HEADER SERINE PROTEASE 24-JUL-96 1AKS TITLE CRYSTAL STRUCTURE OF THE FIRST ACTIVE AUTOLYSATE FORM OF TITLE 2 THE PORCINE ALPHA TRYPSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA TRYPSIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.21.4; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ALPHA TRYPSIN; COMPND 7 CHAIN: B; COMPND 8 EC: 3.4.21.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 ORGAN: PANCREAS; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 8 ORGANISM_COMMON: PIG; SOURCE 9 ORGANISM_TAXID: 9823; SOURCE 10 ORGAN: PANCREAS KEYWDS HYDROLASE, SERINE PROTEASE EXPDTA X-RAY DIFFRACTION AUTHOR A.JOHNSON,S.KRISHNASWAMY,P.V.SUNDARAM,V.PATTABHI REVDAT 2 24-FEB-09 1AKS 1 VERSN REVDAT 1 12-FEB-97 1AKS 0 JRNL AUTH A.JOHNSON,S.KRISHNASWAMY,P.V.SUNDARAM,V.PATTABHI JRNL TITL THE FIRST STRUCTURE AT 1.8 A RESOLUTION OF AN JRNL TITL 2 ACTIVE AUTOLYSATE FORM OF PORCINE ALPHA-TRYSOIN. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 53 311 1997 JRNL REFN ISSN 0907-4449 JRNL PMID 15299934 JRNL DOI 10.1107/S0907444997000358 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 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 : 17698 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) : 0.200 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 : 2032 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 111 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) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.68 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.85 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 1AKS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. 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 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 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 38.85000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 23.54000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.91000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 23.54000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.85000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 26.91000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: 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 HIS A 71 -64.23 -126.12 REMARK 500 SER B 150 97.76 168.11 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 146 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 70 OE1 REMARK 620 2 ASN A 72 O 87.9 REMARK 620 3 VAL A 75 O 143.2 87.6 REMARK 620 4 GLU A 77 OE2 100.5 108.7 115.5 REMARK 620 5 GLU A 80 OE2 94.0 175.0 88.1 75.5 REMARK 620 6 HOH A 197 O 74.0 92.9 69.8 157.6 83.2 REMARK 620 N 1 2 3 4 5 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 146 REMARK 999 REMARK 999 SEQUENCE REMARK 999 REMARK 999 THE 223 AMINO ACIDS OF TRYPSIN ARE IDENTIFIED BY THE REMARK 999 RESIDUE NUMBERS OF THE HOMOLOGOUS CHYMOTRYPSINOGEN. REMARK 999 IN THIS ENTRY TWO CHAINS OF TRYPSIN ARE GIVEN IDENTIFIERS REMARK 999 "A" (RESIDUES 16 - 145) AND "B" (RESIDUES 146 - 245). DBREF 1AKS A 16 145 UNP P00761 TRYP_PIG 9 133 DBREF 1AKS B 146 245 UNP P00761 TRYP_PIG 134 231 SEQADV 1AKS ASN B 165 UNP P00761 ASP 153 CONFLICT SEQADV 1AKS GLN B 186 UNP P00761 GLU 175 CONFLICT SEQRES 1 A 125 ILE VAL GLY GLY TYR THR CYS ALA ALA ASN SER ILE PRO SEQRES 2 A 125 TYR GLN VAL SER LEU ASN SER GLY SER HIS PHE CYS GLY SEQRES 3 A 125 GLY SER LEU ILE ASN SER GLN TRP VAL VAL SER ALA ALA SEQRES 4 A 125 HIS CYS TYR LYS SER ARG ILE GLN VAL ARG LEU GLY GLU SEQRES 5 A 125 HIS ASN ILE ASP VAL LEU GLU GLY ASN GLU GLN PHE ILE SEQRES 6 A 125 ASN ALA ALA LYS ILE ILE THR HIS PRO ASN PHE ASN GLY SEQRES 7 A 125 ASN THR LEU ASP ASN ASP ILE MET LEU ILE LYS LEU SER SEQRES 8 A 125 SER PRO ALA THR LEU ASN SER ARG VAL ALA THR VAL SER SEQRES 9 A 125 LEU PRO ARG SER CYS ALA ALA ALA GLY THR GLU CYS LEU SEQRES 10 A 125 ILE SER GLY TRP GLY ASN THR LYS SEQRES 1 B 98 SER SER GLY SER SER TYR PRO SER LEU LEU GLN CYS LEU SEQRES 2 B 98 LYS ALA PRO VAL LEU SER ASN SER SER CYS LYS SER SER SEQRES 3 B 98 TYR PRO GLY GLN ILE THR GLY ASN MET ILE CYS VAL GLY SEQRES 4 B 98 PHE LEU GLN GLY GLY LYS ASP SER CYS GLN GLY ASP SER SEQRES 5 B 98 GLY GLY PRO VAL VAL CYS ASN GLY GLN LEU GLN GLY ILE SEQRES 6 B 98 VAL SER TRP GLY TYR GLY CYS ALA GLN LYS ASN LYS PRO SEQRES 7 B 98 GLY VAL TYR THR LYS VAL CYS ASN TYR VAL ASN TRP ILE SEQRES 8 B 98 GLN GLN THR ILE ALA ALA ASN HET CA A 146 1 HETNAM CA CALCIUM ION FORMUL 3 CA CA 2+ FORMUL 4 HOH *111(H2 O) HELIX 1 H1 ALA A 56 CYS A 58 5 3 HELIX 2 H2 ASN B 165 SER B 171 1 7 HELIX 3 H3 VAL B 231 ASN B 233 5 3 HELIX 4 H4 VAL B 235 ALA B 244 1 10 SHEET 1 A 4 GLN A 81 ASN A 84 0 SHEET 2 A 4 GLN A 64 LEU A 67 -1 N LEU A 67 O GLN A 81 SHEET 3 A 4 GLN A 30 ASN A 34 -1 N ASN A 34 O GLN A 64 SHEET 4 A 4 HIS A 40 SER A 45 -1 N GLY A 44 O VAL A 31 SHEET 1 B 3 TRP A 51 SER A 54 0 SHEET 2 B 3 MET A 104 LEU A 108 -1 N ILE A 106 O VAL A 52 SHEET 3 B 3 ALA A 85 THR A 90 -1 N ILE A 89 O LEU A 105 SHEET 1 C 2 GLU A 135 GLY A 140 0 SHEET 2 C 2 GLN B 156 PRO B 161 -1 N ALA B 160 O CYS A 136 SHEET 1 D 4 MET B 180 VAL B 183 0 SHEET 2 D 4 GLY B 226 LYS B 230 -1 N TYR B 228 O ILE B 181 SHEET 3 D 4 GLN B 204 TRP B 215 -1 N TRP B 215 O VAL B 227 SHEET 4 D 4 PRO B 198 CYS B 201 -1 N CYS B 201 O GLN B 204 SSBOND 1 CYS A 22 CYS B 157 1555 1555 2.05 SSBOND 2 CYS A 42 CYS A 58 1555 1555 2.05 SSBOND 3 CYS A 128 CYS B 232 1555 1555 2.04 SSBOND 4 CYS A 136 CYS B 201 1555 1555 2.04 SSBOND 5 CYS B 168 CYS B 182 1555 1555 2.04 SSBOND 6 CYS B 191 CYS B 220 1555 1555 2.05 LINK CA CA A 146 OE1 GLU A 70 1555 1555 2.34 LINK CA CA A 146 O ASN A 72 1555 1555 2.11 LINK CA CA A 146 O VAL A 75 1555 1555 2.26 LINK CA CA A 146 OE2 GLU A 77 1555 1555 1.89 LINK CA CA A 146 OE2 GLU A 80 1555 1555 2.50 LINK CA CA A 146 O HOH A 197 1555 1555 1.58 SITE 1 AC1 6 GLU A 70 ASN A 72 VAL A 75 GLU A 77 SITE 2 AC1 6 GLU A 80 HOH A 197 CRYST1 77.700 53.820 47.080 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 0.012870 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018580 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021240 0.00000