HEADER TRANSCRIPTION/DNA 04-JAN-95 1PYI TITLE CRYSTAL STRUCTURE OF A PPR1-DNA COMPLEX: DNA RECOGNITION BY TITLE 2 PROTEINS CONTAINING A ZN2CYS6 BINUCLEAR CLUSTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*TP*CP*GP*GP*CP*AP*AP*TP*TP*GP*CP*CP*GP*A)-3'); COMPND 4 CHAIN: D, E; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PROTEIN (PYRIMIDINE PATHWAY REGULATOR 1); COMPND 8 CHAIN: A, B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 5 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 6 ORGANISM_TAXID: 4932; SOURCE 7 GENE: YSCPPR1 (ACCESSION X01739); SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_CELL: BL21 (PLYSS); SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PRSETA; SOURCE 12 EXPRESSION_SYSTEM_GENE: YSCPPR1 (ACCESSION X01739) KEYWDS PROTEIN-DNA COMPLEX, TRANSCRIPTION/DNA COMPLEX, GAL4, ZINC KEYWDS 2 FINGER, ZN2CYS6, BINUCLEAR CLUSTER, TRANSCRIPTION FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR R.MARMORSTEIN,S.C.HARRISON REVDAT 2 24-FEB-09 1PYI 1 VERSN REVDAT 1 27-FEB-95 1PYI 0 JRNL AUTH R.MARMORSTEIN,S.C.HARRISON JRNL TITL CRYSTAL STRUCTURE OF A PPR1-DNA COMPLEX: DNA JRNL TITL 2 RECOGNITION BY PROTEINS CONTAINING A ZN2CYS6 JRNL TITL 3 BINUCLEAR CLUSTER. JRNL REF GENES DEV. V. 8 2504 1994 JRNL REFN ISSN 0890-9369 JRNL PMID 7958913 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.MARMORSTEIN,M.CAREY,M.PTASHNE,S.C.HARRISON REMARK 1 TITL DNA RECOGNITION BY GAL4: STRUCTURE OF A REMARK 1 TITL 2 PROTEIN-DNA COMPLEX REMARK 1 REF NATURE V. 356 408 1992 REMARK 1 REFN ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 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 : 35480 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) : 0.245 REMARK 3 FREE R VALUE : 0.330 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 : 1253 REMARK 3 NUCLEIC ACID ATOMS : 568 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 1 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 1PYI 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 : 09-OCT-93 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : XENTRONICS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7096 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.06400 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 (%): 55.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 26.90000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.30000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 87.35000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.90000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.30000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 87.35000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.90000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.30000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 87.35000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.90000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 46.30000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 87.35000 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, 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 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 MET A 28 REMARK 465 LYS A 29 REMARK 465 LYS A 118 REMARK 465 TYR A 119 REMARK 465 SER A 120 REMARK 465 SER A 121 REMARK 465 VAL A 122 REMARK 465 SER A 123 REMARK 465 MET B 28 REMARK 465 LYS B 29 REMARK 465 LYS B 100 REMARK 465 ILE B 101 REMARK 465 ARG B 102 REMARK 465 GLY B 103 REMARK 465 ASN B 104 REMARK 465 ILE B 105 REMARK 465 PRO B 106 REMARK 465 ALA B 107 REMARK 465 THR B 108 REMARK 465 SER B 109 REMARK 465 ASP B 110 REMARK 465 ASP B 111 REMARK 465 GLU B 112 REMARK 465 PRO B 113 REMARK 465 PHE B 114 REMARK 465 ASP B 115 REMARK 465 LEU B 116 REMARK 465 LYS B 117 REMARK 465 LYS B 118 REMARK 465 TYR B 119 REMARK 465 SER B 120 REMARK 465 SER B 121 REMARK 465 VAL B 122 REMARK 465 SER B 123 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 DA D 7 O3' DA D 7 C3' -0.066 REMARK 500 DT D 8 C1' DT D 8 N1 -0.089 REMARK 500 DT D 9 C1' DT D 9 N1 0.120 REMARK 500 DT D 9 C2 DT D 9 N3 0.061 REMARK 500 DT D 9 N3 DT D 9 C4 0.052 REMARK 500 DT D 9 C4 DT D 9 C5 -0.078 REMARK 500 DT D 9 C6 DT D 9 N1 0.046 REMARK 500 DG D 13 O3' DG D 13 C3' 0.099 REMARK 500 DA E 20 N9 DA E 20 C4 0.036 REMARK 500 DA E 21 O3' DA E 21 C3' -0.049 REMARK 500 DT E 23 C5 DT E 23 C7 0.052 REMARK 500 GLU A 58 CD GLU A 58 OE2 0.066 REMARK 500 GLU B 58 CD GLU B 58 OE1 0.070 REMARK 500 PRO B 73 CD PRO B 73 N 0.132 REMARK 500 GLU B 81 CD GLU B 81 OE2 0.066 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 DT D 1 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DT D 1 O4' - C1' - N1 ANGL. DEV. = -5.6 DEGREES REMARK 500 DG D 3 O5' - P - OP2 ANGL. DEV. = -5.8 DEGREES REMARK 500 DG D 3 N3 - C2 - N2 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG D 4 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 DC D 5 C5' - C4' - C3' ANGL. DEV. = 8.4 DEGREES REMARK 500 DC D 5 O4' - C1' - C2' ANGL. DEV. = -6.1 DEGREES REMARK 500 DA D 7 P - O5' - C5' ANGL. DEV. = -11.0 DEGREES REMARK 500 DA D 7 O4' - C1' - N9 ANGL. DEV. = -6.6 DEGREES REMARK 500 DT D 8 P - O5' - C5' ANGL. DEV. = -17.0 DEGREES REMARK 500 DT D 8 C1' - O4' - C4' ANGL. DEV. = -7.5 DEGREES REMARK 500 DT D 8 O4' - C1' - N1 ANGL. DEV. = -6.4 DEGREES REMARK 500 DT D 8 C6 - N1 - C2 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT D 9 O4' - C4' - C3' ANGL. DEV. = -5.2 DEGREES REMARK 500 DT D 9 O4' - C1' - C2' ANGL. DEV. = -5.5 DEGREES REMARK 500 DT D 9 N1 - C1' - C2' ANGL. DEV. = 8.5 DEGREES REMARK 500 DT D 9 C6 - N1 - C2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DT D 9 N3 - C4 - O4 ANGL. DEV. = 9.4 DEGREES REMARK 500 DT D 9 C5 - C4 - O4 ANGL. DEV. = -15.4 DEGREES REMARK 500 DT D 9 C4 - C5 - C7 ANGL. DEV. = -17.2 DEGREES REMARK 500 DT D 9 C6 - C5 - C7 ANGL. DEV. = 16.7 DEGREES REMARK 500 DG D 10 OP1 - P - OP2 ANGL. DEV. = -9.3 DEGREES REMARK 500 DG D 10 C5' - C4' - O4' ANGL. DEV. = 8.9 DEGREES REMARK 500 DG D 10 N3 - C4 - N9 ANGL. DEV. = -4.0 DEGREES REMARK 500 DC D 11 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DC D 11 C3' - C2' - C1' ANGL. DEV. = -6.4 DEGREES REMARK 500 DG D 10 C3' - O3' - P ANGL. DEV. = -10.4 DEGREES REMARK 500 DG D 13 O4' - C1' - N9 ANGL. DEV. = 6.5 DEGREES REMARK 500 DG D 13 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DC D 12 C3' - O3' - P ANGL. DEV. = -9.7 DEGREES REMARK 500 DA D 14 P - O5' - C5' ANGL. DEV. = 12.5 DEGREES REMARK 500 DA D 14 C1' - O4' - C4' ANGL. DEV. = -7.1 DEGREES REMARK 500 DA D 14 O4' - C1' - N9 ANGL. DEV. = 9.3 DEGREES REMARK 500 DG D 13 C3' - O3' - P ANGL. DEV. = 7.9 DEGREES REMARK 500 DT E 15 O4' - C1' - C2' ANGL. DEV. = -7.2 DEGREES REMARK 500 DT E 15 O4' - C1' - N1 ANGL. DEV. = -6.6 DEGREES REMARK 500 DC E 16 C4' - C3' - C2' ANGL. DEV. = -5.3 DEGREES REMARK 500 DC E 16 O4' - C1' - N1 ANGL. DEV. = 6.8 DEGREES REMARK 500 DG E 18 P - O5' - C5' ANGL. DEV. = -11.8 DEGREES REMARK 500 DG E 18 O4' - C1' - N9 ANGL. DEV. = 6.8 DEGREES REMARK 500 DC E 19 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA E 20 C5' - C4' - O4' ANGL. DEV. = 6.7 DEGREES REMARK 500 DA E 21 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 DA E 21 O4' - C1' - N9 ANGL. DEV. = -6.7 DEGREES REMARK 500 DT E 22 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT E 22 C5 - C6 - N1 ANGL. DEV. = -4.1 DEGREES REMARK 500 DT E 23 P - O5' - C5' ANGL. DEV. = -10.8 DEGREES REMARK 500 DT E 23 C4 - C5 - C6 ANGL. DEV. = -4.2 DEGREES REMARK 500 DT E 23 C6 - C5 - C7 ANGL. DEV. = 6.8 DEGREES REMARK 500 DG E 24 O5' - C5' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 92 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 35 -32.03 -37.22 REMARK 500 ARG A 36 -77.56 -67.34 REMARK 500 CYS A 44 116.57 -34.03 REMARK 500 GLN A 46 44.16 -19.76 REMARK 500 ALA A 55 -71.89 -49.24 REMARK 500 GLU A 58 -10.11 87.19 REMARK 500 PRO A 66 -71.46 -45.33 REMARK 500 ALA A 67 -83.25 -51.14 REMARK 500 TYR A 94 4.18 -58.69 REMARK 500 ASP A 97 -104.55 -149.07 REMARK 500 ILE A 101 -110.07 -117.74 REMARK 500 ARG A 102 -67.95 175.72 REMARK 500 ILE A 105 -61.91 -91.44 REMARK 500 ALA A 107 6.48 -62.93 REMARK 500 PHE A 114 136.84 -26.77 REMARK 500 ASP A 115 -76.73 72.69 REMARK 500 THR B 32 112.38 -164.37 REMARK 500 LYS B 35 -80.04 -52.64 REMARK 500 ASP B 45 8.13 -58.99 REMARK 500 SER B 50 111.25 -169.47 REMARK 500 GLU B 93 -7.44 -51.84 REMARK 500 VAL B 96 -144.77 -81.44 REMARK 500 ASP B 97 -139.82 -168.97 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 DG D 3 0.06 SIDE_CHAIN REMARK 500 DT D 9 0.09 SIDE_CHAIN REMARK 500 ASN A 104 0.10 SIDE_CHAIN REMARK 500 ASP A 111 0.07 SIDE_CHAIN 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 ZN A 21 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 54 SG REMARK 620 2 CYS A 34 SG 102.3 REMARK 620 3 CYS A 51 SG 115.8 99.7 REMARK 620 4 CYS A 61 SG 118.2 119.1 100.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 22 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 34 SG REMARK 620 2 CYS A 51 SG 98.1 REMARK 620 3 CYS A 37 SG 93.6 117.2 REMARK 620 4 CYS A 44 SG 126.9 100.0 120.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 321 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 61 SG REMARK 620 2 CYS B 34 SG 115.5 REMARK 620 3 CYS B 54 SG 126.2 96.1 REMARK 620 4 CYS B 51 SG 116.1 98.5 99.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 322 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 51 SG REMARK 620 2 CYS B 34 SG 99.7 REMARK 620 3 CYS B 37 SG 135.9 97.2 REMARK 620 4 CYS B 44 SG 100.9 114.1 108.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 21 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 22 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 321 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 322 DBREF 1PYI A 29 123 UNP P07272 PPR1_YEAST 29 123 DBREF 1PYI B 29 123 UNP P07272 PPR1_YEAST 29 123 DBREF 1PYI D 1 14 PDB 1PYI 1PYI 1 14 DBREF 1PYI E 15 28 PDB 1PYI 1PYI 15 28 SEQRES 1 D 14 DT DC DG DG DC DA DA DT DT DG DC DC DG SEQRES 2 D 14 DA SEQRES 1 E 14 DT DC DG DG DC DA DA DT DT DG DC DC DG SEQRES 2 E 14 DA SEQRES 1 A 96 MET LYS SER ARG THR ALA CYS LYS ARG CYS ARG LEU LYS SEQRES 2 A 96 LYS ILE LYS CYS ASP GLN GLU PHE PRO SER CYS LYS ARG SEQRES 3 A 96 CYS ALA LYS LEU GLU VAL PRO CYS VAL SER LEU ASP PRO SEQRES 4 A 96 ALA THR GLY LYS ASP VAL PRO ARG SER TYR VAL PHE PHE SEQRES 5 A 96 LEU GLU ASP ARG LEU ALA VAL MET MET ARG VAL LEU LYS SEQRES 6 A 96 GLU TYR GLY VAL ASP PRO THR LYS ILE ARG GLY ASN ILE SEQRES 7 A 96 PRO ALA THR SER ASP ASP GLU PRO PHE ASP LEU LYS LYS SEQRES 8 A 96 TYR SER SER VAL SER SEQRES 1 B 96 MET LYS SER ARG THR ALA CYS LYS ARG CYS ARG LEU LYS SEQRES 2 B 96 LYS ILE LYS CYS ASP GLN GLU PHE PRO SER CYS LYS ARG SEQRES 3 B 96 CYS ALA LYS LEU GLU VAL PRO CYS VAL SER LEU ASP PRO SEQRES 4 B 96 ALA THR GLY LYS ASP VAL PRO ARG SER TYR VAL PHE PHE SEQRES 5 B 96 LEU GLU ASP ARG LEU ALA VAL MET MET ARG VAL LEU LYS SEQRES 6 B 96 GLU TYR GLY VAL ASP PRO THR LYS ILE ARG GLY ASN ILE SEQRES 7 B 96 PRO ALA THR SER ASP ASP GLU PRO PHE ASP LEU LYS LYS SEQRES 8 B 96 TYR SER SER VAL SER HET ZN A 21 1 HET ZN A 22 1 HET ZN B 321 1 HET ZN B 322 1 HETNAM ZN ZINC ION FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *(H2 O) HELIX 1 1 LYS A 35 LYS A 40 1 6 HELIX 2 2 LYS A 52 LYS A 56 1 5 HELIX 3 3 ARG A 74 GLU A 93 1 20 HELIX 4 4 LYS B 35 LYS B 40 1 6 HELIX 5 5 LYS B 52 LEU B 57 1 6 HELIX 6 6 TYR B 76 TYR B 94 1 19 SHEET 1 A 2 VAL A 62 LEU A 64 0 SHEET 2 A 2 ASP A 71 PRO A 73 -1 N VAL A 72 O SER A 63 LINK ZN ZN A 21 SG CYS A 54 1555 1555 2.27 LINK ZN ZN A 21 SG CYS A 34 1555 1555 2.29 LINK ZN ZN A 21 SG CYS A 51 1555 1555 2.43 LINK ZN ZN A 21 SG CYS A 61 1555 1555 2.22 LINK ZN ZN A 22 SG CYS A 34 1555 1555 2.48 LINK ZN ZN A 22 SG CYS A 51 1555 1555 2.29 LINK ZN ZN A 22 SG CYS A 37 1555 1555 2.21 LINK ZN ZN A 22 SG CYS A 44 1555 1555 2.16 LINK ZN ZN B 321 SG CYS B 61 1555 1555 2.28 LINK ZN ZN B 321 SG CYS B 34 1555 1555 2.37 LINK ZN ZN B 321 SG CYS B 54 1555 1555 2.25 LINK ZN ZN B 321 SG CYS B 51 1555 1555 2.33 LINK ZN ZN B 322 SG CYS B 51 1555 1555 2.35 LINK ZN ZN B 322 SG CYS B 34 1555 1555 2.31 LINK ZN ZN B 322 SG CYS B 37 1555 1555 2.30 LINK ZN ZN B 322 SG CYS B 44 1555 1555 2.28 CISPEP 1 PHE A 48 PRO A 49 0 4.95 CISPEP 2 PHE B 48 PRO B 49 0 5.81 SITE 1 AC1 5 ZN A 22 CYS A 34 CYS A 51 CYS A 54 SITE 2 AC1 5 CYS A 61 SITE 1 AC2 5 ZN A 21 CYS A 34 CYS A 37 CYS A 44 SITE 2 AC2 5 CYS A 51 SITE 1 AC3 5 CYS B 34 CYS B 51 CYS B 54 CYS B 61 SITE 2 AC3 5 ZN B 322 SITE 1 AC4 5 CYS B 34 CYS B 37 CYS B 44 CYS B 51 SITE 2 AC4 5 ZN B 321 CRYST1 53.800 92.600 174.700 90.00 90.00 90.00 I 2 2 2 16 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 0.018587 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010799 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005724 0.00000