEU ALA GLU HIS GLY ILE THR ALA SEQRES 4 A 483 VAL TRP ILE PRO PRO ALA TYR LYS GLY THR SER GLN ALA SEQRES 5 A 483 ASP VAL GLY TYR GLY ALA TYR ASP LEU TYR ASP LEU GLY SEQRES 6 A 483 GLU PHE HIS GLN LYS GLY THR VAL ARG THR LYS TYR GLY SEQRES 7 A 483 THR LYS GLY GLU LEU GLN SER ALA ILE LYS SER LEU HIS SEQRES 8 A 483 SER ARG ASP ILE ASN VAL TYR GLY ASP VAL VAL ILE ASN SEQRES 9 A 483 HIS LYS GLY GLY ALA ASP ALA THR GLU ASP VAL THR ALA SEQRES 10 A 483 VAL GLU VAL ASP PRO ALA ASP ARG ASN ARG VAL ILE SER SEQRES 11 A 483 GLY GLU VAL LEU ILE LYS ALA TRP THR HIS PHE HIS PHE SEQRES 12 A 483 PRO GLY ARG GLY SER THR TYR SER ASP PHE LYS TRP HIS SEQRES 13 A 483 TRP TYR HIS PHE ASP GLY THR ASP TRP ASP GLU SER ARG SEQRES 14 A 483 LYS LEU ASN ARG ILE TYR LYS PHE GLN GLY LYS ALA TRP SEQRES 15 A 483 ASP TRP GLU VAL SER ASN GLU PHE GLY ASN TYR ASP TYR SEQRES 16 A 483 LEU MET TYR ALA ASP ILE ASP TYR ASP HIS PRO ASP VAL SEQRES 17 A 483 VAL ALA GLU ILE LYS ARG TRP GLY THR TRP TYR ALA ASN SEQRES 18 A 483 GLU LEU GLN LEU ASP GLY PHE ARG LEU ASP ALA VAL LYS SEQRES 19 A 483 HIS ILE LYS PHE SER PHE LEU ARG ASP TRP VAL ASN HIS SEQRES 20 A 483 VAL ARG GLU LYS THR GLY LYS GLU MET PHE THR VAL ALA SEQRES 21 A 483 GLU TYR TRP SER TYR ASP LEU GLY ALA LEU GLU ASN TYR SEQRES 22 A 483 LEU ASN LYS THR ASN PHE ASN HIS SER VAL PHE ASP VAL SEQRES 23 A 483 PRO LEU HIS TYR GLN PHE HIS ALA ALA SER THR GLN GLY SEQRES 24 A 483 GLY GLY TYR ASP MET ARG LYS LEU LEU ASN GLY THR VAL SEQRES 25 A 483 VAL SER LYS HIS PRO LEU LYS SER VAL THR PHE VAL ASP SEQRES 26 A 483 ASN HIS ASP THR GLN PRO GLY GLN SER LEU GLU SER THR SEQRES 27 A 483 VAL GLN THR TRP PHE LYS PRO LEU ALA TYR ALA PHE ILE SEQRES 28 A 483 LEU THR ARG GLU SER GLY TYR PRO GLN VAL PHE TYR GLY SEQRES 29 A 483 ASP MET TYR GLY THR LYS GLY ASP SER GLN ARG GLU ILE SEQRES 30 A 483 PRO ALA LEU LYS HIS LYS ILE GLU PRO ILE LEU LYS ALA SEQRES 31 A 483 ARG LYS GLN TYR ALA TYR GLY ALA GLN HIS ASP TYR PHE SEQRES 32 A 483 ASP HIS HIS ASP ILE VAL GLY TRP THR ARG GLU GLY ASP SEQRES 33 A 483 SER SER VAL ALA ASN SER GLY LEU ALA ALA LEU ILE THR SEQRES 34 A 483 ASP GLY PRO GLY GLY ALA LYS ARG MET TYR VAL GLY ARG SEQRES 35 A 483 GLN ASN ALA GLY GLU THR TRP HIS ASP ILE THR GLY ASN SEQRES 36 A 483 ARG SER GLU PRO VAL VAL ILE ASN SER GLU GLY TRP GLY SEQRES 37 A 483 GLU PHE HIS VAL ASN GLY GLY SER VAL SER ILE TYR VAL SEQRES 38 A 483 GLN ARG HET CA A 501 1 HET CA A 502 1 HET CA A 503 1 HET NA A 504 1 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION FORMUL 2 CA 3(CA 2+) FORMUL 5 NA NA 1+ FORMUL 6 HOH *324(H2 O) HELIX 1 1 GLN A 20 HIS A 35 1 16 HELIX 2 2 THR A 79 ARG A 93 1 15 HELIX 3 3 HIS A 156 TYR A 158 5 3 HELIX 4 4 HIS A 205 GLN A 224 1 20 HELIX 5 5 ALA A 232 ILE A 236 5 5 HELIX 6 6 LYS A 237 GLY A 253 1 17 HELIX 7 7 ASP A 266 THR A 277 1 12 HELIX 8 8 ASP A 285 GLN A 298 1 14 HELIX 9 9 ASP A 303 ASN A 309 5 7 HELIX 10 10 THR A 311 HIS A 316 1 6 HELIX 11 11 PHE A 343 ARG A 354 1 12 HELIX 12 12 TYR A 363 GLY A 368 1 6 HELIX 13 13 LEU A 380 TYR A 394 1 15 HELIX 14 14 GLY A 441 ALA A 445 5 5 SHEET 1 AA10 LEU A 7 GLN A 9 0 SHEET 2 AA10 ALA A 39 ILE A 42 1 O ALA A 39 N MET A 8 SHEET 3 AA10 ASN A 96 VAL A 101 1 O ASN A 96 N VAL A 40 SHEET 4 AA10 GLY A 227 LEU A 230 1 O GLY A 227 N GLY A 99 SHEET 5 AA10 PHE A 257 ALA A 260 1 O PHE A 257 N PHE A 228 SHEET 6 AA10 SER A 282 PHE A 284 1 O SER A 282 N ALA A 260 SHEET 7 AA10 SER A 320 PHE A 323 1 N VAL A 321 O VAL A 283 SHEET 8 AA10 TYR A 358 PHE A 362 1 O TYR A 358 N THR A 322 SHEET 9 AA10 LEU A 7 GLN A 9 1 O LEU A 7 N VAL A 361 SHEET 10 AA10 LEU A 7 GLN A 9 0 SHEET 1 AB 9 HIS A 105 LYS A 106 0 SHEET 2 AB 9 ALA A 199 ILE A 201 -1 O ALA A 199 N LYS A 106 SHEET 3 AB 9 PHE A 160 THR A 163 -1 N ASP A 161 O ASP A 200 SHEET 4 AB 9 TYR A 175 PHE A 177 -1 O TYR A 175 N THR A 163 SHEET 5 AB 9 ALA A 111 ASP A 121 -1 O VAL A 118 N LYS A 176 SHEET 6 AB 9 ASP A 124 VAL A 128 -1 N ASP A 124 O ASP A 121 SHEET 7 AB 9 ALA A 111 ASP A 121 -1 O ASP A 121 N ASP A 124 SHEET 8 AB 9 VAL A 133 HIS A 140 -1 O VAL A 133 N ALA A 117 SHEET 9 AB 9 ALA A 111 ASP A 121 -1 O ALA A 111 N HIS A 140 SHEET 1 AC 6 GLN A 399 TYR A 402 0 SHEET 2 AC 6 ILE A 408 ARG A 413 -1 O GLY A 410 N TYR A 402 SHEET 3 AC 6 LEU A 424 THR A 429 -1 O LEU A 424 N ARG A 413 SHEET 4 AC 6 VAL A 477 GLN A 482 -1 O SER A 478 N LEU A 427 SHEET 5 AC 6 THR A 448 ASP A 451 -1 O HIS A 450 N VAL A 481 SHEET 6 AC 6 VAL A 460 VAL A 461 -1 O VAL A 460 N TRP A 449 SHEET 1 AD 2 GLY A 434 TYR A 439 0 SHEET 2 AD 2 TRP A 467 VAL A 472 -1 O GLY A 468 N MET A 438 LINK CA CA A 501 OD1 ASP A 194 1555 1555 2.41 LINK CA CA A 501 O ASP A 194 1555 1555 2.43 LINK CA CA A 501 OD1 ASP A 200 1555 1555 2.42 LINK CA CA A 501 OD2 ASP A 200 1555 1555 3.04 LINK CA CA A 501 O HOH A2060 1555 1555 2.48 LINK CA CA A 501 O HIS A 235 1555 1555 2.36 LINK CA CA A 501 OD1 ASN A 104 1555 1555 2.38 LINK CA CA A 502 OD1 ASP A 161 1555 1555 2.55 LINK CA CA A 502 O ALA A 181 1555 1555 2.42 LINK CA CA A 502 OD1 ASP A 183 1555 1555 2.38 LINK CA CA A 502 OD1 ASP A 204 1555 1555 2.46 LINK CA CA A 502 O HOH A2122 1555 1555 2.59 LINK CA CA A 502 OD2 ASP A 161 1555 1555 2.60 LINK CA CA A 502 OD2 ASP A 202 1555 1555 2.46 LINK CA CA A 503 O TYR A 302 1555 1555 2.35 LINK CA CA A 503 O HIS A 406 1555 1555 2.57 LINK CA CA A 503 OD1 ASP A 430 1555 1555 2.57 LINK CA CA A 503 O GLY A 300 1555 1555 2.57 LINK CA CA A 503 OD2 ASP A 430 1555 1555 2.63 LINK CA CA A 503 OD2 ASP A 407 1555 1555 2.39 LINK CA CA A 503 O HOH A2204 1555 1555 2.70 LINK NA NA A 504 OD2 ASP A 194 1555 1555 2.47 LINK NA NA A 504 OD2 ASP A 200 1555 1555 2.50 LINK NA NA A 504 OD2 ASP A 183 1555 1555 2.59 LINK NA NA A 504 O ILE A 201 1555 1555 2.55 LINK NA NA A 504 OD1 ASP A 161 1555 1555 2.43 CISPEP 1 TRP A 184 GLU A 185 0 1.38 SITE 1 AC1 5 ASN A 104 ASP A 194 ASP A 200 HIS A 235 SITE 2 AC1 5 HOH A2060 SITE 1 AC2 6 ASP A 161 ALA A 181 ASP A 183 ASP A 202 SITE 2 AC2 6 ASP A 204 HOH A2122 SITE 1 AC3 6 GLY A 300 TYR A 302 HIS A 406 ASP A 407 SITE 2 AC3 6 ASP A 430 HOH A2204 SITE 1 AC4 5 ASP A 161 ASP A 183 ASP A 194 ASP A 200 SITE 2 AC4 5 ILE A 201 CRYST1 91.292 91.292 137.466 90.00 90.00 120.00 P 61 6 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 0.010954 0.006324 0.000000 0.00000 SCALE2 0.000000 0.012648 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007274 0.00000