HEADER TRANSFERASE 03-SEP-98 2DIK TITLE R337A MUTANT OF PYRUVATE PHOSPHATE DIKINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PYRUVATE PHOSPHATE DIKINASE); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PPDK; COMPND 5 EC: 2.7.9.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM SYMBIOSUM; SOURCE 3 ORGANISM_TAXID: 1512; SOURCE 4 STRAIN: JM 101; SOURCE 5 GENE: PPDK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM 101; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PACYC184D-12; SOURCE 10 EXPRESSION_SYSTEM_GENE: PPDK KEYWDS PHOSPHOTRANSFERASE, KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.HUANG,O.HERZBERG REVDAT 9 23-AUG-23 2DIK 1 REMARK REVDAT 8 03-NOV-21 2DIK 1 REMARK SEQADV REVDAT 7 04-OCT-17 2DIK 1 REMARK REVDAT 6 13-JUL-11 2DIK 1 VERSN REVDAT 5 24-FEB-09 2DIK 1 VERSN REVDAT 4 01-APR-03 2DIK 1 JRNL REVDAT 3 28-MAR-00 2DIK 4 HEADER COMPND REMARK JRNL REVDAT 3 2 4 ATOM SOURCE SEQRES REVDAT 2 13-SEP-99 2DIK 1 REVDAT 1 13-SEP-99 2DIK 0 SPRSDE 13-SEP-99 2DIK 1BUK JRNL AUTH M.MCGUIRE,K.HUANG,G.KAPADIA,O.HERZBERG,D.DUNAWAY-MARIANO JRNL TITL LOCATION OF THE PHOSPHATE BINDING SITE WITHIN CLOSTRIDIUM JRNL TITL 2 SYMBIOSUM PYRUVATE PHOSPHATE DIKINASE. JRNL REF BIOCHEMISTRY V. 37 13463 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9753432 JRNL DOI 10.1021/BI980920I REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.HERZBERG,C.C.H.CHENG,G.KAPADIA,M.MCGUIRE,L.J.CARROLL, REMARK 1 AUTH 2 S.J.NOH,D.DUNAWAY-MARIANO REMARK 1 TITL SWIVELING-DOMAIN MECHANISM FOR ENZYMATIC PHOSPHOTRANSFER REMARK 1 TITL 2 BETWEEN REMOTE REACTION SITES REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 93 2652 1996 REMARK 1 REFN ISSN 0027-8424 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 75.0 REMARK 3 NUMBER OF REFLECTIONS : 26796 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.185 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 USING ALL DATA, NO SIGMA CUTOFF. 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 : 6724 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 44 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.018 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.790 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : 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 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DIK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUN-99. REMARK 100 THE DEPOSITION ID IS D_1000008321. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : X-GEN REMARK 200 DATA SCALING SOFTWARE : X-GEN REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35455 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 9.90000 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) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.0 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 <I/SIGMA(I)> 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: NULL REMARK 200 STARTING MODEL: 1DIK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.0, TEMPERATURE 303K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 2560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 64850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -63.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 89.80000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 A 901 LIES ON A SPECIAL POSITION. 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 TYR A 506 REMARK 465 LYS A 507 REMARK 465 GLY A 508 REMARK 465 ASP A 509 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 CE LYS A 121 NZ LYS A 732 1554 1.65 REMARK 500 CG GLU A 117 CG LYS A 732 1554 1.79 REMARK 500 OE1 GLU A 117 CE LYS A 732 1554 1.84 REMARK 500 CD GLU A 117 CD LYS A 732 1554 2.00 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 GLU A 9 CD GLU A 9 OE2 0.082 REMARK 500 GLU A 10 CD GLU A 10 OE1 0.072 REMARK 500 GLU A 28 CD GLU A 28 OE2 0.079 REMARK 500 GLU A 49 CD GLU A 49 OE1 0.070 REMARK 500 GLU A 60 CD GLU A 60 OE1 0.087 REMARK 500 GLU A 67 CD GLU A 67 OE2 0.085 REMARK 500 GLU A 84 CD GLU A 84 OE2 0.069 REMARK 500 GLU A 117 CD GLU A 117 OE2 0.078 REMARK 500 GLU A 153 CD GLU A 153 OE2 0.073 REMARK 500 GLU A 162 CD GLU A 162 OE2 0.070 REMARK 500 GLU A 178 CD GLU A 178 OE2 0.082 REMARK 500 GLU A 181 CD GLU A 181 OE2 0.081 REMARK 500 GLU A 194 CD GLU A 194 OE2 0.076 REMARK 500 GLU A 195 CD GLU A 195 OE2 0.072 REMARK 500 GLU A 199 CD GLU A 199 OE1 0.069 REMARK 500 GLU A 249 CD GLU A 249 OE1 0.105 REMARK 500 GLU A 265 CD GLU A 265 OE1 0.111 REMARK 500 GLU A 271 CD GLU A 271 OE2 0.073 REMARK 500 GLU A 279 CD GLU A 279 OE2 0.070 REMARK 500 GLU A 295 CD GLU A 295 OE1 0.084 REMARK 500 GLU A 313 CD GLU A 313 OE1 -0.076 REMARK 500 GLU A 323 CD GLU A 323 OE2 0.101 REMARK 500 GLU A 327 CD GLU A 327 OE2 0.067 REMARK 500 GLU A 361 CD GLU A 361 OE1 0.084 REMARK 500 GLU A 363 CD GLU A 363 OE1 0.091 REMARK 500 GLU A 369 CD GLU A 369 OE1 0.087 REMARK 500 GLU A 390 CD GLU A 390 OE2 0.077 REMARK 500 GLU A 419 CD GLU A 419 OE1 0.068 REMARK 500 GLU A 430 CD GLU A 430 OE1 0.080 REMARK 500 GLU A 434 CD GLU A 434 OE1 0.089 REMARK 500 GLU A 437 CD GLU A 437 OE1 0.092 REMARK 500 GLU A 443 CD GLU A 443 OE2 0.076 REMARK 500 GLU A 473 CD GLU A 473 OE2 0.071 REMARK 500 GLU A 478 CD GLU A 478 OE2 0.066 REMARK 500 GLU A 479 CD GLU A 479 OE2 0.069 REMARK 500 GLU A 484 CD GLU A 484 OE2 0.073 REMARK 500 GLU A 511 CD GLU A 511 OE1 0.069 REMARK 500 GLU A 544 CD GLU A 544 OE2 0.074 REMARK 500 GLU A 568 CD GLU A 568 OE2 0.086 REMARK 500 GLU A 585 CD GLU A 585 OE2 0.077 REMARK 500 GLU A 589 CD GLU A 589 OE1 0.077 REMARK 500 GLU A 593 CD GLU A 593 OE2 0.073 REMARK 500 GLU A 610 CD GLU A 610 OE2 0.102 REMARK 500 GLU A 625 CD GLU A 625 OE1 0.109 REMARK 500 GLU A 632 CD GLU A 632 OE2 0.079 REMARK 500 GLU A 633 CD GLU A 633 OE1 0.080 REMARK 500 GLU A 636 CD GLU A 636 OE2 0.087 REMARK 500 GLU A 647 CD GLU A 647 OE1 0.070 REMARK 500 GLU A 654 CD GLU A 654 OE1 0.073 REMARK 500 GLU A 675 CD GLU A 675 OE2 0.085 REMARK 500 REMARK 500 THIS ENTRY HAS 61 BOND DEVIATIONS. 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 16 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP A 63 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 82 CB - CG - OD1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ASP A 82 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG A 92 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 PRO A 100 C - N - CA ANGL. DEV. = 12.2 DEGREES REMARK 500 PRO A 100 C - N - CD ANGL. DEV. = -14.7 DEGREES REMARK 500 ASP A 104 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP A 104 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 PRO A 126 C - N - CD ANGL. DEV. = -13.8 DEGREES REMARK 500 ASP A 131 CB - CG - OD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 PRO A 148 C - N - CD ANGL. DEV. = -23.7 DEGREES REMARK 500 ASP A 157 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP A 174 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 175 CB - CG - OD1 ANGL. DEV. = -7.1 DEGREES REMARK 500 PRO A 197 C - N - CD ANGL. DEV. = -14.4 DEGREES REMARK 500 ASP A 216 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG A 219 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 228 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 232 CB - CG - OD1 ANGL. DEV. = -7.2 DEGREES REMARK 500 THR A 250 CA - CB - CG2 ANGL. DEV. = -11.1 DEGREES REMARK 500 ASP A 280 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 VAL A 281 CA - CB - CG1 ANGL. DEV. = 10.7 DEGREES REMARK 500 ASP A 297 CB - CG - OD1 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP A 318 N - CA - CB ANGL. DEV. = -11.6 DEGREES REMARK 500 ASP A 318 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP A 355 CB - CG - OD2 ANGL. DEV. = -7.6 DEGREES REMARK 500 GLU A 369 N - CA - CB ANGL. DEV. = 12.2 DEGREES REMARK 500 LEU A 376 CB - CA - C ANGL. DEV. = -11.5 DEGREES REMARK 500 ASP A 412 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 428 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 461 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 494 CB - CG - OD1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 523 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ASP A 529 CB - CG - OD1 ANGL. DEV. = 9.8 DEGREES REMARK 500 ASP A 529 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 576 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 582 CB - CG - OD2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ARG A 612 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 612 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 617 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 617 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 653 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 PRO A 660 C - N - CA ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG A 668 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 GLU A 690 CG - CD - OE2 ANGL. DEV. = -12.5 DEGREES REMARK 500 ASP A 698 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 719 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 GLU A 731 N - CA - CB ANGL. DEV. = 12.0 DEGREES REMARK 500 ASP A 787 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 54 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 LYS A 3 56.57 80.07 REMARK 500 GLU A 10 58.90 -118.32 REMARK 500 ASN A 12 173.23 173.68 REMARK 500 PRO A 35 90.37 -65.15 REMARK 500 SER A 53 40.79 -70.63 REMARK 500 GLN A 64 -36.06 -38.53 REMARK 500 PHE A 80 100.22 -51.90 REMARK 500 ASP A 85 64.60 -153.06 REMARK 500 MET A 99 95.23 -163.31 REMARK 500 PRO A 100 139.13 -39.05 REMARK 500 ASP A 113 -27.19 -30.16 REMARK 500 LYS A 122 8.67 -65.45 REMARK 500 THR A 123 -34.40 -134.46 REMARK 500 ASP A 142 -60.85 -90.69 REMARK 500 MET A 145 100.29 34.72 REMARK 500 LYS A 149 -6.40 -47.04 REMARK 500 PHE A 152 -63.37 -163.34 REMARK 500 ASP A 174 -75.92 -85.75 REMARK 500 MET A 191 -177.69 -172.24 REMARK 500 ASN A 192 28.36 -77.46 REMARK 500 PHE A 196 119.13 -31.03 REMARK 500 TRP A 215 8.18 -57.54 REMARK 500 ASP A 216 28.00 -141.70 REMARK 500 ASP A 232 4.28 -152.97 REMARK 500 TRP A 233 -79.85 -71.07 REMARK 500 GLU A 265 9.62 -46.52 REMARK 500 LYS A 266 141.23 59.33 REMARK 500 ASN A 275 85.60 42.39 REMARK 500 GLU A 279 -8.86 -35.38 REMARK 500 VAL A 285 -127.80 17.76 REMARK 500 ARG A 286 103.73 -26.84 REMARK 500 THR A 287 100.31 -40.73 REMARK 500 ILE A 291 -18.54 -46.63 REMARK 500 LEU A 294 -9.90 -59.58 REMARK 500 ARG A 317 15.82 51.72 REMARK 500 ALA A 388 52.83 -102.44 REMARK 500 VAL A 391 97.67 -65.88 REMARK 500 ALA A 395 -152.89 -170.26 REMARK 500 ALA A 398 -82.72 -66.94 REMARK 500 ASP A 412 -16.11 -41.81 REMARK 500 ALA A 417 31.44 -82.72 REMARK 500 HIS A 418 127.24 71.41 REMARK 500 GLU A 419 -177.49 -42.58 REMARK 500 LYS A 420 74.65 -52.59 REMARK 500 ARG A 423 77.58 48.23 REMARK 500 ILE A 436 -42.72 -23.08 REMARK 500 GLU A 473 8.68 -56.27 REMARK 500 ASN A 477 112.78 -161.45 REMARK 500 SER A 501 -53.74 86.10 REMARK 500 GLN A 513 -84.59 -136.55 REMARK 500 REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS. 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 GLU A 422 0.07 SIDE CHAIN 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 457 -11.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 902 DBREF 2DIK A 2 874 UNP P22983 PPDK_CLOSY 1 873 SEQADV 2DIK ALA A 337 UNP P22983 ARG 337 ENGINEERED MUTATION SEQRES 1 A 873 ALA LYS TRP VAL TYR LYS PHE GLU GLU GLY ASN ALA SER SEQRES 2 A 873 MET ARG ASN LEU LEU GLY GLY LYS GLY CYS ASN LEU ALA SEQRES 3 A 873 GLU MET THR ILE LEU GLY MET PRO ILE PRO GLN GLY PHE SEQRES 4 A 873 THR VAL THR THR GLU ALA CYS THR GLU TYR TYR ASN SER SEQRES 5 A 873 GLY LYS GLN ILE THR GLN GLU ILE GLN ASP GLN ILE PHE SEQRES 6 A 873 GLU ALA ILE THR TRP LEU GLU GLU LEU ASN GLY LYS LYS SEQRES 7 A 873 PHE GLY ASP THR GLU ASP PRO LEU LEU VAL SER VAL ARG SEQRES 8 A 873 SER ALA ALA ARG ALA SER MET PRO GLY MET MET ASP THR SEQRES 9 A 873 ILE LEU ASN LEU GLY LEU ASN ASP VAL ALA VAL GLU GLY SEQRES 10 A 873 PHE ALA LYS LYS THR GLY ASN PRO ARG PHE ALA TYR ASP SEQRES 11 A 873 SER TYR ARG ARG PHE ILE GLN MET TYR SER ASP VAL VAL SEQRES 12 A 873 MET GLU VAL PRO LYS SER HIS PHE GLU LYS ILE ILE ASP SEQRES 13 A 873 ALA MET LYS GLU GLU LYS GLY VAL HIS PHE ASP THR ASP SEQRES 14 A 873 LEU THR ALA ASP ASP LEU LYS GLU LEU ALA GLU LYS PHE SEQRES 15 A 873 LYS ALA VAL TYR LYS GLU ALA MET ASN GLY GLU GLU PHE SEQRES 16 A 873 PRO GLN GLU PRO LYS ASP GLN LEU MET GLY ALA VAL LYS SEQRES 17 A 873 ALA VAL PHE ARG SER TRP ASP ASN PRO ARG ALA ILE VAL SEQRES 18 A 873 TYR ARG ARG MET ASN ASP ILE PRO GLY ASP TRP GLY THR SEQRES 19 A 873 ALA VAL ASN VAL GLN THR MET VAL PHE GLY ASN LYS GLY SEQRES 20 A 873 GLU THR SER GLY THR GLY VAL ALA PHE THR ARG ASN PRO SEQRES 21 A 873 SER THR GLY GLU LYS GLY ILE TYR GLY GLU TYR LEU ILE SEQRES 22 A 873 ASN ALA GLN GLY GLU ASP VAL VAL ALA GLY VAL ARG THR SEQRES 23 A 873 PRO GLN PRO ILE THR GLN LEU GLU ASN ASP MET PRO ASP SEQRES 24 A 873 CYS TYR LYS GLN PHE MET ASP LEU ALA MET LYS LEU GLU SEQRES 25 A 873 LYS HIS PHE ARG ASP MET GLN ASP MET GLU PHE THR ILE SEQRES 26 A 873 GLU GLU GLY LYS LEU TYR PHE LEU GLN THR ALA ASN GLY SEQRES 27 A 873 LYS ARG THR ALA PRO ALA ALA LEU GLN ILE ALA CYS ASP SEQRES 28 A 873 LEU VAL ASP GLU GLY MET ILE THR GLU GLU GLU ALA VAL SEQRES 29 A 873 VAL ARG ILE GLU ALA LYS SER LEU ASP GLN LEU LEU HIS SEQRES 30 A 873 PRO THR PHE ASN PRO ALA ALA LEU LYS ALA GLY GLU VAL SEQRES 31 A 873 ILE GLY SER ALA LEU PRO ALA SER PRO GLY ALA ALA ALA SEQRES 32 A 873 GLY LYS VAL TYR PHE THR ALA ASP GLU ALA LYS ALA ALA SEQRES 33 A 873 HIS GLU LYS GLY GLU ARG VAL ILE LEU VAL ARG LEU GLU SEQRES 34 A 873 THR SER PRO GLU ASP ILE GLU GLY MET HIS ALA ALA GLU SEQRES 35 A 873 GLY ILE LEU THR VAL ARG GLY GLY MET THR SER HIS ALA SEQRES 36 A 873 ALA VAL VAL ALA ARG GLY MET GLY THR CYS CYS VAL SER SEQRES 37 A 873 GLY CYS GLY GLU ILE LYS ILE ASN GLU GLU ALA LYS THR SEQRES 38 A 873 PHE GLU LEU GLY GLY HIS THR PHE ALA GLU GLY ASP TYR SEQRES 39 A 873 ILE SER LEU ASP GLY SER THR GLY LYS ILE TYR LYS GLY SEQRES 40 A 873 ASP ILE GLU THR GLN GLU ALA SER VAL SER GLY SER PHE SEQRES 41 A 873 GLU ARG ILE MET VAL TRP ALA ASP LYS PHE ARG THR LEU SEQRES 42 A 873 LYS VAL ARG THR ASN ALA ASP THR PRO GLU ASP THR LEU SEQRES 43 A 873 ASN ALA VAL LYS LEU GLY ALA GLU GLY ILE GLY LEU CYS SEQRES 44 A 873 ARG THR GLU HIS MET PHE PHE GLU ALA ASP ARG ILE MET SEQRES 45 A 873 LYS ILE ARG LYS MET ILE LEU SER ASP SER VAL GLU ALA SEQRES 46 A 873 ARG GLU GLU ALA LEU ASN GLU LEU ILE PRO PHE GLN LYS SEQRES 47 A 873 GLY ASP PHE LYS ALA MET TYR LYS ALA LEU GLU GLY ARG SEQRES 48 A 873 PRO MET THR VAL ARG TYR LEU ASP PRO PRO LEU HIS GLU SEQRES 49 A 873 PHE VAL PRO HIS THR GLU GLU GLU GLN ALA GLU LEU ALA SEQRES 50 A 873 LYS ASN MET GLY LEU THR LEU ALA GLU VAL LYS ALA LYS SEQRES 51 A 873 VAL ASP GLU LEU HIS GLU PHE ASN PRO MET MET GLY HIS SEQRES 52 A 873 ARG GLY CYS ARG LEU ALA VAL THR TYR PRO GLU ILE ALA SEQRES 53 A 873 LYS MET GLN THR ARG ALA VAL MET GLU ALA ALA ILE GLU SEQRES 54 A 873 VAL LYS GLU GLU THR GLY ILE ASP ILE VAL PRO GLU ILE SEQRES 55 A 873 MET ILE PRO LEU VAL GLY GLU LYS LYS GLU LEU LYS PHE SEQRES 56 A 873 VAL LYS ASP VAL VAL VAL GLU VAL ALA GLU GLN VAL LYS SEQRES 57 A 873 LYS GLU LYS GLY SER ASP MET GLN TYR HIS ILE GLY THR SEQRES 58 A 873 MET ILE GLU ILE PRO ARG ALA ALA LEU THR ALA ASP ALA SEQRES 59 A 873 ILE ALA GLU GLU ALA GLU PHE PHE SER PHE GLY THR ASN SEQRES 60 A 873 ASP LEU THR GLN MET THR PHE GLY PHE SER ARG ASP ASP SEQRES 61 A 873 ALA GLY LYS PHE LEU ASP SER TYR TYR LYS ALA LYS ILE SEQRES 62 A 873 TYR GLU SER ASP PRO PHE ALA ARG LEU ASP GLN THR GLY SEQRES 63 A 873 VAL GLY GLN LEU VAL GLU MET ALA VAL LYS LYS GLY ARG SEQRES 64 A 873 GLN THR ARG PRO GLY LEU LYS CYS GLY ILE CYS GLY GLU SEQRES 65 A 873 HIS GLY GLY ASP PRO SER SER VAL GLU PHE CYS HIS LYS SEQRES 66 A 873 VAL GLY LEU ASN TYR VAL SER CYS SER PRO PHE ARG VAL SEQRES 67 A 873 PRO ILE ALA ARG LEU ALA ALA ALA GLN ALA ALA LEU ASN SEQRES 68 A 873 ASN LYS HET SO4 A 901 5 HET SO4 A 902 5 HETNAM SO4 SULFATE ION FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 HOH *44(H2 O) HELIX 1 1 ALA A 13 LEU A 19 5 7 HELIX 2 2 GLY A 21 LEU A 32 1 12 HELIX 3 3 THR A 44 ASN A 52 1 9 HELIX 4 4 GLN A 59 LEU A 75 1 17 HELIX 5 5 ALA A 115 LYS A 121 1 7 HELIX 6 6 PRO A 126 VAL A 143 1 18 HELIX 7 7 LYS A 149 GLU A 162 5 14 HELIX 8 8 ASP A 168 ASP A 170 5 3 HELIX 9 9 ASP A 175 GLU A 189 1 15 HELIX 10 10 PRO A 200 ASP A 216 1 17 HELIX 11 11 PRO A 218 MET A 226 1 9 HELIX 12 12 GLY A 278 VAL A 281 1 4 HELIX 13 13 GLN A 293 ASP A 297 5 5 HELIX 14 14 PRO A 299 HIS A 315 1 17 HELIX 15 15 ALA A 343 ASP A 355 1 13 HELIX 16 16 GLU A 361 VAL A 366 1 6 HELIX 17 17 ALA A 370 LEU A 377 5 8 HELIX 18 18 PRO A 383 LYS A 387 1 5 HELIX 19 19 ALA A 411 ALA A 414 1 4 HELIX 20 20 ASP A 435 ALA A 441 5 7 HELIX 21 21 HIS A 455 MET A 463 1 9 HELIX 22 22 GLY A 519 PHE A 531 1 13 HELIX 23 23 PRO A 543 LEU A 552 1 10 HELIX 24 24 GLU A 563 PHE A 567 5 5 HELIX 25 25 ALA A 569 LEU A 580 1 12 HELIX 26 26 VAL A 584 LEU A 609 1 26 HELIX 27 27 LEU A 623 PHE A 626 5 4 HELIX 28 28 GLN A 634 MET A 641 1 8 HELIX 29 29 LEU A 645 LEU A 655 1 11 HELIX 30 30 GLY A 666 THR A 672 5 7 HELIX 31 31 PRO A 674 THR A 695 1 22 HELIX 32 32 LYS A 711 VAL A 728 1 18 HELIX 33 33 PRO A 747 LEU A 751 1 5 HELIX 34 34 ALA A 753 ILE A 756 1 4 HELIX 35 35 THR A 767 THR A 774 1 8 HELIX 36 36 ARG A 779 LYS A 784 1 6 HELIX 37 37 LEU A 786 LYS A 791 1 6 HELIX 38 38 VAL A 808 THR A 822 1 15 HELIX 39 39 GLU A 833 GLY A 836 5 4 HELIX 40 40 PRO A 838 VAL A 847 1 10 HELIX 41 41 ARG A 858 ASN A 872 1 15 SHEET 1 A 4 VAL A 5 LYS A 7 0 SHEET 2 A 4 GLY A 39 VAL A 42 -1 N THR A 41 O TYR A 6 SHEET 3 A 4 ALA A 236 THR A 241 -1 N VAL A 239 O PHE A 40 SHEET 4 A 4 VAL A 89 ALA A 94 -1 N ALA A 94 O ALA A 236 SHEET 1 B 4 TYR A 269 ILE A 274 0 SHEET 2 B 4 GLY A 252 PHE A 257 -1 N PHE A 257 O TYR A 269 SHEET 3 B 4 GLN A 320 ILE A 326 -1 N ILE A 326 O GLY A 252 SHEET 4 B 4 LEU A 331 ASN A 338 -1 N ALA A 337 O ASP A 321 SHEET 1 C 2 ALA A 402 GLY A 405 0 SHEET 2 C 2 TYR A 495 LEU A 498 -1 N SER A 497 O ALA A 403 SHEET 1 D 4 LYS A 406 TYR A 408 0 SHEET 2 D 4 VAL A 424 ARG A 428 1 N ILE A 425 O LYS A 406 SHEET 3 D 4 GLY A 444 THR A 447 1 N GLY A 444 O LEU A 426 SHEET 4 D 4 CYS A 466 VAL A 468 1 N CYS A 466 O ILE A 445 SHEET 1 E 2 PHE A 483 LEU A 485 0 SHEET 2 E 2 HIS A 488 PHE A 490 -1 N PHE A 490 O PHE A 483 SHEET 1 F 2 LYS A 535 ASN A 539 0 SHEET 2 F 2 TYR A 851 SER A 855 1 N VAL A 852 O LYS A 535 SHEET 1 G 5 THR A 615 ARG A 617 0 SHEET 2 G 5 GLU A 702 ILE A 705 1 N GLU A 702 O VAL A 616 SHEET 3 G 5 HIS A 739 ILE A 744 1 N HIS A 739 O ILE A 703 SHEET 4 G 5 PHE A 762 PHE A 765 1 N SER A 764 O THR A 742 SHEET 5 G 5 LYS A 827 ILE A 830 1 N LYS A 827 O PHE A 763 SHEET 1 H 2 VAL A 391 SER A 394 0 SHEET 2 H 2 THR A 502 LYS A 504 -1 N GLY A 503 O ILE A 392 SITE 1 AC1 2 ARG A 523 TRP A 527 SITE 1 AC2 1 ARG A 617 CRYST1 89.800 58.800 102.000 90.00 94.80 90.00 P 1 2 1 2 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 0.011136 0.000000 0.000935 0.00000 SCALE2 0.000000 0.017007 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009838 0.00000