PDB Short entry for 1PPI HEADER HYDROLASE (O-GLYCOSYL) 22-FEB-94 1PPI TITLE THE ACTIVE CENTER OF A MAMMALIAN ALPHA-AMYLASE. THE STRUCTURE OF THE TITLE 2 COMPLEX OF A PANCREATIC ALPHA-AMYLASE WITH A CARBOHYDRATE INHIBITOR TITLE 3 REFINED TO 2.2 ANGSTROMS RESOLUTION 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: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 TISSUE: PANCREAS KEYWDS HYDROLASE (O-GLYCOSYL) EXPDTA X-RAY DIFFRACTION AUTHOR M.QIAN,R.HASER,F.PAYAN REVDAT 6 29-JUL-20 1PPI 1 COMPND REMARK SEQADV HETNAM REVDAT 6 2 1 LINK SITE ATOM REVDAT 5 29-NOV-17 1PPI 1 HELIX REVDAT 4 08-SEP-09 1PPI 1 HETATM HETNAM REVDAT 3 25-AUG-09 1PPI 1 SOURCE REVDAT 2 24-FEB-09 1PPI 1 VERSN REVDAT 1 24-MAY-95 1PPI 0 JRNL AUTH M.QIAN,R.HASER,G.BUISSON,E.DUEE,F.PAYAN JRNL TITL THE ACTIVE CENTER OF A MAMMALIAN ALPHA-AMYLASE. STRUCTURE OF JRNL TITL 2 THE COMPLEX OF A PANCREATIC ALPHA-AMYLASE WITH A JRNL TITL 3 CARBOHYDRATE INHIBITOR REFINED TO 2.2-A RESOLUTION. JRNL REF BIOCHEMISTRY V. 33 6284 1994 JRNL REFN ISSN 0006-2960 JRNL PMID 8193143 JRNL DOI 10.1021/BI00186A031 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.QIAN,R.HASER,F.PAYAN REMARK 1 TITL STRUCTURE AND MOLECULAR MODEL REFINEMENT OF PIG PANCREATIC REMARK 1 TITL 2 ALPHA-AMYLASE AT 2.1 ANGSTROMS RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 231 785 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 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 : 25018 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3908 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 393 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 2.900 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 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 1PPI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175788. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 28.15000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.70000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.90000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.70000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.15000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.90000 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 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 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 TYR A 2 CE1 TYR A 2 CZ -0.083 REMARK 500 HIS A 15 NE2 HIS A 15 CD2 -0.078 REMARK 500 HIS A 201 NE2 HIS A 201 CD2 -0.075 REMARK 500 HIS A 386 NE2 HIS A 386 CD2 -0.079 REMARK 500 HIS A 491 NE2 HIS A 491 CD2 -0.068 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 TYR A 2 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 10 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG A 10 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 TRP A 19 CD1 - CG - CD2 ANGL. DEV. = 7.4 DEGREES REMARK 500 TRP A 19 CE2 - CD2 - CG ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG A 20 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 TRP A 21 CD1 - CG - CD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 TRP A 21 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 TRP A 21 CG - CD2 - CE3 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 30 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TRP A 58 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP A 58 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 TRP A 59 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP A 59 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 72 NE - CZ - NH1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 72 NE - CZ - NH2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG A 124 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 124 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 TRP A 134 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP A 134 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 176 NE - CZ - NH1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 176 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 195 NE - CZ - NH1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG A 195 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 TRP A 203 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP A 203 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 221 CD1 - CG - CD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 TRP A 221 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 227 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 227 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG A 252 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 252 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 269 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP A 269 CE2 - CD2 - CG ANGL. DEV. = -5.1 DEGREES REMARK 500 TRP A 280 CD1 - CG - CD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 TRP A 280 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP A 284 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP A 284 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 316 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP A 316 CB - CG - CD1 ANGL. DEV. = -8.9 DEGREES REMARK 500 TRP A 316 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP A 316 CG - CD2 - CE3 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 337 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 TYR A 342 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 343 NE - CZ - NH1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A 343 NE - CZ - NH2 ANGL. DEV. = -9.4 DEGREES REMARK 500 TRP A 344 CD1 - CG - CD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 TRP A 344 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 357 CD1 - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 67 ANGLE DEVIATIONS. 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 LEU A 16 76.80 -102.61 REMARK 500 TYR A 31 -60.91 -143.38 REMARK 500 MET A 102 -145.04 -107.95 REMARK 500 VAL A 163 44.17 29.71 REMARK 500 ALA A 224 -72.28 -35.29 REMARK 500 ASP A 317 63.58 -115.44 REMARK 500 ASP A 381 19.33 57.33 REMARK 500 SER A 414 -102.78 -127.36 REMARK 500 PRO A 486 38.59 -73.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 ACARBOSE IS A PSEUDOSACCHARRIDE THAT IS ACTED ON BY THE REMARK 600 ENZYME. THIS YIELDS A FIVE-UNIT PRODUCT PRESENT IN THE REMARK 600 ACTIVE SITE CLEFT OF THE COMPLEX. THE FINAL LIGAND REMARK 600 OBSERVED IN THIS STRUCTURE PROBABLY IS THE RESULT OF REMARK 600 SUCCESSIVE EVENTS LIKE HYDROLYSIS TRANSGLOCOSYLATION AND REMARK 600 CONDENSATION THAT MAY OCCUR IN THE ACTIVE CENTER OF PPA. 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 500 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 100 OD1 REMARK 620 2 ARG A 158 O 156.5 REMARK 620 3 ASP A 167 OD2 123.6 78.9 REMARK 620 4 ASP A 167 OD1 80.3 116.6 48.3 REMARK 620 5 HIS A 201 O 75.9 80.7 157.0 137.1 REMARK 620 6 HOH A 520 O 74.0 123.7 73.5 77.4 127.5 REMARK 620 7 HOH A 527 O 96.8 77.3 83.9 66.5 81.4 143.8 REMARK 620 8 HOH A 539 O 107.2 72.5 99.1 137.0 84.6 65.0 148.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AS1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AS2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AS3 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AS4 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AS5 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: CAL REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CALCIUM BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: CLO REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CHLORIDE BINDING SITE DBREF 1PPI A 1 496 UNP P00690 AMYP_PIG 1 496 SEQADV 1PPI VAL A 49 UNP P00690 ILE 49 CONFLICT SEQADV 1PPI LYS A 243 UNP P00690 GLN 243 CONFLICT SEQADV 1PPI SER A 310 UNP P00690 ALA 310 CONFLICT SEQRES 1 A 496 GLN TYR ALA PRO GLN THR GLN SER GLY ARG THR SER ILE SEQRES 2 A 496 VAL HIS LEU PHE GLU TRP ARG TRP VAL ASP ILE ALA LEU SEQRES 3 A 496 GLU CYS GLU ARG TYR LEU GLY PRO LYS GLY PHE GLY GLY SEQRES 4 A 496 VAL GLN VAL SER PRO PRO ASN GLU ASN VAL VAL VAL THR SEQRES 5 A 496 ASN PRO SER ARG PRO TRP TRP GLU ARG TYR GLN PRO VAL SEQRES 6 A 496 SER TYR LYS LEU CYS THR ARG SER GLY ASN GLU ASN GLU SEQRES 7 A 496 PHE ARG ASP MET VAL THR ARG CYS ASN ASN VAL GLY VAL SEQRES 8 A 496 ARG ILE TYR VAL ASP ALA VAL ILE ASN HIS MET CYS GLY SEQRES 9 A 496 SER GLY ALA ALA ALA GLY THR GLY THR THR CYS GLY SER SEQRES 10 A 496 TYR CYS ASN PRO GLY SER ARG GLU PHE PRO ALA VAL PRO SEQRES 11 A 496 TYR SER ALA TRP ASP PHE ASN ASP GLY LYS CYS LYS THR SEQRES 12 A 496 ALA SER GLY GLY ILE GLU SER TYR ASN ASP PRO TYR GLN SEQRES 13 A 496 VAL ARG ASP CYS GLN LEU VAL GLY LEU LEU ASP LEU ALA SEQRES 14 A 496 LEU GLU LYS ASP TYR VAL ARG SER MET ILE ALA ASP TYR SEQRES 15 A 496 LEU ASN LYS LEU ILE ASP ILE GLY VAL ALA GLY PHE ARG SEQRES 16 A 496 ILE ASP ALA SER LYS HIS MET TRP PRO GLY ASP ILE LYS SEQRES 17 A 496 ALA VAL LEU ASP LYS LEU HIS ASN LEU ASN THR ASN TRP SEQRES 18 A 496 PHE PRO ALA GLY SER ARG PRO PHE ILE PHE GLN GLU VAL SEQRES 19 A 496 ILE ASP LEU GLY GLY GLU ALA ILE LYS SER SER GLU TYR SEQRES 20 A 496 PHE GLY ASN GLY ARG VAL THR GLU PHE LYS TYR GLY ALA SEQRES 21 A 496 LYS LEU GLY THR VAL VAL ARG LYS TRP SER GLY GLU LYS SEQRES 22 A 496 MET SER TYR LEU LYS ASN TRP GLY GLU GLY TRP GLY PHE SEQRES 23 A 496 MET PRO SER ASP ARG ALA LEU VAL PHE VAL ASP ASN HIS SEQRES 24 A 496 ASP ASN GLN ARG GLY HIS GLY ALA GLY GLY SER SER ILE SEQRES 25 A 496 LEU THR PHE TRP ASP ALA ARG LEU TYR LYS VAL ALA VAL SEQRES 26 A 496 GLY PHE MET LEU ALA HIS PRO TYR GLY PHE THR ARG VAL SEQRES 27 A 496 MET SER SER TYR ARG TRP ALA ARG ASN PHE VAL ASN GLY SEQRES 28 A 496 GLU ASP VAL ASN ASP TRP ILE GLY PRO PRO ASN ASN ASN SEQRES 29 A 496 GLY VAL ILE LYS GLU VAL THR ILE ASN ALA ASP THR THR SEQRES 30 A 496 CYS GLY ASN ASP TRP VAL CYS GLU HIS ARG TRP ARG GLU SEQRES 31 A 496 ILE ARG ASN MET VAL TRP PHE ARG ASN VAL VAL ASP GLY SEQRES 32 A 496 GLU PRO PHE ALA ASN TRP TRP ASP ASN GLY SER ASN GLN SEQRES 33 A 496 VAL ALA PHE GLY ARG GLY ASN ARG GLY PHE ILE VAL PHE SEQRES 34 A 496 ASN ASN ASP ASP TRP GLN LEU SER SER THR LEU GLN THR SEQRES 35 A 496 GLY LEU PRO GLY GLY THR TYR CYS ASP VAL ILE SER GLY SEQRES 36 A 496 ASP LYS VAL GLY ASN SER CYS THR GLY ILE LYS VAL TYR SEQRES 37 A 496 VAL SER SER ASP GLY THR ALA GLN PHE SER ILE SER ASN SEQRES 38 A 496 SER ALA GLU ASP PRO PHE ILE ALA ILE HIS ALA GLU SER SEQRES 39 A 496 LYS LEU HET GLC B 1 11 HET GLC B 2 11 HET BGC C 1 12 HET DAF C 2 21 HET CL A 498 1 HET CA A 500 1 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM BGC BETA-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 CL CHLORIDE ION HETNAM CA CALCIUM ION FORMUL 2 GLC 2(C6 H12 O6) FORMUL 3 BGC C6 H12 O6 FORMUL 3 DAF C13 H17 N O8 FORMUL 4 CL CL 1- FORMUL 5 CA CA 2+ FORMUL 6 HOH *393(H2 O) HELIX 1 A1A ARG A 20 ARG A 30 1 11 HELIX 2 A1B TYR A 31 GLY A 36 1 6 HELIX 3 H1 PRO A 57 GLN A 63 13 CONSECUTIVE BETA TURNS 7 HELIX 4 A2 ASN A 75 ARG A 92 1 18 HELIX 5 H2 ASN A 120 ARG A 124 12 CONSECUTIVE BETA TURNS 5 HELIX 6 A3 LYS A 172 GLY A 190 1 19 HELIX 7 A4 TRP A 203 ASP A 212 1 10 HELIX 8 A5 SER A 244 ASN A 250 5 7 HELIX 9 A6A PHE A 256 LYS A 268 1 13 HELIX 10 A6B LYS A 273 TRP A 280 52 CONSECUTIVE BETA TURNS 8 HELIX 11 H3 GLY A 281 GLY A 285 52 CONSECUTIVE BETA TURNS 5 HELIX 12 H4 PRO A 288 ALA A 292 52 CONSECUTIVE BETA TURNS 5 HELIX 13 H5 ASP A 300 GLY A 304 52 CONSECUTIVE BETA TURNS 5 HELIX 14 A7 ASP A 317 HIS A 331 1 15 HELIX 15 H6 CYS A 384 TRP A 388 52 CONSECUTIVE BETA TURNS 5 HELIX 16 A8 TRP A 388 ASP A 402 1 15 HELIX 17 B1 ASP A 153 ASP A 159 1 7 SHEET 1 A1 8 SER A 12 LEU A 16 0 SHEET 2 A1 8 GLY A 38 VAL A 42 1 N GLY A 38 O SER A 12 SHEET 3 A1 8 ARG A 92 ALA A 97 1 N ARG A 92 O GLY A 38 SHEET 4 A1 8 ALA A 192 ASP A 197 1 N ALA A 192 O ILE A 93 SHEET 5 A1 8 PHE A 229 GLU A 233 1 N PHE A 229 O ALA A 192 SHEET 6 A1 8 ARG A 252 GLU A 255 1 N ARG A 252 O ILE A 230 SHEET 7 A1 8 ARG A 291 VAL A 294 1 O ARG A 291 N VAL A 253 SHEET 8 A1 8 PHE A 335 SER A 340 1 N PHE A 335 O ALA A 292 SHEET 1 A2 4 SER A 73 GLU A 76 0 SHEET 2 A2 4 LEU A 69 THR A 71 -1 O CYS A 70 N SER A 73 SHEET 3 A2 4 PRO A 45 VAL A 50 -1 O PRO A 45 N CYS A 70 SHEET 4 A2 4 GLY A 110 THR A 114 -1 N THR A 114 O ASN A 48 SHEET 1 A3 2 ASN A 347 VAL A 349 0 SHEET 2 A3 2 GLU A 352 VAL A 354 -1 N VAL A 354 O ASN A 347 SHEET 1 A4 2 THR A 371 ASN A 373 0 SHEET 2 A4 2 THR A 376 GLY A 379 -1 N GLY A 379 O THR A 371 SHEET 1 B1 4 GLY A 110 THR A 114 0 SHEET 2 B1 4 CYS A 119 PRO A 121 -1 O CYS A 119 N GLY A 110 SHEET 3 B1 4 ARG A 124 PRO A 127 -1 N ARG A 124 O PRO A 121 SHEET 4 B1 4 TYR A 131 ALA A 133 -1 N ALA A 133 O ARG A 124 SHEET 1 B2 3 ASN A 100 SER A 105 0 SHEET 2 B2 3 GLY A 164 ALA A 169 -1 N LEU A 168 O ASN A 100 SHEET 3 B2 3 ASP A 135 ASN A 137 -1 O ASP A 135 N ALA A 169 SHEET 1 B3 3 GLY A 146 ILE A 148 0 SHEET 2 B3 3 GLN A 161 LEU A 162 1 N GLN A 161 O GLY A 146 SHEET 3 B3 3 GLY A 164 ALA A 169 1 N LEU A 165 O LEU A 162 SHEET 1 C1 4 PRO A 405 ASN A 412 0 SHEET 2 C1 4 ASN A 415 GLY A 422 -1 O GLN A 416 N ASN A 412 SHEET 3 C1 4 ARG A 424 ASN A 431 -1 N ASN A 431 O ASN A 415 SHEET 4 C1 4 PRO A 486 ALA A 492 -1 O PRO A 486 N ASN A 430 SHEET 1 C2 4 LEU A 436 THR A 442 0 SHEET 2 C2 4 GLY A 473 ILE A 479 -1 O GLY A 473 N THR A 442 SHEET 3 C2 4 ILE A 465 SER A 470 -1 O SER A 470 N GLY A 473 SHEET 4 C2 4 GLY A 447 ASP A 451 -1 N GLY A 447 O VAL A 469 SHEET 1 C3 2 ASP A 456 VAL A 458 0 SHEET 2 C3 2 SER A 461 THR A 463 -1 N THR A 463 O ASP A 456 SSBOND 1 CYS A 28 CYS A 86 1555 1555 2.03 SSBOND 2 CYS A 70 CYS A 115 1555 1555 2.01 SSBOND 3 CYS A 141 CYS A 160 1555 1555 2.03 SSBOND 4 CYS A 378 CYS A 384 1555 1555 2.01 SSBOND 5 CYS A 450 CYS A 462 1555 1555 2.03 LINK O4 GLC B 1 C1 GLC B 2 1555 1555 1.41 LINK C1 GLC B 1 O4H DAF C 2 1555 1555 1.41 LINK O4 BGC C 1 C1 DAF C 2 1555 1555 1.42 LINK OD1 ASN A 100 CA CA A 500 1555 1555 2.32 LINK O ARG A 158 CA CA A 500 1555 1555 2.26 LINK OD2 ASP A 167 CA CA A 500 1555 1555 2.56 LINK OD1 ASP A 167 CA CA A 500 1555 1555 2.59 LINK O HIS A 201 CA CA A 500 1555 1555 2.20 LINK CA CA A 500 O HOH A 520 1555 1555 2.29 LINK CA CA A 500 O HOH A 527 1555 1555 2.51 LINK CA CA A 500 O HOH A 539 1555 1555 2.41 CISPEP 1 ASN A 53 PRO A 54 0 -6.53 CISPEP 2 VAL A 129 PRO A 130 0 -2.74 SITE 1 AS1 3 VAL A 163 GLN A 63 LEU A 165 SITE 1 AS2 3 HIS A 305 GLN A 63 TRP A 59 SITE 1 AS3 4 ASP A 300 HIS A 299 ASP A 197 HIS A 101 SITE 1 AS4 3 HIS A 201 GLU A 233 ASP A 300 SITE 1 AS5 2 GLU A 240 LYS A 200 SITE 1 CAL 4 ASN A 100 ARG A 158 ASP A 167 HIS A 201 SITE 1 CLO 3 ARG A 195 ASN A 298 ARG A 337 CRYST1 56.300 87.800 103.400 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 0.017762 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011390 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009671 0.00000