HEADER TRIOSE PHOSPHATE ISOMERASE 12-JAN-90 2YPI TITLE CRYSTALLOGRAPHIC ANALYSIS OF THE COMPLEX BETWEEN TRIOSEPHOSPHATE TITLE 2 ISOMERASE AND 2-PHOSPHOGLYCOLATE AT 2.5-ANGSTROMS RESOLUTION. TITLE 3 IMPLICATIONS FOR CATALYSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRIOSEPHOSPHATE ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 5.3.1.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932 KEYWDS TRIOSE PHOSPHATE ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.LOLIS,G.A.PETSKO REVDAT 4 21-FEB-24 2YPI 1 REMARK REVDAT 3 24-FEB-09 2YPI 1 VERSN REVDAT 2 01-APR-03 2YPI 1 JRNL REVDAT 1 15-JAN-91 2YPI 0 JRNL AUTH E.LOLIS,G.A.PETSKO JRNL TITL CRYSTALLOGRAPHIC ANALYSIS OF THE COMPLEX BETWEEN JRNL TITL 2 TRIOSEPHOSPHATE ISOMERASE AND 2-PHOSPHOGLYCOLATE AT 2.5-A JRNL TITL 3 RESOLUTION: IMPLICATIONS FOR CATALYSIS. JRNL REF BIOCHEMISTRY V. 29 6619 1990 JRNL REFN ISSN 0006-2960 JRNL PMID 2204418 JRNL DOI 10.1021/BI00480A010 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.LOLIS,T.ALBER,R.C.DAVENPORT,D.ROSE,F.C.HARTMAN,G.A.PETSKO REMARK 1 TITL STRUCTURE OF YEAST TRIOSEPHOSPHATE ISOMERASE AT REMARK 1 TITL 2 1.9-ANGSTROMS RESOLUTION REMARK 1 REF BIOCHEMISTRY V. 29 6609 1990 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.C.ALBER,R.C.DAVENPORTJUNIOR,D.A.GIAMMONA,E.LOLIS, REMARK 1 AUTH 2 G.A.PETSKO,D.RINGE REMARK 1 TITL CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF YEAST REMARK 1 TITL 2 TRIOSEPHOSPHATE ISOMERASE. WHAT CAN WE LEARN ABOUT CATALYSIS REMARK 1 TITL 3 FROM A (DOUBLE QUOTE)SIMPLE(DOUBLE QUOTE) ENZYME (QUESTION REMARK 1 TITL 4 MARK) REMARK 1 REF COLD SPRING HARBOR V. 52 603 1987 REMARK 1 REF 2 SYMP.QUANT.BIOL. REMARK 1 REFN ISSN 0091-7451 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.ALBER,F.C.HARTMAN,R.M.JOHNSON,G.A.PETSKO,D.TSERNOGLOU REMARK 1 TITL CRYSTALLIZATION OF YEAST TRIOSE PHOSPHATE ISOMERASE FROM REMARK 1 TITL 2 POLYETHYLENE GLYCOL. PROTEIN CRYSTAL FORMATION FOLLOWING REMARK 1 TITL 3 PHASE SEPARATION REMARK 1 REF J.BIOL.CHEM. V. 256 1356 1981 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH T.ALBER,D.W.BANNER,A.C.BLOOMER,G.A.PETSKO,D.PHILLIPS, REMARK 1 AUTH 2 P.S.RIVERS,I.A.WILSON REMARK 1 TITL ON THE THREE-DIMENSIONAL STRUCTURE AND CATALYTIC MECHANISM REMARK 1 TITL 2 OF TRIOSE PHOSPHATE ISOMERASE REMARK 1 REF PHILOS.TRANS.R.SOC.LONDON, V. 293 159 1981 REMARK 1 REF 2 SER.B REMARK 1 REFN ISSN 0080-4622 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL 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 + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : NULL 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 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3766 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 25 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.026 ; 0.030 REMARK 3 ANGLE DISTANCE (A) : 0.052 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.058 ; 0.052 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; 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 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2YPI 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_1000178762. 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 (%): 44.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 41.98500 REMARK 290 SMTRY3 2 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 300 REMARK: THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL REMARK 300 YIELD APPROXIMATE COORDINATES FOR CHAIN *B* WHEN APPLIED TO REMARK 300 CHAIN *A*. 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: 3970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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: 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 N ALA A 2 O HOH A 612 1.83 REMARK 500 OD1 ASP A 85 OH TYR B 46 1.94 REMARK 500 O LYS B 190 N ALA B 193 1.98 REMARK 500 O ASN B 216 OG1 THR B 219 1.99 REMARK 500 O VAL B 51 N LEU B 53 2.04 REMARK 500 CA ALA B 186 OD1 ASP B 225 2.07 REMARK 500 ND2 ASN A 78 O HOH A 632 2.07 REMARK 500 NH1 ARG B 189 OD2 ASP B 227 2.07 REMARK 500 ND2 ASN A 28 N LYS A 55 2.08 REMARK 500 CA ALA A 2 O HOH A 612 2.10 REMARK 500 O SER A 96 OG SER A 100 2.10 REMARK 500 O GLY A 87 NZ LYS A 89 2.10 REMARK 500 O TYR B 67 O HOH B 622 2.12 REMARK 500 O VAL B 51 N VAL B 54 2.15 REMARK 500 O ALA A 186 N LYS A 190 2.15 REMARK 500 OG1 THR A 75 OE1 GLU B 97 2.16 REMARK 500 OE1 GLU A 129 OH TYR A 164 2.17 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 ARG A 3 N ARG A 3 CA -0.129 REMARK 500 GLU A 22 CD GLU A 22 OE2 0.090 REMARK 500 GLU A 25 CD GLU A 25 OE2 0.125 REMARK 500 GLU A 34 CB GLU A 34 CG 0.149 REMARK 500 GLU A 34 CD GLU A 34 OE2 0.071 REMARK 500 TYR A 46 CG TYR A 46 CD1 0.081 REMARK 500 ASP A 48 N ASP A 48 CA 0.130 REMARK 500 GLU A 77 CD GLU A 77 OE2 0.088 REMARK 500 GLY A 87 N GLY A 87 CA 0.108 REMARK 500 SER A 100 N SER A 100 CA 0.125 REMARK 500 GLU A 104 CD GLU A 104 OE1 -0.075 REMARK 500 GLU A 104 CD GLU A 104 OE2 0.083 REMARK 500 PHE A 108 N PHE A 108 CA 0.133 REMARK 500 GLY A 120 N GLY A 120 CA 0.098 REMARK 500 GLU A 129 CG GLU A 129 CD -0.098 REMARK 500 GLU A 129 CD GLU A 129 OE2 0.069 REMARK 500 GLU A 132 CG GLU A 132 CD -0.128 REMARK 500 GLU A 132 CD GLU A 132 OE2 0.131 REMARK 500 GLU A 133 CD GLU A 133 OE2 0.118 REMARK 500 VAL A 162 CA VAL A 162 CB -0.139 REMARK 500 GLU A 179 CD GLU A 179 OE2 0.068 REMARK 500 SER A 187 CB SER A 187 OG 0.079 REMARK 500 GLU A 203 CB GLU A 203 CG 0.117 REMARK 500 GLU A 203 CD GLU A 203 OE2 0.111 REMARK 500 GLU A 239 CD GLU A 239 OE1 -0.082 REMARK 500 GLU A 239 CD GLU A 239 OE2 0.100 REMARK 500 GLU B 22 CD GLU B 22 OE2 0.134 REMARK 500 GLU B 25 CD GLU B 25 OE2 0.121 REMARK 500 PRO B 33 CA PRO B 33 CB 0.120 REMARK 500 GLU B 34 CD GLU B 34 OE2 0.100 REMARK 500 GLU B 77 CB GLU B 77 CG 0.154 REMARK 500 SER B 96 CB SER B 96 OG 0.092 REMARK 500 GLU B 97 CG GLU B 97 CD -0.105 REMARK 500 GLU B 97 CD GLU B 97 OE2 0.074 REMARK 500 ARG B 98 NE ARG B 98 CZ 0.089 REMARK 500 GLU B 129 CG GLU B 129 CD -0.104 REMARK 500 GLU B 129 CD GLU B 129 OE2 0.081 REMARK 500 GLU B 133 CD GLU B 133 OE2 0.094 REMARK 500 THR B 139 C THR B 139 O 0.131 REMARK 500 GLU B 152 CD GLU B 152 OE1 -0.101 REMARK 500 GLU B 153 CD GLU B 153 OE2 0.095 REMARK 500 GLU B 165 CB GLU B 165 CG 0.138 REMARK 500 GLU B 179 CD GLU B 179 OE2 0.112 REMARK 500 GLU B 203 CD GLU B 203 OE2 0.087 REMARK 500 ARG B 205 CD ARG B 205 NE -0.107 REMARK 500 GLY B 209 C GLY B 209 O 0.098 REMARK 500 PHE B 229 CG PHE B 229 CD2 0.093 REMARK 500 GLU B 239 CD GLU B 239 OE2 0.070 REMARK 500 ARG B 247 NE ARG B 247 CZ 0.090 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 ALA A 2 O - C - N ANGL. DEV. = -12.0 DEGREES REMARK 500 ARG A 3 C - N - CA ANGL. DEV. = 53.4 DEGREES REMARK 500 PHE A 5 CB - CA - C ANGL. DEV. = 13.1 DEGREES REMARK 500 PHE A 5 CB - CG - CD1 ANGL. DEV. = 4.2 DEGREES REMARK 500 LYS A 17 CA - CB - CG ANGL. DEV. = 33.9 DEGREES REMARK 500 GLU A 22 CA - CB - CG ANGL. DEV. = 16.4 DEGREES REMARK 500 GLU A 25 CG - CD - OE1 ANGL. DEV. = 15.9 DEGREES REMARK 500 GLU A 25 CG - CD - OE2 ANGL. DEV. = -12.6 DEGREES REMARK 500 ARG A 26 CD - NE - CZ ANGL. DEV. = 11.7 DEGREES REMARK 500 ARG A 26 NH1 - CZ - NH2 ANGL. DEV. = -9.4 DEGREES REMARK 500 ARG A 26 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 26 NE - CZ - NH2 ANGL. DEV. = 5.6 DEGREES REMARK 500 THR A 29 CA - CB - CG2 ANGL. DEV. = 9.9 DEGREES REMARK 500 ALA A 30 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 SER A 31 N - CA - CB ANGL. DEV. = 15.3 DEGREES REMARK 500 SER A 31 O - C - N ANGL. DEV. = 11.7 DEGREES REMARK 500 VAL A 36 CA - C - O ANGL. DEV. = 13.8 DEGREES REMARK 500 VAL A 36 CA - C - N ANGL. DEV. = -14.1 DEGREES REMARK 500 TYR A 46 CA - CB - CG ANGL. DEV. = 16.3 DEGREES REMARK 500 ASP A 48 CB - CA - C ANGL. DEV. = 16.0 DEGREES REMARK 500 VAL A 54 CG1 - CB - CG2 ANGL. DEV. = 9.6 DEGREES REMARK 500 PRO A 57 C - N - CA ANGL. DEV. = 9.2 DEGREES REMARK 500 VAL A 61 CG1 - CB - CG2 ANGL. DEV. = -12.2 DEGREES REMARK 500 LYS A 69 C - N - CA ANGL. DEV. = 15.2 DEGREES REMARK 500 LYS A 69 N - CA - CB ANGL. DEV. = 10.9 DEGREES REMARK 500 LYS A 69 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 LYS A 69 CB - CG - CD ANGL. DEV. = 19.6 DEGREES REMARK 500 ASP A 81 OD1 - CG - OD2 ANGL. DEV. = -12.3 DEGREES REMARK 500 ASP A 81 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 LYS A 84 CA - CB - CG ANGL. DEV. = 15.8 DEGREES REMARK 500 ALA A 88 C - N - CA ANGL. DEV. = 15.4 DEGREES REMARK 500 SER A 96 N - CA - CB ANGL. DEV. = 12.5 DEGREES REMARK 500 ARG A 98 CD - NE - CZ ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG A 99 CD - NE - CZ ANGL. DEV. = -8.6 DEGREES REMARK 500 ARG A 99 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 TYR A 101 CA - CB - CG ANGL. DEV. = 13.7 DEGREES REMARK 500 TYR A 101 CB - CG - CD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 TYR A 101 CG - CD1 - CE1 ANGL. DEV. = 6.4 DEGREES REMARK 500 TYR A 101 CG - CD2 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TYR A 101 CZ - CE2 - CD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP A 105 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 LYS A 107 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 PHE A 108 CA - CB - CG ANGL. DEV. = 15.9 DEGREES REMARK 500 ASP A 111 CB - CA - C ANGL. DEV. = 12.1 DEGREES REMARK 500 ASP A 111 OD1 - CG - OD2 ANGL. DEV. = -11.9 DEGREES REMARK 500 ASP A 111 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 111 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ALA A 116 O - C - N ANGL. DEV. = 10.3 DEGREES REMARK 500 LEU A 117 CA - CB - CG ANGL. DEV. = 26.5 DEGREES REMARK 500 VAL A 121 CB - CA - C ANGL. DEV. = 14.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 172 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 ARG A 3 -94.86 18.46 REMARK 500 LYS A 12 -146.71 46.50 REMARK 500 GLU A 22 -76.14 -59.22 REMARK 500 ILE A 23 -86.41 -23.03 REMARK 500 SER A 71 145.53 -172.66 REMARK 500 ALA A 88 152.72 -46.26 REMARK 500 THR A 113 -77.24 -40.05 REMARK 500 LYS A 134 -77.19 -51.91 REMARK 500 ASP A 141 -74.53 -66.38 REMARK 500 ALA A 149 -25.03 -33.38 REMARK 500 THR A 158 -28.59 -34.64 REMARK 500 PHE A 191 -83.75 -31.69 REMARK 500 LYS A 195 -67.76 -127.71 REMARK 500 LYS A 221 -4.06 -53.00 REMARK 500 ASP A 222 13.62 -149.09 REMARK 500 THR B 4 117.49 -5.29 REMARK 500 LYS B 12 -136.64 51.25 REMARK 500 SER B 19 -72.84 -65.35 REMARK 500 ILE B 20 -37.21 -32.39 REMARK 500 SER B 31 105.25 -53.01 REMARK 500 ILE B 32 35.92 -159.83 REMARK 500 PRO B 33 -159.85 -45.75 REMARK 500 GLU B 34 -98.73 40.14 REMARK 500 VAL B 51 -89.19 -40.86 REMARK 500 SER B 52 -51.44 -2.57 REMARK 500 VAL B 54 -95.88 -77.91 REMARK 500 LYS B 55 -86.92 103.86 REMARK 500 LYS B 56 54.14 -171.28 REMARK 500 PRO B 57 -104.54 -69.13 REMARK 500 GLU B 77 164.64 -39.24 REMARK 500 VAL B 80 -63.04 -28.05 REMARK 500 HIS B 95 152.95 -47.26 REMARK 500 SER B 100 -67.82 -101.46 REMARK 500 HIS B 103 35.11 29.39 REMARK 500 LYS B 114 -72.56 -51.92 REMARK 500 GLU B 133 -67.93 -25.75 REMARK 500 THR B 139 -12.75 -48.28 REMARK 500 VAL B 142 -88.57 -59.00 REMARK 500 VAL B 143 -49.82 -22.82 REMARK 500 ALA B 149 -18.22 -44.59 REMARK 500 ASN B 159 38.10 -142.96 REMARK 500 GLU B 179 -91.67 -54.53 REMARK 500 ASP B 180 -30.37 -39.28 REMARK 500 ALA B 181 -70.11 -42.11 REMARK 500 ASP B 183 -73.28 -54.35 REMARK 500 LYS B 190 -76.51 -69.19 REMARK 500 ALA B 193 -77.69 -45.83 REMARK 500 ASP B 222 46.72 -105.19 REMARK 500 ASP B 225 -21.81 123.85 REMARK 500 GLU B 239 -25.84 -32.14 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 2 ARG A 3 -148.26 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 ARG A 205 0.12 SIDE CHAIN REMARK 500 ARG B 189 0.09 SIDE CHAIN REMARK 500 ARG B 247 0.13 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEETS PRESENTED AS *BLA* AND *BLB* ON SHEET RECORDS REMARK 700 BELOW ARE ACTUALLY EIGHT-STRANDED BETA-BARRELS. THIS IS REMARK 700 REPRESENTED BY A NINE-STRANDED SHEET IN WHICH THE FIRST AND REMARK 700 LAST STRANDS ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGA A 249 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGA B 249 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUE NUMBERING IN EACH CHAIN IS SEQUENTIAL STARTING REMARK 999 WITH 2. DBREF 2YPI A 2 248 UNP P00942 TPIS_YEAST 1 247 DBREF 2YPI B 2 248 UNP P00942 TPIS_YEAST 1 247 SEQRES 1 A 247 ALA ARG THR PHE PHE VAL GLY GLY ASN PHE LYS LEU ASN SEQRES 2 A 247 GLY SER LYS GLN SER ILE LYS GLU ILE VAL GLU ARG LEU SEQRES 3 A 247 ASN THR ALA SER ILE PRO GLU ASN VAL GLU VAL VAL ILE SEQRES 4 A 247 CYS PRO PRO ALA THR TYR LEU ASP TYR SER VAL SER LEU SEQRES 5 A 247 VAL LYS LYS PRO GLN VAL THR VAL GLY ALA GLN ASN ALA SEQRES 6 A 247 TYR LEU LYS ALA SER GLY ALA PHE THR GLY GLU ASN SER SEQRES 7 A 247 VAL ASP GLN ILE LYS ASP VAL GLY ALA LYS TRP VAL ILE SEQRES 8 A 247 LEU GLY HIS SER GLU ARG ARG SER TYR PHE HIS GLU ASP SEQRES 9 A 247 ASP LYS PHE ILE ALA ASP LYS THR LYS PHE ALA LEU GLY SEQRES 10 A 247 GLN GLY VAL GLY VAL ILE LEU CYS ILE GLY GLU THR LEU SEQRES 11 A 247 GLU GLU LYS LYS ALA GLY LYS THR LEU ASP VAL VAL GLU SEQRES 12 A 247 ARG GLN LEU ASN ALA VAL LEU GLU GLU VAL LYS ASP TRP SEQRES 13 A 247 THR ASN VAL VAL VAL ALA TYR GLU PRO VAL TRP ALA ILE SEQRES 14 A 247 GLY THR GLY LEU ALA ALA THR PRO GLU ASP ALA GLN ASP SEQRES 15 A 247 ILE HIS ALA SER ILE ARG LYS PHE LEU ALA SER LYS LEU SEQRES 16 A 247 GLY ASP LYS ALA ALA SER GLU LEU ARG ILE LEU TYR GLY SEQRES 17 A 247 GLY SER ALA ASN GLY SER ASN ALA VAL THR PHE LYS ASP SEQRES 18 A 247 LYS ALA ASP VAL ASP GLY PHE LEU VAL GLY GLY ALA SER SEQRES 19 A 247 LEU LYS PRO GLU PHE VAL ASP ILE ILE ASN SER ARG ASN SEQRES 1 B 247 ALA ARG THR PHE PHE VAL GLY GLY ASN PHE LYS LEU ASN SEQRES 2 B 247 GLY SER LYS GLN SER ILE LYS GLU ILE VAL GLU ARG LEU SEQRES 3 B 247 ASN THR ALA SER ILE PRO GLU ASN VAL GLU VAL VAL ILE SEQRES 4 B 247 CYS PRO PRO ALA THR TYR LEU ASP TYR SER VAL SER LEU SEQRES 5 B 247 VAL LYS LYS PRO GLN VAL THR VAL GLY ALA GLN ASN ALA SEQRES 6 B 247 TYR LEU LYS ALA SER GLY ALA PHE THR GLY GLU ASN SER SEQRES 7 B 247 VAL ASP GLN ILE LYS ASP VAL GLY ALA LYS TRP VAL ILE SEQRES 8 B 247 LEU GLY HIS SER GLU ARG ARG SER TYR PHE HIS GLU ASP SEQRES 9 B 247 ASP LYS PHE ILE ALA ASP LYS THR LYS PHE ALA LEU GLY SEQRES 10 B 247 GLN GLY VAL GLY VAL ILE LEU CYS ILE GLY GLU THR LEU SEQRES 11 B 247 GLU GLU LYS LYS ALA GLY LYS THR LEU ASP VAL VAL GLU SEQRES 12 B 247 ARG GLN LEU ASN ALA VAL LEU GLU GLU VAL LYS ASP TRP SEQRES 13 B 247 THR ASN VAL VAL VAL ALA TYR GLU PRO VAL TRP ALA ILE SEQRES 14 B 247 GLY THR GLY LEU ALA ALA THR PRO GLU ASP ALA GLN ASP SEQRES 15 B 247 ILE HIS ALA SER ILE ARG LYS PHE LEU ALA SER LYS LEU SEQRES 16 B 247 GLY ASP LYS ALA ALA SER GLU LEU ARG ILE LEU TYR GLY SEQRES 17 B 247 GLY SER ALA ASN GLY SER ASN ALA VAL THR PHE LYS ASP SEQRES 18 B 247 LYS ALA ASP VAL ASP GLY PHE LEU VAL GLY GLY ALA SER SEQRES 19 B 247 LEU LYS PRO GLU PHE VAL ASP ILE ILE ASN SER ARG ASN HET PGA A 249 9 HET PGA B 249 9 HETNAM PGA 2-PHOSPHOGLYCOLIC ACID FORMUL 3 PGA 2(C2 H5 O6 P) FORMUL 5 HOH *25(H2 O) HELIX 1 AA SER A 16 ALA A 30 1 15 HELIX 2 BA TYR A 46 VAL A 54 1 9 HELIX 3 CA SER A 79 GLY A 87 1 9 HELIX 4 D1A HIS A 95 PHE A 102 1 8 HELIX 5 D2A ASP A 105 GLY A 120 1 16 HELIX 6 E1A THR A 130 GLY A 137 1 8 HELIX 7 E2A LYS A 138 VAL A 154 1 17 HELIX 8 F1A THR A 177 LEU A 196 1 20 HELIX 9 F2A GLY A 197 LEU A 204 1 8 HELIX 10 GA ASN A 213 LYS A 221 5 9 HELIX 11 H1A GLY A 232 LYS A 237 5 6 HELIX 12 H2A GLU A 239 SER A 246 1 8 HELIX 13 AB SER B 16 ALA B 30 1 15 HELIX 14 BB TYR B 46 VAL B 54 1 9 HELIX 15 CB SER B 79 GLY B 87 1 9 HELIX 16 D1B HIS B 95 PHE B 102 1 8 HELIX 17 D2B ASP B 105 GLY B 120 1 16 HELIX 18 E1B THR B 130 GLY B 137 1 8 HELIX 19 E2B LYS B 138 VAL B 154 1 17 HELIX 20 F1B THR B 177 LEU B 196 1 20 HELIX 21 F2B GLY B 197 LEU B 204 1 8 HELIX 22 GB ASN B 213 LYS B 221 5 9 HELIX 23 H1B GLY B 232 LYS B 237 5 6 HELIX 24 H2B GLU B 239 SER B 246 1 8 SHEET 1 BLA 9 PHE A 5 PHE A 11 0 SHEET 2 BLA 9 GLU A 37 CYS A 41 1 N VAL A 39 O VAL A 7 SHEET 3 BLA 9 GLN A 58 ALA A 63 1 N THR A 60 O VAL A 38 SHEET 4 BLA 9 LYS A 89 LEU A 93 1 N TRP A 90 O VAL A 61 SHEET 5 BLA 9 GLY A 122 ILE A 127 1 N ILE A 124 O VAL A 91 SHEET 6 BLA 9 ASN A 159 GLU A 165 1 N ALA A 163 O LEU A 125 SHEET 7 BLA 9 ARG A 205 GLY A 209 1 N LEU A 207 O VAL A 162 SHEET 8 BLA 9 ASP A 227 VAL A 231 1 N LEU A 230 O TYR A 208 SHEET 9 BLA 9 PHE A 5 PHE A 11 1 N GLY A 8 O PHE A 229 SHEET 1 BLB 9 PHE B 5 PHE B 11 0 SHEET 2 BLB 9 GLU B 37 CYS B 41 1 N VAL B 39 O VAL B 7 SHEET 3 BLB 9 GLN B 58 ALA B 63 1 N THR B 60 O VAL B 38 SHEET 4 BLB 9 LYS B 89 LEU B 93 1 N TRP B 90 O VAL B 61 SHEET 5 BLB 9 GLY B 122 ILE B 127 1 N ILE B 124 O VAL B 91 SHEET 6 BLB 9 ASN B 159 GLU B 165 1 N ALA B 163 O LEU B 125 SHEET 7 BLB 9 ARG B 205 GLY B 209 1 N LEU B 207 O VAL B 162 SHEET 8 BLB 9 ASP B 227 VAL B 231 1 N LEU B 230 O TYR B 208 SHEET 9 BLB 9 PHE B 5 PHE B 11 1 N GLY B 8 O PHE B 229 SITE 1 AC1 13 ASN A 10 LYS A 12 HIS A 95 GLU A 165 SITE 2 AC1 13 ALA A 169 ILE A 170 GLY A 171 GLY A 210 SITE 3 AC1 13 SER A 211 ALA A 212 GLY A 232 GLY A 233 SITE 4 AC1 13 HOH A 640 SITE 1 AC2 13 LYS B 12 HIS B 95 GLU B 165 ALA B 169 SITE 2 AC2 13 ILE B 170 GLY B 171 GLY B 210 SER B 211 SITE 3 AC2 13 LEU B 230 GLY B 232 GLY B 233 HOH B 641 SITE 4 AC2 13 HOH B 643 CRYST1 74.350 83.970 38.670 90.00 99.70 90.00 P 1 21 1 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 0.013450 0.000000 0.002299 0.00000 SCALE2 0.000000 0.011909 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026235 0.00000 MTRIX1 1 -0.997600 -0.069460 -0.000060 150.09914 1 MTRIX2 1 -0.069380 0.997510 0.019220 4.34466 1 MTRIX3 1 -0.001470 0.018510 -1.001110 102.84370 1