HEADER HYDROLASE 06-SEP-12 3VX0 TITLE CRYSTAL STRUCTURE OF ALPHA-AMYLASE FROM ASPERGILLUS ORYZAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-AMYLASE A TYPE-1/2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-ALPHA-D-GLUCAN GLUCANOHYDROLASE, TAKA-AMYLASE A, TAA; COMPND 5 EC: 3.2.1.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS ORYZAE; SOURCE 3 ORGANISM_COMMON: YELLOW KOJI MOLD; SOURCE 4 ORGANISM_TAXID: 510516; SOURCE 5 STRAIN: ATCC 42149 / RIB 40 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SUGAHARA REVDAT 2 29-JUL-20 3VX0 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE REVDAT 1 11-SEP-13 3VX0 0 JRNL AUTH M.SUGAHARA JRNL TITL CRYSTAL STRUCTURE OF ALPHA-AMYLASE FROM ASPERGILLUS ORYZAE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 66257 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) : 0.192 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3336 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 333 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.014 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3680 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 600 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.48000 REMARK 3 B22 (A**2) : -0.97000 REMARK 3 B33 (A**2) : 0.49000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.17 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) : 0.18 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3VX0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000095605. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66313 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 377643. REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.54100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, CACL2, PH 5.8, OIL REMARK 280 -MICROBATCH METHOD, TEMPERATURE 293K 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 24.26200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.12150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.80950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.12150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.26200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.80950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 SER A 476 REMARK 465 SER A 477 REMARK 465 SER A 478 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 1604 O HOH A 1684 1.84 REMARK 500 OE1 GLU A 92 O HOH A 1270 1.96 REMARK 500 O HOH A 1585 O HOH A 1634 2.05 REMARK 500 O HOH A 1445 O HOH A 1650 2.15 REMARK 500 OE1 GLU A 357 O HOH A 1605 2.15 REMARK 500 O HOH A 1144 O HOH A 1364 2.16 REMARK 500 O HOH A 1691 O HOH A 1693 2.17 REMARK 500 O HOH A 1545 O HOH A 1648 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 OE1 GLU A 156 O HOH A 1614 3655 1.87 REMARK 500 OD2 ASP A 448 O HOH A 1605 4565 2.10 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 TRP A 216 NE1 TRP A 216 CE2 0.127 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 78 46.76 -88.63 REMARK 500 GLN A 85 -33.52 -136.54 REMARK 500 SER A 141 41.09 -87.61 REMARK 500 ASP A 168 -155.34 -152.47 REMARK 500 ALA A 329 124.13 -38.94 REMARK 500 ASP A 340 129.08 -35.96 REMARK 500 ASP A 390 -159.30 -148.94 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 ALA A 1 10.61 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 GD A1006 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 47 OD2 REMARK 620 2 ASP A 47 OD1 54.2 REMARK 620 3 HOH A1687 O 131.0 138.0 REMARK 620 4 HOH A1688 O 122.3 73.5 73.8 REMARK 620 5 HOH A1689 O 72.9 126.8 80.5 154.1 REMARK 620 6 HOH A1690 O 65.9 74.5 74.1 79.2 90.5 REMARK 620 7 HOH A1691 O 117.8 79.8 111.2 68.2 126.3 143.1 REMARK 620 8 HOH A1692 O 79.0 91.3 130.0 128.7 71.7 144.2 60.9 REMARK 620 9 HOH A1693 O 138.5 136.1 72.5 95.1 80.3 146.3 56.9 62.6 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 GD A1005 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 50 OD1 REMARK 620 2 ASP A 50 OD2 49.4 REMARK 620 3 HOH A1444 O 92.9 128.4 REMARK 620 4 HOH A1591 O 90.8 71.6 154.2 REMARK 620 5 HOH A1683 O 127.1 104.2 68.3 127.5 REMARK 620 6 HOH A1684 O 69.2 97.5 99.1 58.7 158.3 REMARK 620 7 HOH A1698 O 97.5 49.8 152.8 51.0 85.5 108.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1008 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 121 OD1 REMARK 620 2 GLU A 162 O 155.2 REMARK 620 3 ASP A 175 OD2 121.8 79.8 REMARK 620 4 ASP A 175 OD1 76.1 117.4 50.1 REMARK 620 5 HIS A 210 O 76.6 80.4 159.4 138.8 REMARK 620 6 HOH A1154 O 71.9 129.3 76.8 78.3 120.8 REMARK 620 7 HOH A1160 O 115.2 69.9 96.5 138.3 81.7 69.0 REMARK 620 8 HOH A1206 O 88.7 78.6 89.7 68.1 81.0 144.4 146.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 GD A1003 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 156 OE1 REMARK 620 2 ASP A 233 OD2 167.1 REMARK 620 3 HOH A1209 O 111.9 65.4 REMARK 620 4 HOH A1676 O 93.7 77.8 119.3 REMARK 620 5 HOH A1677 O 123.6 69.3 92.0 118.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 GD A1007 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 206 OD1 REMARK 620 2 GLU A 230 OE1 80.9 REMARK 620 3 GLU A 230 OE2 118.2 46.0 REMARK 620 4 HOH A1124 O 79.9 97.2 78.7 REMARK 620 5 HOH A1685 O 83.2 164.1 146.1 80.0 REMARK 620 6 HOH A1686 O 175.6 94.8 57.6 100.0 101.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 GD A1002 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 233 OD2 REMARK 620 2 ASP A 233 OD1 50.0 REMARK 620 3 ASP A 235 OD2 118.3 71.5 REMARK 620 4 HOH A1676 O 80.6 93.2 85.5 REMARK 620 5 HOH A1677 O 73.8 96.0 137.4 136.8 REMARK 620 6 HOH A1678 O 111.1 80.6 71.0 156.5 66.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 GD A1004 GD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 281 OG REMARK 620 2 ASP A 282 OD1 64.5 REMARK 620 3 HOH A1670 O 56.9 69.3 REMARK 620 4 HOH A1679 O 125.3 76.0 138.3 REMARK 620 5 HOH A1680 O 130.2 79.8 79.2 72.5 REMARK 620 6 HOH A1681 O 69.3 85.8 126.1 71.8 143.8 REMARK 620 7 HOH A1682 O 146.1 137.8 144.0 62.0 83.5 85.3 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VX1 RELATED DB: PDB DBREF 3VX0 A 1 478 UNP P0C1B3 AMYA1_ASPOR 22 499 SEQRES 1 A 478 ALA THR PRO ALA ASP TRP ARG SER GLN SER ILE TYR PHE SEQRES 2 A 478 LEU LEU THR ASP ARG PHE ALA ARG THR ASP GLY SER THR SEQRES 3 A 478 THR ALA THR CYS ASN THR ALA ASP GLN LYS TYR CYS GLY SEQRES 4 A 478 GLY THR TRP GLN GLY ILE ILE ASP LYS LEU ASP TYR ILE SEQRES 5 A 478 GLN GLY MET GLY PHE THR ALA ILE TRP ILE THR PRO VAL SEQRES 6 A 478 THR ALA GLN LEU PRO GLN THR THR ALA TYR GLY ASP ALA SEQRES 7 A 478 TYR HIS GLY TYR TRP GLN GLN ASP ILE TYR SER LEU ASN SEQRES 8 A 478 GLU ASN TYR GLY THR ALA ASP ASP LEU LYS ALA LEU SER SEQRES 9 A 478 SER ALA LEU HIS GLU ARG GLY MET TYR LEU MET VAL ASP SEQRES 10 A 478 VAL VAL ALA ASN HIS MET GLY TYR ASP GLY ALA GLY SER SEQRES 11 A 478 SER VAL ASP TYR SER VAL PHE LYS PRO PHE SER SER GLN SEQRES 12 A 478 ASP TYR PHE HIS PRO PHE CYS PHE ILE GLN ASN TYR GLU SEQRES 13 A 478 ASP GLN THR GLN VAL GLU ASP CYS TRP LEU GLY ASP ASN SEQRES 14 A 478 THR VAL SER LEU PRO ASP LEU ASP THR THR LYS ASP VAL SEQRES 15 A 478 VAL LYS ASN GLU TRP TYR ASP TRP VAL GLY SER LEU VAL SEQRES 16 A 478 SER ASN TYR SER ILE ASP GLY LEU ARG ILE ASP THR VAL SEQRES 17 A 478 LYS HIS VAL GLN LYS ASP PHE TRP PRO GLY TYR ASN LYS SEQRES 18 A 478 ALA ALA GLY VAL TYR CYS ILE GLY GLU VAL LEU ASP GLY SEQRES 19 A 478 ASP PRO ALA TYR THR CYS PRO TYR GLN ASN VAL MET ASP SEQRES 20 A 478 GLY VAL LEU ASN TYR PRO ILE TYR TYR PRO LEU LEU ASN SEQRES 21 A 478 ALA PHE LYS SER THR SER GLY SER MET ASP ASP LEU TYR SEQRES 22 A 478 ASN MET ILE ASN THR VAL LYS SER ASP CYS PRO ASP SER SEQRES 23 A 478 THR LEU LEU GLY THR PHE VAL GLU ASN HIS ASP ASN PRO SEQRES 24 A 478 ARG PHE ALA SER TYR THR ASN ASP ILE ALA LEU ALA LYS SEQRES 25 A 478 ASN VAL ALA ALA PHE ILE ILE LEU ASN ASP GLY ILE PRO SEQRES 26 A 478 ILE ILE TYR ALA GLY GLN GLU GLN HIS TYR ALA GLY GLY SEQRES 27 A 478 ASN ASP PRO ALA ASN ARG GLU ALA THR TRP LEU SER GLY SEQRES 28 A 478 TYR PRO THR ASP SER GLU LEU TYR LYS LEU ILE ALA SER SEQRES 29 A 478 ALA ASN ALA ILE ARG ASN TYR ALA ILE SER LYS ASP THR SEQRES 30 A 478 GLY PHE VAL THR TYR LYS ASN TRP PRO ILE TYR LYS ASP SEQRES 31 A 478 ASP THR THR ILE ALA MET ARG LYS GLY THR ASP GLY SER SEQRES 32 A 478 GLN ILE VAL THR ILE LEU SER ASN LYS GLY ALA SER GLY SEQRES 33 A 478 ASP SER TYR THR LEU SER LEU SER GLY ALA GLY TYR THR SEQRES 34 A 478 ALA GLY GLN GLN LEU THR GLU VAL ILE GLY CYS THR THR SEQRES 35 A 478 VAL THR VAL GLY SER ASP GLY ASN VAL PRO VAL PRO MET SEQRES 36 A 478 ALA GLY GLY LEU PRO ARG VAL LEU TYR PRO THR GLU LYS SEQRES 37 A 478 LEU ALA GLY SER LYS ILE CYS SER SER SER MODRES 3VX0 ASN A 197 ASN GLYCOSYLATION SITE HET NAG A1001 14 HET GD A1002 1 HET GD A1003 1 HET GD A1004 1 HET GD A1005 1 HET GD A1006 1 HET GD A1007 1 HET CA A1008 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GD GADOLINIUM ATOM HETNAM CA CALCIUM ION FORMUL 2 NAG C8 H15 N O6 FORMUL 3 GD 6(GD) FORMUL 9 CA CA 2+ FORMUL 10 HOH *600(H2 O) HELIX 1 1 THR A 2 ARG A 7 1 6 HELIX 2 2 LEU A 15 ALA A 20 1 6 HELIX 3 3 ASN A 31 GLN A 35 5 5 HELIX 4 4 THR A 41 LYS A 48 1 8 HELIX 5 5 LYS A 48 GLY A 54 1 7 HELIX 6 6 THR A 96 ARG A 110 1 15 HELIX 7 7 ALA A 128 VAL A 132 5 5 HELIX 8 8 ASP A 133 PHE A 137 5 5 HELIX 9 9 SER A 142 PHE A 146 5 5 HELIX 10 10 ASP A 157 CYS A 164 1 8 HELIX 11 11 LYS A 180 SER A 199 1 20 HELIX 12 12 THR A 207 VAL A 211 5 5 HELIX 13 13 GLN A 212 ASP A 214 5 3 HELIX 14 14 PHE A 215 GLY A 224 1 10 HELIX 15 15 ASP A 235 CYS A 240 1 6 HELIX 16 16 PRO A 241 VAL A 245 5 5 HELIX 17 17 ASN A 251 LYS A 263 1 13 HELIX 18 18 SER A 268 CYS A 283 1 16 HELIX 19 19 ASP A 285 LEU A 288 5 4 HELIX 20 20 ARG A 300 THR A 305 1 6 HELIX 21 21 ASP A 307 ASN A 321 1 15 HELIX 22 22 GLY A 330 HIS A 334 5 5 HELIX 23 23 ALA A 346 GLY A 351 5 6 HELIX 24 24 SER A 356 ASP A 376 1 21 HELIX 25 25 GLU A 467 ALA A 470 5 4 SHEET 1 A 8 GLY A 248 VAL A 249 0 SHEET 2 A 8 TYR A 226 GLY A 229 1 N GLY A 229 O GLY A 248 SHEET 3 A 8 GLY A 202 ILE A 205 1 N ILE A 205 O ILE A 228 SHEET 4 A 8 TYR A 113 VAL A 118 1 N VAL A 118 O ARG A 204 SHEET 5 A 8 ALA A 59 ILE A 62 1 N ILE A 60 O MET A 115 SHEET 6 A 8 ILE A 11 LEU A 14 1 N LEU A 14 O TRP A 61 SHEET 7 A 8 ILE A 324 TYR A 328 1 O ILE A 327 N PHE A 13 SHEET 8 A 8 GLY A 290 THR A 291 1 N THR A 291 O ILE A 326 SHEET 1 B 2 THR A 66 GLN A 68 0 SHEET 2 B 2 GLN A 84 LEU A 90 -1 O GLN A 85 N ALA A 67 SHEET 1 C 3 TYR A 125 ASP A 126 0 SHEET 2 C 3 VAL A 171 LEU A 173 -1 O SER A 172 N TYR A 125 SHEET 3 C 3 LEU A 166 GLY A 167 -1 N LEU A 166 O LEU A 173 SHEET 1 D 6 TRP A 385 LYS A 389 0 SHEET 2 D 6 THR A 393 LYS A 398 -1 O ARG A 397 N TRP A 385 SHEET 3 D 6 ILE A 405 SER A 410 -1 O LEU A 409 N ILE A 394 SHEET 4 D 6 ARG A 461 PRO A 465 -1 O LEU A 463 N VAL A 406 SHEET 5 D 6 GLN A 433 GLU A 436 -1 N THR A 435 O TYR A 464 SHEET 6 D 6 THR A 441 THR A 444 -1 O THR A 441 N GLU A 436 SHEET 1 E 2 TYR A 419 LEU A 423 0 SHEET 2 E 2 VAL A 451 MET A 455 -1 O MET A 455 N TYR A 419 SSBOND 1 CYS A 30 CYS A 38 1555 1555 2.02 SSBOND 2 CYS A 150 CYS A 164 1555 1555 2.02 SSBOND 3 CYS A 240 CYS A 283 1555 1555 2.03 SSBOND 4 CYS A 440 CYS A 475 1555 1555 2.02 LINK ND2 ASN A 197 C1 NAG A1001 1555 1555 1.43 LINK OD2 ASP A 47 GD GD A1006 1555 1555 2.36 LINK OD1 ASP A 47 GD GD A1006 1555 1555 2.46 LINK OD1 ASP A 50 GD GD A1005 1555 1555 2.62 LINK OD2 ASP A 50 GD GD A1005 1555 1555 2.64 LINK OD1 ASN A 121 CA CA A1008 1555 1555 2.42 LINK OE1 GLU A 156 GD GD A1003 1555 1555 3.35 LINK O GLU A 162 CA CA A1008 1555 1555 2.55 LINK OD2 ASP A 175 CA CA A1008 1555 1555 2.57 LINK OD1 ASP A 175 CA CA A1008 1555 1555 2.66 LINK OD1 ASP A 206 GD GD A1007 1555 1555 2.36 LINK O HIS A 210 CA CA A1008 1555 1555 2.47 LINK OE1 GLU A 230 GD GD A1007 1555 1555 2.45 LINK OE2 GLU A 230 GD GD A1007 1555 1555 3.00 LINK OD2 ASP A 233 GD GD A1002 1555 1555 2.46 LINK OD1 ASP A 233 GD GD A1002 1555 1555 2.66 LINK OD2 ASP A 233 GD GD A1003 1555 1555 2.48 LINK OD2 ASP A 235 GD GD A1002 1555 1555 2.32 LINK OG SER A 281 GD GD A1004 1555 1555 2.75 LINK OD1 ASP A 282 GD GD A1004 1555 1555 2.45 LINK GD GD A1002 O HOH A1676 1555 1555 2.37 LINK GD GD A1002 O HOH A1677 1555 1555 2.36 LINK GD GD A1002 O HOH A1678 1555 1555 2.21 LINK GD GD A1003 O HOH A1209 1555 1555 3.46 LINK GD GD A1003 O HOH A1676 1555 1555 2.51 LINK GD GD A1003 O HOH A1677 1555 1555 2.61 LINK GD GD A1004 O HOH A1670 1555 1555 2.99 LINK GD GD A1004 O HOH A1679 1555 1555 2.40 LINK GD GD A1004 O HOH A1680 1555 1555 2.22 LINK GD GD A1004 O HOH A1681 1555 1555 2.51 LINK GD GD A1004 O HOH A1682 1555 1555 2.29 LINK GD GD A1005 O HOH A1444 1555 1555 2.65 LINK GD GD A1005 O HOH A1591 1555 1555 3.04 LINK GD GD A1005 O HOH A1683 1555 1555 2.50 LINK GD GD A1005 O HOH A1684 1555 1555 2.35 LINK GD GD A1005 O HOH A1698 1555 1555 2.91 LINK GD GD A1006 O HOH A1687 1555 1555 2.36 LINK GD GD A1006 O HOH A1688 1555 1555 2.27 LINK GD GD A1006 O HOH A1689 1555 1555 2.34 LINK GD GD A1006 O HOH A1690 1555 1555 2.32 LINK GD GD A1006 O HOH A1691 1555 1555 2.26 LINK GD GD A1006 O HOH A1692 1555 1555 2.52 LINK GD GD A1006 O HOH A1693 1555 1555 2.30 LINK GD GD A1007 O HOH A1124 1555 1555 2.53 LINK GD GD A1007 O HOH A1685 1555 1555 2.41 LINK GD GD A1007 O HOH A1686 1555 1555 2.12 LINK CA CA A1008 O HOH A1154 1555 1555 2.55 LINK CA CA A1008 O HOH A1160 1555 1555 2.53 LINK CA CA A1008 O HOH A1206 1555 1555 2.57 CISPEP 1 LYS A 138 PRO A 139 0 0.35 CISPEP 2 ASP A 340 PRO A 341 0 -0.44 CRYST1 48.524 65.619 130.243 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 0.020608 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015239 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007678 0.00000