HEADER HYDROLASE 31-MAR-06 2GJP TITLE STRUCTURE OF BACILLUS HALMAPALUS ALPHA-AMYLASE, CRYSTALLIZED WITH THE TITLE 2 SUBSTRATE ANALOGUE ACARBOSE AND MALTOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-AMYLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS HALMAPALUS; SOURCE 3 ORGANISM_TAXID: 79882; SOURCE 4 EXPRESSION_SYSTEM: BACILLUS SUBTILIS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1423 KEYWDS ALPHA-AMYLASE, MALTOSE BINDING SITE, BACILLUS HALMAPALUS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.LYHNE-IVERSEN,T.J.HOBLEY,S.G.KAASGAARD,P.HARRIS REVDAT 5 30-AUG-23 2GJP 1 HETSYN REVDAT 4 29-JUL-20 2GJP 1 COMPND REMARK HET HETNAM REVDAT 4 2 1 FORMUL LINK SITE ATOM REVDAT 3 07-MAR-18 2GJP 1 REMARK REVDAT 2 24-FEB-09 2GJP 1 VERSN REVDAT 1 05-SEP-06 2GJP 0 JRNL AUTH L.LYHNE-IVERSEN,T.J.HOBLEY,S.G.KAASGAARD,P.HARRIS JRNL TITL STRUCTURE OF BACILLUS HALMAPALUS ALPHA-AMYLASE CRYSTALLIZED JRNL TITL 2 WITH AND WITHOUT THE SUBSTRATE ANALOGUE ACARBOSE AND JRNL TITL 3 MALTOSE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 62 849 2006 JRNL REFN ESSN 1744-3091 JRNL PMID 16946462 JRNL DOI 10.1107/S174430910603096X REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 39523 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2081 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2779 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE SET COUNT : 147 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3915 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 147 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.60000 REMARK 3 B22 (A**2) : -0.50000 REMARK 3 B33 (A**2) : -0.10000 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): 0.146 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.137 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.418 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4220 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5753 ; 1.659 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ; 6.027 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 229 ;32.640 ;24.367 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 613 ;14.365 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;15.439 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 602 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3293 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2274 ; 0.227 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2959 ; 0.340 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 527 ; 0.206 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 17 ; 0.111 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 22 ; 0.162 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.321 ; 0.500 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): 2395 ; 1.446 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3846 ; 2.358 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1948 ; 1.708 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1907 ; 2.511 ; 3.000 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2GJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037202. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2 REMARK 200 MONOCHROMATOR : SILICON 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADSC REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41708 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 1W9X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 MM ACARBOSE, 18% PEG 5K, 100 MM REMARK 280 MALTOSE, 6.4 MM TRIS, PH 7.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 23.49650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.54700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.74850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.54700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.49650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.74850 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 HIS A 1 REMARK 465 HIS A 2 REMARK 465 MET A 3 REMARK 465 GLY A 4 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 1538 O HOH A 1643 1.99 REMARK 500 NE2 GLN A 22 O HOH A 1609 2.01 REMARK 500 O2 GLC A 1301 O HOH A 1576 2.08 REMARK 500 O4H DAF B 3 O5 GLC C 1 2.13 REMARK 500 NH2 ARG A 26 O HOH A 1711 2.19 REMARK 500 OH TYR A 224 O HOH A 1525 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 1560 O HOH A 1653 4566 1.91 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 219 NE - CZ - NH2 ANGL. DEV. = -3.5 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 TYR A 12 58.92 -95.85 REMARK 500 ALA A 60 70.36 29.63 REMARK 500 LEU A 66 37.65 -94.15 REMARK 500 TYR A 152 -37.60 76.15 REMARK 500 TYR A 203 -140.26 52.72 REMARK 500 MET A 261 74.55 47.43 REMARK 500 ASP A 271 103.04 -161.57 REMARK 500 SER A 342 63.29 -165.33 REMARK 500 SER A 378 40.66 -103.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 GLC A 1300 REMARK 610 GLC A 1301 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 A1486 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 106 OD1 REMARK 620 2 ASP A 199 O 106.7 REMARK 620 3 ASP A 199 OD1 161.1 82.3 REMARK 620 4 ASP A 205 OD2 129.4 87.2 66.5 REMARK 620 5 ASP A 205 OD1 88.0 78.0 110.4 46.7 REMARK 620 6 HIS A 240 O 80.5 93.5 82.4 148.5 163.2 REMARK 620 7 HOH A1563 O 81.2 162.7 94.9 76.1 87.1 103.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1487 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 163 OD1 REMARK 620 2 ASP A 163 OD2 51.6 REMARK 620 3 ALA A 186 O 82.1 91.5 REMARK 620 4 ASP A 188 OD1 127.2 77.5 116.0 REMARK 620 5 ASP A 207 OD1 81.9 91.0 157.4 86.5 REMARK 620 6 ASP A 209 OD2 155.8 152.2 97.5 74.8 90.6 REMARK 620 7 HOH A1510 O 73.0 124.2 86.9 149.5 73.2 82.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1489 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 163 OD2 REMARK 620 2 ASP A 188 OD2 90.8 REMARK 620 3 ASP A 199 OD2 83.4 91.7 REMARK 620 4 ASP A 199 OD1 132.8 88.5 49.5 REMARK 620 5 ASP A 205 OD2 116.4 152.5 87.9 70.4 REMARK 620 6 VAL A 206 O 106.0 88.6 170.7 121.2 87.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1488 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 305 O REMARK 620 2 TYR A 307 O 112.3 REMARK 620 3 HIS A 408 O 167.8 73.8 REMARK 620 4 ASN A 409 OD1 90.5 149.9 80.4 REMARK 620 5 ASP A 432 OD2 78.6 79.1 113.3 126.3 REMARK 620 6 ASP A 432 OD1 93.8 118.4 92.1 77.3 51.7 REMARK 620 7 HOH A1548 O 84.2 80.6 86.6 82.6 146.0 159.8 REMARK 620 N 1 2 3 4 5 6 REMARK 630 REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE NUTRIENT REMARK 630 MOLECULE NAME: ALPHA-D-GLUCOPYRANOSE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 GLC A 1300 REMARK 630 GLC A 1301 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: OLIGOSACCHARIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W9X RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BACILLUS HALMAPALUS ALPHA AMYLASE CRYSTALLIZED REMARK 900 AT A DIFFERENT TEMPERATURE AND DIFFERENT RESOLUTION REMARK 900 RELATED ID: 2GJR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE THE SAME PROTEIN WITHOUT ANY SUBSTRATE ANALOGUES REMARK 999 REMARK 999 SEQUENCE REMARK 999 CURRENTLY, THERE IS NO AMINOACID SEQUENCE DATABASE REMARK 999 REFERENCE AVAILABLE FOR THIS PROTEIN DBREF 2GJP A 1 483 UNP P19571 AMT6_BACS7 34 516 SEQRES 1 A 485 HIS HIS MET GLY THR ASN GLY THR MET MET GLN TYR PHE SEQRES 2 A 485 GLU TRP HIS LEU PRO ASN ASP GLY GLN HIS TRP ASN ARG SEQRES 3 A 485 LEU ARG ASP ASP ALA SER ASN LEU ARG ASN ARG GLY ILE SEQRES 4 A 485 THR ALA ILE TRP ILE PRO PRO ALA TRP LYS GLY THR SER SEQRES 5 A 485 GLN ASN ASP VAL GLY TYR GLY ALA TYR ASP LEU TYR ASP SEQRES 6 A 485 LEU GLY GLU PHE ASN GLN LYS GLY THR VAL ARG THR LYS SEQRES 7 A 485 TYR GLY THR ARG SER GLN LEU GLU SER ALA ILE HIS ALA SEQRES 8 A 485 LEU LYS ASN ASN GLY VAL GLN VAL TYR GLY ASP VAL VAL SEQRES 9 A 485 MET ASN HIS LYS GLY GLY ALA ASP ALA THR GLU ASN VAL SEQRES 10 A 485 LEU ALA VAL GLU VAL ASN PRO ASN ASN ARG ASN GLN GLU SEQRES 11 A 485 ILE SER GLY ASP TYR THR ILE GLU ALA TRP THR LYS PHE SEQRES 12 A 485 ASP PHE PRO GLY ARG GLY ASN THR TYR SER ASP PHE LYS SEQRES 13 A 485 TRP ARG TRP TYR HIS PHE ASP GLY VAL ASP TRP ASP GLN SEQRES 14 A 485 SER ARG GLN PHE GLN ASN ARG ILE TYR LYS PHE ARG GLY SEQRES 15 A 485 ASP GLY LYS ALA TRP ASP TRP GLU VAL ASP SER GLU ASN SEQRES 16 A 485 GLY ASN TYR ASP TYR LEU MET TYR ALA ASP VAL ASP MET SEQRES 17 A 485 ASP HIS PRO GLU VAL VAL ASN GLU LEU ARG ARG TRP GLY SEQRES 18 A 485 GLU TRP TYR THR ASN THR LEU ASN LEU ASP GLY PHE ARG SEQRES 19 A 485 ILE ASP ALA VAL LYS HIS ILE LYS TYR SER PHE THR ARG SEQRES 20 A 485 ASP TRP LEU THR HIS VAL ARG ASN ALA THR GLY LYS GLU SEQRES 21 A 485 MET PHE ALA VAL ALA GLU PHE TRP LYS ASN ASP LEU GLY SEQRES 22 A 485 ALA LEU GLU ASN TYR LEU ASN LYS THR ASN TRP ASN HIS SEQRES 23 A 485 SER VAL PHE ASP VAL PRO LEU HIS TYR ASN LEU TYR ASN SEQRES 24 A 485 ALA SER ASN SER GLY GLY ASN TYR ASP MET ALA LYS LEU SEQRES 25 A 485 LEU ASN GLY THR VAL VAL GLN LYS HIS PRO MET HIS ALA SEQRES 26 A 485 VAL THR PHE VAL ASP ASN HIS ASP SER GLN PRO GLY GLU SEQRES 27 A 485 SER LEU GLU SER PHE VAL GLN GLU TRP PHE LYS PRO LEU SEQRES 28 A 485 ALA TYR ALA LEU ILE LEU THR ARG GLU GLN GLY TYR PRO SEQRES 29 A 485 SER VAL PHE TYR GLY ASP TYR TYR GLY ILE PRO THR HIS SEQRES 30 A 485 SER VAL PRO ALA MET LYS ALA LYS ILE ASP PRO ILE LEU SEQRES 31 A 485 GLU ALA ARG GLN ASN PHE ALA TYR GLY THR GLN HIS ASP SEQRES 32 A 485 TYR PHE ASP HIS HIS ASN ILE ILE GLY TRP THR ARG GLU SEQRES 33 A 485 GLY ASN THR THR HIS PRO ASN SER GLY LEU ALA THR ILE SEQRES 34 A 485 MET SER ASP GLY PRO GLY GLY GLU LYS TRP MET TYR VAL SEQRES 35 A 485 GLY GLN ASN LYS ALA GLY GLN VAL TRP HIS ASP ILE THR SEQRES 36 A 485 GLY ASN LYS PRO GLY THR VAL THR ILE ASN ALA ASP GLY SEQRES 37 A 485 TRP ALA ASN PHE SER VAL ASN GLY GLY SER VAL SER ILE SEQRES 38 A 485 TRP VAL LYS ARG HET BGC B 1 12 HET GLC B 2 11 HET DAF B 3 21 HET GLC C 1 11 HET GLC C 2 11 HET GLC C 3 11 HET DAF C 4 21 HET GLC D 1 12 HET GLC D 2 11 HET GLC A1300 11 HET GLC A1301 11 HET CA A1486 1 HET CA A1487 1 HET CA A1488 1 HET NA A1489 1 HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM DAF 4,6-DIDEOXY-4-{[(1S,5R,6S)-3-FORMYL-5,6-DIHYDROXY-4- HETNAM 2 DAF OXOCYCLOHEX-2-EN-1-YL]AMINO}-ALPHA-D-XYLO-HEX-5- HETNAM 3 DAF ENOPYRANOSE HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN DAF 4,6-DIDEOXY-4-{[(1S,5R,6S)-3-FORMYL-5,6-DIHYDROXY-4- HETSYN 2 DAF OXOCYCLOHEX-2-EN-1-YL]AMINO}-ALPHA-D-XYLO-HEX-5-ENOSE; HETSYN 3 DAF 4,6-DIDEOXY-4-{[(1S,5R,6S)-3-FORMYL-5,6-DIHYDROXY-4- HETSYN 4 DAF OXOCYCLOHEX-2-EN-1-YL]AMINO}-D-XYLO-HEX-5-ENOSE; 4,6- HETSYN 5 DAF DIDEOXY-4-{[(1S,5R,6S)-3-FORMYL-5,6-DIHYDROXY-4- HETSYN 6 DAF OXOCYCLOHEX-2-EN-1-YL]AMINO}-XYLO-HEX-5-ENOSE FORMUL 2 BGC C6 H12 O6 FORMUL 2 GLC 8(C6 H12 O6) FORMUL 2 DAF 2(C13 H17 N O8) FORMUL 7 CA 3(CA 2+) FORMUL 10 NA NA 1+ FORMUL 11 HOH *215(H2 O) HELIX 1 1 GLN A 22 ARG A 37 1 16 HELIX 2 2 THR A 81 ASN A 95 1 15 HELIX 3 3 ARG A 158 TYR A 160 5 3 HELIX 4 4 HIS A 210 ASN A 229 1 20 HELIX 5 5 ALA A 237 ILE A 241 5 5 HELIX 6 6 LYS A 242 GLY A 258 1 17 HELIX 7 7 ASP A 271 THR A 282 1 12 HELIX 8 8 ASP A 290 ASN A 302 1 13 HELIX 9 9 ASP A 308 LEU A 312 5 5 HELIX 10 10 THR A 316 HIS A 321 1 6 HELIX 11 11 GLN A 345 TRP A 347 5 3 HELIX 12 12 PHE A 348 ARG A 359 1 12 HELIX 13 13 TYR A 368 GLY A 373 1 6 HELIX 14 14 MET A 382 PHE A 396 1 15 HELIX 15 15 GLY A 443 ALA A 447 5 5 SHEET 1 A 9 MET A 9 GLN A 11 0 SHEET 2 A 9 ALA A 41 ILE A 44 1 O TRP A 43 N MET A 10 SHEET 3 A 9 GLN A 98 VAL A 103 1 O TYR A 100 N ILE A 42 SHEET 4 A 9 GLY A 232 ILE A 235 1 O GLY A 232 N GLY A 101 SHEET 5 A 9 PHE A 262 ALA A 265 1 O VAL A 264 N ILE A 235 SHEET 6 A 9 SER A 287 PHE A 289 1 O SER A 287 N ALA A 265 SHEET 7 A 9 ALA A 325 PHE A 328 1 O VAL A 326 N VAL A 288 SHEET 8 A 9 TYR A 363 PHE A 367 1 O TYR A 363 N ALA A 325 SHEET 9 A 9 MET A 9 GLN A 11 1 N MET A 9 O VAL A 366 SHEET 1 B 6 HIS A 107 LYS A 108 0 SHEET 2 B 6 ALA A 204 VAL A 206 -1 O ALA A 204 N LYS A 108 SHEET 3 B 6 PHE A 162 VAL A 165 -1 N ASP A 163 O ASP A 205 SHEET 4 B 6 ILE A 177 PHE A 180 -1 O TYR A 178 N VAL A 165 SHEET 5 B 6 ALA A 113 ASN A 123 -1 N VAL A 120 O LYS A 179 SHEET 6 B 6 ASN A 126 GLU A 130 -1 O GLN A 129 N ASN A 123 SHEET 1 C 6 HIS A 107 LYS A 108 0 SHEET 2 C 6 ALA A 204 VAL A 206 -1 O ALA A 204 N LYS A 108 SHEET 3 C 6 PHE A 162 VAL A 165 -1 N ASP A 163 O ASP A 205 SHEET 4 C 6 ILE A 177 PHE A 180 -1 O TYR A 178 N VAL A 165 SHEET 5 C 6 ALA A 113 ASN A 123 -1 N VAL A 120 O LYS A 179 SHEET 6 C 6 TYR A 135 LYS A 142 -1 O ALA A 139 N GLU A 115 SHEET 1 D 6 GLN A 401 TYR A 404 0 SHEET 2 D 6 ILE A 410 ARG A 415 -1 O GLY A 412 N TYR A 404 SHEET 3 D 6 LEU A 426 SER A 431 -1 O MET A 430 N ILE A 411 SHEET 4 D 6 SER A 478 LYS A 484 -1 O TRP A 482 N ALA A 427 SHEET 5 D 6 VAL A 450 ASP A 453 -1 N HIS A 452 O VAL A 483 SHEET 6 D 6 THR A 461 THR A 463 -1 O VAL A 462 N TRP A 451 SHEET 1 E 2 GLY A 436 TYR A 441 0 SHEET 2 E 2 TRP A 469 VAL A 474 -1 O PHE A 472 N LYS A 438 LINK O4 BGC B 1 C1 GLC B 2 1555 1555 1.35 LINK O4 GLC B 2 C1 DAF B 3 1555 1555 1.36 LINK O4H DAF B 3 C1 GLC C 1 1555 1555 1.33 LINK O4 GLC C 1 C1 GLC C 2 1555 1555 1.42 LINK O4 GLC C 2 C1 GLC C 3 1555 1555 1.46 LINK O4 GLC C 3 C1 DAF C 4 1555 1555 1.33 LINK O4 GLC D 1 C1 GLC D 2 1555 1555 1.39 LINK OD1 ASN A 106 CA CA A1486 1555 1555 2.39 LINK OD1 ASP A 163 CA CA A1487 1555 1555 2.44 LINK OD2 ASP A 163 CA CA A1487 1555 1555 2.49 LINK OD2 ASP A 163 NA NA A1489 1555 1555 2.29 LINK O ALA A 186 CA CA A1487 1555 1555 2.30 LINK OD1 ASP A 188 CA CA A1487 1555 1555 2.27 LINK OD2 ASP A 188 NA NA A1489 1555 1555 2.39 LINK O ASP A 199 CA CA A1486 1555 1555 2.22 LINK OD1 ASP A 199 CA CA A1486 1555 1555 2.33 LINK OD2 ASP A 199 NA NA A1489 1555 1555 2.52 LINK OD1 ASP A 199 NA NA A1489 1555 1555 2.76 LINK OD2 ASP A 205 CA CA A1486 1555 1555 3.02 LINK OD1 ASP A 205 CA CA A1486 1555 1555 2.34 LINK OD2 ASP A 205 NA NA A1489 1555 1555 2.40 LINK O VAL A 206 NA NA A1489 1555 1555 2.50 LINK OD1 ASP A 207 CA CA A1487 1555 1555 2.23 LINK OD2 ASP A 209 CA CA A1487 1555 1555 2.30 LINK O HIS A 240 CA CA A1486 1555 1555 2.33 LINK O GLY A 305 CA CA A1488 1555 1555 2.31 LINK O TYR A 307 CA CA A1488 1555 1555 2.31 LINK O HIS A 408 CA CA A1488 1555 1555 2.51 LINK OD1 ASN A 409 CA CA A1488 1555 1555 2.29 LINK OD2 ASP A 432 CA CA A1488 1555 1555 2.45 LINK OD1 ASP A 432 CA CA A1488 1555 1555 2.48 LINK CA CA A1486 O HOH A1563 1555 1555 2.45 LINK CA CA A1487 O HOH A1510 1555 1555 2.38 LINK CA CA A1488 O HOH A1548 1555 1555 2.38 CISPEP 1 TRP A 189 GLU A 190 0 1.54 CRYST1 46.993 73.497 151.094 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 0.021280 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013606 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006618 0.00000