10 20 30 40 50 60 70 80 2ER8 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSCRIPTION ACTIVATOR/DNA 24-OCT-05 2ER8
TITLE CRYSTAL STRUCTURE OF LEU3 DNA-BINDING DOMAIN COMPLEXED WITH TITLE 2 A 12MER DNA DUPLEX
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*CP*CP*GP*GP*TP*AP*CP*CP*GP*GP*G)-3'; COMPND 3 CHAIN: E, F, G, H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: REGULATORY PROTEIN LEU3; COMPND 7 CHAIN: A, B, C, D; COMPND 8 FRAGMENT: RESIDUES 32-103; 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: LEU3 (32-103); SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PT7-7
KEYWDS ZN(2)CYS(6) BINUCLEAR CLUSTER MOTIF, TRANSCRIPTION KEYWDS 2 ACTIVATOR/DNA COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR M.X.FITZGERALD,R.MARMORSTEIN
REVDAT 3 24-FEB-09 2ER8 1 VERSN REVDAT 2 18-APR-06 2ER8 1 JRNL REVDAT 1 04-APR-06 2ER8 0
JRNL AUTH M.X.FITZGERALD,J.R.ROJAS,J.M.KIM,G.B.KOHLHAW, JRNL AUTH 2 R.MARMORSTEIN JRNL TITL STRUCTURE OF A LEU3-DNA COMPLEX: RECOGNITION OF JRNL TITL 2 EVERTED CGG HALF-SITES BY A ZN2CYS6 BINUCLEAR JRNL TITL 3 CLUSTER PROTEIN. JRNL REF STRUCTURE V. 14 725 2006 JRNL REFN ISSN 0969-2126 JRNL PMID 16615914 JRNL DOI 10.1016/J.STR.2005.11.025
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 471523.930 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 31825 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) : 0.237 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.800 REMARK 3 FREE R VALUE TEST SET COUNT : 3116 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.03 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4389 REMARK 3 BIN R VALUE (WORKING SET) : 0.4010 REMARK 3 BIN FREE R VALUE : 0.3910 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 467 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2019 REMARK 3 NUCLEIC ACID ATOMS : 972 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 12.21000 REMARK 3 B22 (A**2) : 12.21000 REMARK 3 B33 (A**2) : -24.41000 REMARK 3 B12 (A**2) : 0.75000 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) : 0.45 REMARK 3 ESD FROM SIGMAA (A) : 0.62 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.48 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.63 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.27 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.790 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 6.460 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 5.350 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.780 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.27 REMARK 3 BSOL : 42.10 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED
REMARK 4 REMARK 4 2ER8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-05. REMARK 100 THE RCSB ID CODE IS RCSB035000.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-02 REMARK 200 TEMPERATURE (KELVIN) : 94 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2830, 1.2833, 1.2587 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33071 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 40.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES, 22% MPD, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.96667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 145.93333 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.96667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 145.93333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.96667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 145.93333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 72.96667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 145.93333 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 8 CHAIN(S). THE 4 BIOLOGICAL MOLECULES REMARK 300 CAN BE GENARATED THE FOLLOWING WAY: REMARK 300 1 - CHAIN A, E (RESIDUES 7-12) AND F(RESIDUES 13-18) REMARK 300 AND APPYING SYMMETRY 1-X+Y,Y,-Z TO CHAINS C, REMARK 300 G (RESIDUES7-12) AND H (RESIDUES 13-18). REMARK 300 2 - CHAIN B, E (RESIDUES 1-16) AND F (RESIDUES 19-24) REMARK 300 AND APPYING SYMMETRY 1-Y,1-X,1/3-Z TO CHAINS D, REMARK 300 G (RESIDUES 1-6) AND H (RESIDUES 19-24). REMARK 300 3 - CHAIN C, G (RESIDUES 7-12) AND H (RESIDUES 13-18) REMARK 300 AND APPYING SYMMETRY 1-X+Y,Y,-Z TO CHAINS A, REMARK 300 E (RESIDUES 7-12) AND F (RESIDUES 13-18). REMARK 300 4 - CHAIN D, G (RESIDUES 1-16) AND H (RESIDUES 19-24) REMARK 300 AND APPYING SYMMETRY 1-Y,1-X,1/3-Z TO CHAINS B, REMARK 300 E (RESIDUES 1-6) AND F (RESIDUES 19-24).
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: E, F, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, H, C, D 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 THR A 100 REMARK 465 SER A 101 REMARK 465 ASP A 102 REMARK 465 GLU A 103 REMARK 465 LYS B 32 REMARK 465 THR B 100 REMARK 465 SER B 101 REMARK 465 ASP B 102 REMARK 465 GLU B 103 REMARK 465 LYS C 32 REMARK 465 THR C 97 REMARK 465 ASN C 98 REMARK 465 LEU C 99 REMARK 465 THR C 100 REMARK 465 SER C 101 REMARK 465 ASP C 102 REMARK 465 GLU C 103 REMARK 465 THR D 100 REMARK 465 SER D 101 REMARK 465 ASP D 102 REMARK 465 GLU D 103
REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS(M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 33 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 51 CG CD OE1 OE2 REMARK 470 ARG A 52 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 70 CG CD CE NZ REMARK 470 ASP A 72 CG OD1 OD2 REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 LYS A 87 CG CD CE NZ REMARK 470 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 GLU A 91 CG CD OE1 OE2 REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 96 CG CD1 CD2 REMARK 470 THR A 97 OG1 CG2 REMARK 470 ASN A 98 CG OD1 ND2 REMARK 470 LEU A 99 CG CD1 CD2 REMARK 470 ARG B 33 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 34 CG CD CE NZ REMARK 470 GLU B 51 CG CD OE1 OE2 REMARK 470 GLU B 55 CG CD OE1 OE2 REMARK 470 LYS B 70 CG CD CE NZ REMARK 470 ARG B 71 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 72 CG OD1 OD2 REMARK 470 GLU B 83 CG CD OE1 OE2 REMARK 470 LYS B 87 CG CD CE NZ REMARK 470 ARG C 33 CG CD NE CZ NH1 NH2 REMARK 470 HIS C 50 CG ND1 CD2 CE1 NE2 REMARK 470 GLU C 51 CG CD OE1 OE2 REMARK 470 ARG C 52 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 55 CG CD OE1 OE2 REMARK 470 LYS C 62 CG CD CE NZ REMARK 470 ASN C 64 CG OD1 ND2 REMARK 470 LYS C 70 CG CD CE NZ REMARK 470 ARG C 88 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 90 CG CD CE NZ REMARK 470 GLU C 91 CG CD OE1 OE2 REMARK 470 ARG C 94 CG CD NE CZ NH1 NH2 REMARK 470 LEU C 96 CG CD1 CD2 REMARK 470 LYS D 32 CG CD CE NZ REMARK 470 ARG D 33 CG CD NE CZ NH1 NH2 REMARK 470 GLU D 51 CG CD OE1 OE2 REMARK 470 ARG D 52 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 62 CG CD CE NZ REMARK 470 LYS D 90 CG CD CE NZ REMARK 470 GLU D 91 CG CD OE1 OE2 REMARK 470 ARG D 94 CG CD NE CZ NH1 NH2 REMARK 470 ASN D 98 CG OD1 ND2 REMARK 470 LEU D 99 CG CD1 CD2
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 C5' DT F 18 O HOH F 27 2.03 REMARK 500 O5' DC F 13 O HOH F 25 2.08 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 CYS D 37 CB CYS D 37 SG -0.109 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 DG G 11 O4' - C1' - N9 ANGL. DEV. = 2.4 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 51 26.03 -67.09 REMARK 500 ALA A 53 -161.72 50.01 REMARK 500 PRO A 56 153.06 -47.39 REMARK 500 ARG A 75 179.63 -52.59 REMARK 500 ALA B 53 -154.56 52.99 REMARK 500 LYS B 62 -5.93 -58.43 REMARK 500 LYS B 70 95.01 -173.73 REMARK 500 PHE B 73 135.36 -37.90 REMARK 500 HIS C 50 20.17 -65.77 REMARK 500 GLU C 51 -51.69 -139.92 REMARK 500 ARG C 52 18.10 -64.12 REMARK 500 ALA C 53 -152.46 43.88 REMARK 500 PRO C 56 151.36 -38.20 REMARK 500 LYS C 62 20.79 -60.84 REMARK 500 LYS C 63 13.45 -153.57 REMARK 500 ASN C 64 76.46 33.14 REMARK 500 LYS C 78 -80.56 -42.61 REMARK 500 THR C 95 22.20 -75.65 REMARK 500 ASP D 48 31.17 -98.05 REMARK 500 HIS D 50 -39.05 -36.57 REMARK 500 ARG D 52 4.59 -61.83 REMARK 500 ALA D 53 -154.96 52.88 REMARK 500 ARG D 71 -18.15 -47.61 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 H 23 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 26 DISTANCE = 6.95 ANGSTROMS
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 104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 57 SG REMARK 620 2 CYS A 60 SG 99.0 REMARK 620 3 CYS A 67 SG 106.6 129.5 REMARK 620 4 CYS A 37 SG 101.5 104.6 111.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 57 SG REMARK 620 2 CYS A 40 SG 102.0 REMARK 620 3 CYS A 47 SG 131.2 118.0 REMARK 620 4 CYS A 37 SG 95.7 95.1 106.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 57 SG REMARK 620 2 CYS B 67 SG 110.2 REMARK 620 3 CYS B 60 SG 109.9 117.3 REMARK 620 4 CYS B 37 SG 111.4 105.9 101.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 57 SG REMARK 620 2 CYS B 47 SG 123.5 REMARK 620 3 CYS B 40 SG 99.4 110.0 REMARK 620 4 CYS B 37 SG 107.7 110.2 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 57 SG REMARK 620 2 CYS C 60 SG 110.1 REMARK 620 3 CYS C 67 SG 111.9 112.8 REMARK 620 4 CYS C 37 SG 107.4 97.2 116.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 106 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 40 SG REMARK 620 2 CYS C 57 SG 106.4 REMARK 620 3 CYS C 47 SG 115.4 115.3 REMARK 620 4 CYS C 37 SG 98.0 108.7 111.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 107 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 57 SG REMARK 620 2 CYS D 60 SG 104.2 REMARK 620 3 CYS D 67 SG 116.8 120.4 REMARK 620 4 CYS D 37 SG 102.3 103.3 107.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 108 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 57 SG REMARK 620 2 CYS D 40 SG 110.8 REMARK 620 3 CYS D 47 SG 121.0 113.2 REMARK 620 4 CYS D 37 SG 110.0 101.0 98.0 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 104 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 105 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 104 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 105 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 105 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 106 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 107 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 108
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ERE RELATED DB: PDB REMARK 900 RELATED ID: 2ERG RELATED DB: PDB
DBREF 2ER8 A 32 103 UNP P08638 LEUR_YEAST 32 103 DBREF 2ER8 B 32 103 UNP P08638 LEUR_YEAST 32 103 DBREF 2ER8 C 32 103 UNP P08638 LEUR_YEAST 32 103 DBREF 2ER8 D 32 103 UNP P08638 LEUR_YEAST 32 103 DBREF 2ER8 E 1 12 PDB 2ER8 2ER8 1 12 DBREF 2ER8 F 13 24 PDB 2ER8 2ER8 13 24 DBREF 2ER8 G 1 12 PDB 2ER8 2ER8 1 12 DBREF 2ER8 H 13 24 PDB 2ER8 2ER8 13 24
SEQRES 1 E 12 DC DC DC DG DG DT DA DC DC DG DG DG SEQRES 1 F 12 DC DC DC DG DG DT DA DC DC DG DG DG SEQRES 1 G 12 DC DC DC DG DG DT DA DC DC DG DG DG SEQRES 1 H 12 DC DC DC DG DG DT DA DC DC DG DG DG SEQRES 1 A 72 LYS ARG LYS PHE ALA CYS VAL GLU CYS ARG GLN GLN LYS SEQRES 2 A 72 SER LYS CYS ASP ALA HIS GLU ARG ALA PRO GLU PRO CYS SEQRES 3 A 72 THR LYS CYS ALA LYS LYS ASN VAL PRO CYS ILE LEU LYS SEQRES 4 A 72 ARG ASP PHE ARG ARG THR TYR LYS ARG ALA ARG ASN GLU SEQRES 5 A 72 ALA ILE GLU LYS ARG PHE LYS GLU LEU THR ARG THR LEU SEQRES 6 A 72 THR ASN LEU THR SER ASP GLU SEQRES 1 B 72 LYS ARG LYS PHE ALA CYS VAL GLU CYS ARG GLN GLN LYS SEQRES 2 B 72 SER LYS CYS ASP ALA HIS GLU ARG ALA PRO GLU PRO CYS SEQRES 3 B 72 THR LYS CYS ALA LYS LYS ASN VAL PRO CYS ILE LEU LYS SEQRES 4 B 72 ARG ASP PHE ARG ARG THR TYR LYS ARG ALA ARG ASN GLU SEQRES 5 B 72 ALA ILE GLU LYS ARG PHE LYS GLU LEU THR ARG THR LEU SEQRES 6 B 72 THR ASN LEU THR SER ASP GLU SEQRES 1 C 72 LYS ARG LYS PHE ALA CYS VAL GLU CYS ARG GLN GLN LYS SEQRES 2 C 72 SER LYS CYS ASP ALA HIS GLU ARG ALA PRO GLU PRO CYS SEQRES 3 C 72 THR LYS CYS ALA LYS LYS ASN VAL PRO CYS ILE LEU LYS SEQRES 4 C 72 ARG ASP PHE ARG ARG THR TYR LYS ARG ALA ARG ASN GLU SEQRES 5 C 72 ALA ILE GLU LYS ARG PHE LYS GLU LEU THR ARG THR LEU SEQRES 6 C 72 THR ASN LEU THR SER ASP GLU SEQRES 1 D 72 LYS ARG LYS PHE ALA CYS VAL GLU CYS ARG GLN GLN LYS SEQRES 2 D 72 SER LYS CYS ASP ALA HIS GLU ARG ALA PRO GLU PRO CYS SEQRES 3 D 72 THR LYS CYS ALA LYS LYS ASN VAL PRO CYS ILE LEU LYS SEQRES 4 D 72 ARG ASP PHE ARG ARG THR TYR LYS ARG ALA ARG ASN GLU SEQRES 5 D 72 ALA ILE GLU LYS ARG PHE LYS GLU LEU THR ARG THR LEU SEQRES 6 D 72 THR ASN LEU THR SER ASP GLU
HET ZN A 104 1 HET ZN A 105 1 HET ZN B 104 1 HET ZN B 105 1 HET ZN C 105 1 HET ZN C 106 1 HET ZN D 107 1 HET ZN D 108 1
HETNAM ZN ZINC ION
FORMUL 9 ZN 8(ZN 2+) FORMUL 17 HOH *33(H2 O)
HELIX 1 1 CYS A 37 GLN A 43 1 7 HELIX 2 2 ALA A 49 ALA A 53 5 5 HELIX 3 3 CYS A 57 LYS A 63 1 7 HELIX 4 4 TYR A 77 ASN A 98 1 22 HELIX 5 5 CYS B 37 GLN B 43 1 7 HELIX 6 6 ASP B 48 ALA B 53 1 6 HELIX 7 7 CYS B 57 LYS B 63 1 7 HELIX 8 8 TYR B 77 ASN B 98 1 22 HELIX 9 9 CYS C 37 GLN C 43 1 7 HELIX 10 10 CYS C 57 LYS C 62 1 6 HELIX 11 11 TYR C 77 THR C 95 1 19 HELIX 12 12 CYS D 37 GLN D 43 1 7 HELIX 13 13 ASP D 48 ALA D 53 1 6 HELIX 14 14 CYS D 57 ASN D 64 1 8 HELIX 15 15 TYR D 77 ASN D 98 1 22
LINK ZN ZN A 104 SG CYS A 57 1555 1555 2.35 LINK ZN ZN A 104 SG CYS A 60 1555 1555 2.12 LINK ZN ZN A 104 SG CYS A 67 1555 1555 2.28 LINK ZN ZN A 104 SG CYS A 37 1555 1555 2.38 LINK ZN ZN A 105 SG CYS A 57 1555 1555 2.37 LINK ZN ZN A 105 SG CYS A 40 1555 1555 2.41 LINK ZN ZN A 105 SG CYS A 47 1555 1555 2.48 LINK ZN ZN A 105 SG CYS A 37 1555 1555 2.57 LINK ZN ZN B 104 SG CYS B 57 1555 1555 2.44 LINK ZN ZN B 104 SG CYS B 67 1555 1555 2.33 LINK ZN ZN B 104 SG CYS B 60 1555 1555 2.24 LINK ZN ZN B 104 SG CYS B 37 1555 1555 2.44 LINK ZN ZN B 105 SG CYS B 57 1555 1555 2.43 LINK ZN ZN B 105 SG CYS B 47 1555 1555 2.18 LINK ZN ZN B 105 SG CYS B 40 1555 1555 2.39 LINK ZN ZN B 105 SG CYS B 37 1555 1555 2.56 LINK ZN ZN C 105 SG CYS C 57 1555 1555 2.38 LINK ZN ZN C 105 SG CYS C 60 1555 1555 2.24 LINK ZN ZN C 105 SG CYS C 67 1555 1555 2.54 LINK ZN ZN C 105 SG CYS C 37 1555 1555 2.69 LINK ZN ZN C 106 SG CYS C 40 1555 1555 2.28 LINK ZN ZN C 106 SG CYS C 57 1555 1555 2.48 LINK ZN ZN C 106 SG CYS C 47 1555 1555 2.33 LINK ZN ZN C 106 SG CYS C 37 1555 1555 2.55 LINK ZN ZN D 107 SG CYS D 57 1555 1555 2.65 LINK ZN ZN D 107 SG CYS D 60 1555 1555 2.26 LINK ZN ZN D 107 SG CYS D 67 1555 1555 2.38 LINK ZN ZN D 107 SG CYS D 37 1555 1555 2.59 LINK ZN ZN D 108 SG CYS D 57 1555 1555 2.45 LINK ZN ZN D 108 SG CYS D 40 1555 1555 2.25 LINK ZN ZN D 108 SG CYS D 47 1555 1555 2.31 LINK ZN ZN D 108 SG CYS D 37 1555 1555 2.53
SITE 1 AC1 5 CYS A 37 CYS A 57 CYS A 60 CYS A 67 SITE 2 AC1 5 ZN A 105 SITE 1 AC2 5 CYS A 37 CYS A 40 CYS A 47 CYS A 57 SITE 2 AC2 5 ZN A 104 SITE 1 AC3 5 CYS B 37 CYS B 57 CYS B 60 CYS B 67 SITE 2 AC3 5 ZN B 105 SITE 1 AC4 5 CYS B 37 CYS B 40 CYS B 47 CYS B 57 SITE 2 AC4 5 ZN B 104 SITE 1 AC5 5 CYS C 37 CYS C 57 CYS C 60 CYS C 67 SITE 2 AC5 5 ZN C 106 SITE 1 AC6 5 CYS C 37 CYS C 40 CYS C 47 CYS C 57 SITE 2 AC6 5 ZN C 105 SITE 1 AC7 5 CYS D 37 CYS D 57 CYS D 60 CYS D 67 SITE 2 AC7 5 ZN D 108 SITE 1 AC8 5 CYS D 37 CYS D 40 CYS D 47 CYS D 57 SITE 2 AC8 5 ZN D 107
CRYST1 107.500 107.500 218.900 90.00 90.00 120.00 P 64 2 2 48
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 0.009302 0.005371 0.000000 0.00000
SCALE2 0.000000 0.010741 0.000000 0.00000
SCALE3 0.000000 0.000000 0.004568 0.00000