PDB Short entry for 3IAB HEADER HYDROLASE/RNA 13-JUL-09 3IAB TITLE CRYSTAL STRUCTURE OF RNASE P /RNASE MRP PROTEINS POP6, POP7 TITLE 2 IN A COMPLEX WITH THE P3 DOMAIN OF RNASE MRP RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASES P/MRP PROTEIN SUBUNIT POP6; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: POP6; COMPND 5 SYNONYM: RNA-PROCESSING PROTEIN POP6, RNASES P/MRP 18.2 KDA COMPND 6 SUBUNIT; COMPND 7 EC: 3.1.26.5; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: RIBONUCLEASES P/MRP PROTEIN SUBUNIT POP7; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: POP7; COMPND 14 SYNONYM: RNA-PROCESSING PROTEIN POP7, RNASES P/MRP 15.8 KDA COMPND 15 SUBUNIT; COMPND 16 EC: 3.1.26.5; COMPND 17 ENGINEERED: YES; COMPND 18 MUTATION: YES; COMPND 19 MOL_ID: 3; COMPND 20 MOLECULE: P3 DOMAIN OF THE RNA COMPONENT OF RNASE MRP; COMPND 21 CHAIN: R; COMPND 22 FRAGMENT: P3 DOMAIN; COMPND 23 EC: 3.1.26.5; COMPND 24 ENGINEERED: YES; COMPND 25 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: POP6, YGR030C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL-21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: 762; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: YEAST; SOURCE 14 ORGANISM_TAXID: 4932; SOURCE 15 GENE: POP7, RPP2, YBR1219, YBR167C; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL-21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: 762; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 OTHER_DETAILS: IN VITRO TRANSCRIPTION; CIRCULAR PERMUTATION SOURCE 24 OF NATURALLY OCCURRING SEQUENCE. KEYWDS RNASE P, RNASE MRP, RIBONUCLEASE P, RIBONUCLEASE MRP, POP6, KEYWDS 2 POP6P, POP7, POP7P, P3, NME1, YEAST, TRNA, PRE-TRNA, RRNA, KEYWDS 3 RIBOZYME, PROTEIN-RNA COMPLEX, ALBA, HETERODIMER, COILED KEYWDS 4 COIL, HYDROLASE, NUCLEUS, RRNA PROCESSING, TRNA PROCESSING, KEYWDS 5 PHOSPHOPROTEIN, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.PEREDERINA,O.A.ESAKOVA,C.QUAN,E.KHANOVA,A.S.KRASILNIKOV REVDAT 2 09-MAR-10 3IAB 1 JRNL REVDAT 1 26-JAN-10 3IAB 0 JRNL AUTH A.PEREDERINA,O.ESAKOVA,C.QUAN,E.KHANOVA, JRNL AUTH 2 A.S.KRASILNIKOV JRNL TITL EUKARYOTIC RIBONUCLEASES P/MRP: THE CRYSTAL JRNL TITL 2 STRUCTURE OF THE P3 DOMAIN JRNL REF EMBO J. V. 29 761 2010 JRNL REFN ISSN 0261-4189 JRNL PMID 20075859 JRNL DOI 10.1038/EMBOJ.2009.396 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 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) (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 16346 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.250 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 821 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3550 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 44 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 : 2049 REMARK 3 NUCLEIC ACID ATOMS : 985 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 82.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 89.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.21900 REMARK 3 B22 (A**2) : -10.21900 REMARK 3 B33 (A**2) : 20.43700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.68 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) : 0.054 REMARK 3 BOND ANGLES (DEGREES) : 1.14 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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: RESIDUES 1-3, 122-128 IN POP6 (CHAIN REMARK 3 A) AND RESIDUES 1-13, 105-124 IN POP7 (CHAIN B) ARE DISORDERED REMARK 4 REMARK 4 3IAB COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUL-09. REMARK 100 THE RCSB ID CODE IS RCSB054162. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16350 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.05700 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) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.37400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 200 MM REMARK 280 POTASSIUM CHLORIDE, 2% PEG 400, 5% D-TREHALOSE, 2 MM ZINC REMARK 280 CHLORIDE, 5 MM MAGNESIUM CHLORIDE, 100 MM HEPES-NA, PH 7.8, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y,X,Z+1/2 REMARK 290 4555 Y,-X,Z+1/2 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z+1/2 REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 38.38300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 38.38300 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.38300 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 38.38300 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -107.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, R 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -283.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, R 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 115.14900 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 ZN ZN B 141 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 MSE A 1 REMARK 465 ILE A 2 REMARK 465 ASN A 3 REMARK 465 ARG A 122 REMARK 465 GLU A 123 REMARK 465 GLY A 124 REMARK 465 ARG A 125 REMARK 465 ASN A 126 REMARK 465 GLU A 127 REMARK 465 LEU A 128 REMARK 465 MSE B 1 REMARK 465 ALA B 2 REMARK 465 LEU B 3 REMARK 465 LYS B 4 REMARK 465 LYS B 5 REMARK 465 ASN B 6 REMARK 465 THR B 7 REMARK 465 HIS B 8 REMARK 465 ASN B 9 REMARK 465 LYS B 10 REMARK 465 SER B 11 REMARK 465 THR B 12 REMARK 465 LYS B 13 REMARK 465 THR B 105 REMARK 465 GLU B 106 REMARK 465 GLY B 107 REMARK 465 GLN B 108 REMARK 465 ALA B 109 REMARK 465 ASP B 110 REMARK 465 ILE B 111 REMARK 465 ASP B 112 REMARK 465 MSE B 113 REMARK 465 GLU B 114 REMARK 465 SER B 115 REMARK 465 ASP B 116 REMARK 465 VAL B 117 REMARK 465 GLU B 118 REMARK 465 ASP B 119 REMARK 465 ASP B 120 REMARK 465 ASP B 121 REMARK 465 LYS B 122 REMARK 465 GLU B 123 REMARK 465 THR B 124 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 ILE A 88 O HOH A 174 2.05 REMARK 500 O2' U R 72 OP2 G R 73 2.10 REMARK 500 OP2 G R 78 O HOH R 15 2.11 REMARK 500 O2' A R 93 OP2 A R 95 2.15 REMARK 500 O TYR A 84 O HOH A 174 2.18 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 A R 94 C2' - C3' - O3' ANGL. DEV. = 11.6 DEGREES 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 GLU A 9 -0.48 67.86 REMARK 500 THR A 29 -56.15 -121.19 REMARK 500 LEU A 152 60.26 -119.37 REMARK 500 ASP B 84 -64.21 -96.24 REMARK 500 ASN B 87 51.84 39.04 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 B 143 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 26 NE2 REMARK 620 2 HIS B 30 NE2 101.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 141 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 143 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE MODEL INCLUDES NUCLEOTIDES 29-50 AND 59-79 OF THE ORIGINAL REMARK 999 YEAST P3 DOMAIN. THE CRYSTALLIZED CONSTRUCT CONTAINS A GAAA REMARK 999 LINKER CONNECTING G78 AND C29 (YEAST NUMBERING). IN THE MODEL, REMARK 999 THE NUMBERING OF NUCLEOTIDES 59 TO 78 MATCHES THAT IN YEAST; THE REMARK 999 MODEL NUCLEOTIDES 79-82 ARE THE LINKER; THE NUMBERING OF REMARK 999 NUCLEOTIDES 83-104 IS SHIFTED RELATIVE TO THAT IN YEAST BY 54 REMARK 999 (YEAST NUCLEOTIDE 29 IS CALLED 83 IN THE MODEL, ETC). DBREF 3IAB A 1 158 UNP P53218 POP6_YEAST 1 158 DBREF 3IAB B 1 140 UNP P38291 POP7_YEAST 1 140 DBREF 3IAB R 59 104 PDB 3IAB 3IAB 59 104 SEQADV 3IAB MSE A 141 UNP P53218 LEU 141 CONFLICT SEQRES 1 A 158 MSE ILE ASN GLY VAL TYR TYR ASN GLU ILE SER ARG ASP SEQRES 2 A 158 LEU ASP ILE SER SER SER THR GLN CYS LEU ARG PHE LEU SEQRES 3 A 158 LYS GLU THR VAL ILE PRO SER LEU ALA ASN ASN GLY ASN SEQRES 4 A 158 ASN SER THR SER ILE GLN TYR HIS GLY ILE SER LYS ASN SEQRES 5 A 158 ASP ASN ILE LYS LYS SER VAL ASN LYS LEU ASP LYS GLN SEQRES 6 A 158 ILE ASN MSE ALA ASP ARG SER LEU GLY LEU GLN GLN VAL SEQRES 7 A 158 VAL CYS ILE PHE SER TYR GLY PRO HIS ILE GLN LYS MSE SEQRES 8 A 158 LEU SER ILE LEU GLU ILE PHE LYS LYS GLY TYR ILE LYS SEQRES 9 A 158 ASN ASN LYS LYS ILE TYR GLN TRP ASN LYS LEU THR SER SEQRES 10 A 158 PHE ASP ILE LYS ARG GLU GLY ARG ASN GLU LEU GLN GLU SEQRES 11 A 158 GLU ARG LEU LYS VAL PRO ILE LEU VAL THR MSE VAL SER SEQRES 12 A 158 ASP SER GLU ILE ILE ASP LEU ASN LEU HIS SER PHE THR SEQRES 13 A 158 LYS GLN SEQRES 1 B 140 MSE ALA LEU LYS LYS ASN THR HIS ASN LYS SER THR LYS SEQRES 2 B 140 ARG VAL THR LYS HIS PRO SER LEU LYS THR LEU THR HIS SEQRES 3 B 140 LYS GLN ILE HIS THR THR ILE PHE VAL LYS SER THR THR SEQRES 4 B 140 PRO TYR VAL SER ALA LEU LYS ARG ILE ASN LYS PHE LEU SEQRES 5 B 140 ASP SER VAL HIS LYS GLN GLY SER SER TYR VAL ALA VAL SEQRES 6 B 140 LEU GLY MSE GLY LYS ALA VAL GLU LYS THR LEU ALA LEU SEQRES 7 B 140 GLY CYS HIS PHE GLN ASP GLN LYS ASN LYS LYS ILE GLU SEQRES 8 B 140 VAL TYR THR LYS THR ILE GLU VAL LEU ASP GLU VAL ILE SEQRES 9 B 140 THR GLU GLY GLN ALA ASP ILE ASP MSE GLU SER ASP VAL SEQRES 10 B 140 GLU ASP ASP ASP LYS GLU THR GLN LEU LYS LYS ARG ALA SEQRES 11 B 140 VAL SER GLY VAL GLU LEU ARG ILE TYR VAL SEQRES 1 R 46 G G A C U C A G U A A U A SEQRES 2 R 46 U G C U U U G G A A A C G SEQRES 3 R 46 A A G C U U A C A A A A U SEQRES 4 R 46 G G A G U C C MODRES 3IAB MSE A 68 MET SELENOMETHIONINE MODRES 3IAB MSE A 91 MET SELENOMETHIONINE MODRES 3IAB MSE A 141 MET SELENOMETHIONINE MODRES 3IAB MSE B 68 MET SELENOMETHIONINE HET MSE A 68 8 HET MSE A 91 8 HET MSE A 141 8 HET MSE B 68 8 HET ZN B 141 1 HET ZN B 142 1 HET ZN B 143 1 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 4 ZN 3(ZN 2+) FORMUL 7 HOH *50(H2 O) HELIX 1 1 SER A 18 THR A 29 1 12 HELIX 2 2 ASN A 54 ASN A 67 1 14 HELIX 3 3 HIS A 87 LYS A 104 1 18 HELIX 4 4 THR B 25 HIS B 30 1 6 HELIX 5 5 PRO B 40 GLY B 59 1 20 HELIX 6 6 ALA B 71 GLN B 85 1 15 SHEET 1 A 6 ILE A 10 ARG A 12 0 SHEET 2 A 6 VAL A 5 TYR A 7 -1 N TYR A 7 O ILE A 10 SHEET 3 A 6 TYR A 110 ILE A 120 -1 O ASP A 119 N TYR A 6 SHEET 4 A 6 LEU A 133 SER A 143 -1 O VAL A 135 N PHE A 118 SHEET 5 A 6 GLN A 76 TYR A 84 -1 N ILE A 81 O THR A 140 SHEET 6 A 6 THR A 42 GLY A 48 1 N GLN A 45 O CYS A 80 SHEET 1 B 4 ILE A 10 ARG A 12 0 SHEET 2 B 4 VAL A 5 TYR A 7 -1 N TYR A 7 O ILE A 10 SHEET 3 B 4 TYR A 110 ILE A 120 -1 O ASP A 119 N TYR A 6 SHEET 4 B 4 THR A 156 LYS A 157 -1 O THR A 156 N ASN A 113 SHEET 1 C 5 THR B 16 LYS B 17 0 SHEET 2 C 5 ILE B 90 GLU B 102 -1 O GLU B 102 N THR B 16 SHEET 3 C 5 LEU B 126 TYR B 139 -1 O GLY B 133 N LYS B 95 SHEET 4 C 5 TYR B 62 MSE B 68 -1 N GLY B 67 O VAL B 134 SHEET 5 C 5 THR B 32 PHE B 34 1 N ILE B 33 O ALA B 64 LINK C ASN A 67 N MSE A 68 1555 1555 1.33 LINK C MSE A 68 N ALA A 69 1555 1555 1.33 LINK C LYS A 90 N MSE A 91 1555 1555 1.33 LINK C MSE A 91 N LEU A 92 1555 1555 1.33 LINK C THR A 140 N MSE A 141 1555 1555 1.33 LINK C MSE A 141 N VAL A 142 1555 1555 1.33 LINK C GLY B 67 N MSE B 68 1555 1555 1.33 LINK C MSE B 68 N GLY B 69 1555 1555 1.33 LINK ND1 HIS B 18 ZN ZN B 141 1555 1555 2.11 LINK NE2 HIS B 26 ZN ZN B 143 1555 1555 2.33 LINK NE2 HIS B 30 ZN ZN B 143 1555 1555 2.20 LINK NE2 HIS B 30 ZN ZN B 142 1555 1555 2.40 SITE 1 AC1 1 HIS B 18 SITE 1 AC2 3 HIS B 26 HIS B 30 ZN B 143 SITE 1 AC3 3 HIS B 26 HIS B 30 ZN B 142 CRYST1 126.514 126.514 76.766 90.00 90.00 90.00 P 42 2 2 8 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 0.007904 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007904 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013027 0.00000