HEADER TRANSFERASE 26-AUG-05 2AU3 TITLE CRYSTAL STRUCTURE OF THE AQUIFEX AEOLICUS PRIMASE (ZINC BINDING AND TITLE 2 RNA POLYMERASE DOMAINS) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA PRIMASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ZINC BINDING AND RNA POLYMERASE DOMAINS (RESIDUES 1-405); COMPND 5 EC: 2.7.7.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: DNAG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON+; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET28B KEYWDS ZINC RIBBON, TOPRIM, RNA POLYMERASE, DNA REPLICATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.E.CORN,P.J.PEASE,G.L.HURA,J.M.BERGER REVDAT 5 03-APR-24 2AU3 1 REMARK REVDAT 4 14-FEB-24 2AU3 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 2AU3 1 VERSN REVDAT 2 24-FEB-09 2AU3 1 VERSN REVDAT 1 15-NOV-05 2AU3 0 JRNL AUTH J.E.CORN,P.J.PEASE,G.L.HURA,J.M.BERGER JRNL TITL CROSSTALK BETWEEN PRIMASE SUBUNITS CAN ACT TO REGULATE JRNL TITL 2 PRIMER SYNTHESIS IN TRANS. JRNL REF MOL.CELL V. 20 391 2005 JRNL REFN ISSN 1097-2765 JRNL PMID 16285921 JRNL DOI 10.1016/J.MOLCEL.2005.09.004 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 25989 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 + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1377 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1757 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.2410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3260 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 169 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.63000 REMARK 3 B22 (A**2) : 1.90000 REMARK 3 B33 (A**2) : -0.27000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.219 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.516 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3325 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4474 ; 1.223 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 402 ; 5.750 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 485 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2496 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1565 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 214 ; 0.149 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.068 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 52 ; 0.197 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.173 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2004 ; 1.155 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3233 ; 2.055 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1321 ; 2.886 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1241 ; 4.957 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 94 REMARK 3 ORIGIN FOR THE GROUP (A): 24.5771 12.4340 28.9399 REMARK 3 T TENSOR REMARK 3 T11: 0.0503 T22: 0.1818 REMARK 3 T33: 0.0952 T12: 0.0259 REMARK 3 T13: 0.0107 T23: 0.0342 REMARK 3 L TENSOR REMARK 3 L11: -0.0006 L22: 1.3416 REMARK 3 L33: 1.5253 L12: 0.2505 REMARK 3 L13: -0.0084 L23: 0.6447 REMARK 3 S TENSOR REMARK 3 S11: -0.0194 S12: -0.1540 S13: -0.0389 REMARK 3 S21: -0.0937 S22: 0.0274 S23: 0.0512 REMARK 3 S31: 0.1004 S32: 0.0539 S33: -0.0080 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 98 A 347 REMARK 3 ORIGIN FOR THE GROUP (A): 7.6993 26.7427 15.1694 REMARK 3 T TENSOR REMARK 3 T11: 0.0944 T22: 0.1077 REMARK 3 T33: 0.1115 T12: 0.0101 REMARK 3 T13: -0.0026 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 0.2697 L22: 0.3270 REMARK 3 L33: 0.8577 L12: 0.1028 REMARK 3 L13: -0.0033 L23: -0.2714 REMARK 3 S TENSOR REMARK 3 S11: -0.0195 S12: -0.0896 S13: 0.0575 REMARK 3 S21: -0.0307 S22: 0.0100 S23: 0.0362 REMARK 3 S31: -0.0201 S32: -0.0522 S33: 0.0095 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 349 A 402 REMARK 3 ORIGIN FOR THE GROUP (A): 14.3014 50.3480 -10.7957 REMARK 3 T TENSOR REMARK 3 T11: 0.1444 T22: 0.0421 REMARK 3 T33: 0.0969 T12: -0.0549 REMARK 3 T13: 0.0034 T23: 0.0440 REMARK 3 L TENSOR REMARK 3 L11: 1.6118 L22: 4.1591 REMARK 3 L33: 3.7114 L12: 1.0976 REMARK 3 L13: 0.6510 L23: -0.8615 REMARK 3 S TENSOR REMARK 3 S11: -0.1671 S12: 0.0955 S13: 0.1175 REMARK 3 S21: -0.3915 S22: 0.2041 S23: 0.0241 REMARK 3 S31: -0.1322 S32: 0.0057 S33: -0.0370 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 501 REMARK 3 ORIGIN FOR THE GROUP (A): 14.6418 6.3962 22.3416 REMARK 3 T TENSOR REMARK 3 T11: 0.1246 T22: 0.1246 REMARK 3 T33: 0.1246 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 502 A 670 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8420 27.5988 13.5854 REMARK 3 T TENSOR REMARK 3 T11: 0.1156 T22: 0.0995 REMARK 3 T33: 0.1167 T12: 0.0251 REMARK 3 T13: -0.0017 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 0.3396 L22: 0.0251 REMARK 3 L33: 0.3366 L12: 0.1334 REMARK 3 L13: 0.0432 L23: -0.0483 REMARK 3 S TENSOR REMARK 3 S11: -0.0099 S12: -0.0559 S13: 0.0294 REMARK 3 S21: -0.0655 S22: 0.0244 S23: 0.0104 REMARK 3 S31: 0.0113 S32: 0.0547 S33: -0.0145 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2AU3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034312. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25989 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.450 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28600 REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: LOW-RESOLUTION AQUIFEX AEOLICUS DNAG FROM TM-SOAK REMARK 200 MAD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18-22% ETOH, 55 MM HEPES, 100 MM NACL, REMARK 280 PH 7.5, MICROBATCH, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 21.61100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.07850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.20150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.07850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.61100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.20150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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: MONOMERIC 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 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 GLY A -1 REMARK 465 HIS A 0 REMARK 465 GLU A 404 REMARK 465 LYS A 405 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 ASP A 64 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 74 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 93 CB - CG - OD2 ANGL. DEV. = 5.4 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 SER A 2 110.03 -170.47 REMARK 500 ASN A 264 58.97 -95.11 REMARK 500 THR A 271 -142.97 -125.58 REMARK 500 ARG A 358 -30.07 -39.68 REMARK 500 ASN A 360 76.30 -160.01 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 35 SG REMARK 620 2 HIS A 38 ND1 104.4 REMARK 620 3 CYS A 56 SG 102.5 104.0 REMARK 620 4 CYS A 59 SG 126.7 106.5 110.6 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 501 DBREF 2AU3 A 1 405 UNP O67465 PRIM_AQUAE 1 405 SEQADV 2AU3 GLY A -1 UNP O67465 CLONING ARTIFACT SEQADV 2AU3 HIS A 0 UNP O67465 CLONING ARTIFACT SEQRES 1 A 407 GLY HIS MET SER SER ASP ILE ASP GLU LEU ARG ARG GLU SEQRES 2 A 407 ILE ASP ILE VAL ASP VAL ILE SER GLU TYR LEU ASN LEU SEQRES 3 A 407 GLU LYS VAL GLY SER ASN TYR ARG THR ASN CYS PRO PHE SEQRES 4 A 407 HIS PRO ASP ASP THR PRO SER PHE TYR VAL SER PRO SER SEQRES 5 A 407 LYS GLN ILE PHE LYS CYS PHE GLY CYS GLY VAL GLY GLY SEQRES 6 A 407 ASP ALA ILE LYS PHE VAL SER LEU TYR GLU ASP ILE SER SEQRES 7 A 407 TYR PHE GLU ALA ALA LEU GLU LEU ALA LYS ARG TYR GLY SEQRES 8 A 407 LYS LYS LEU ASP LEU GLU LYS ILE SER LYS ASP GLU LYS SEQRES 9 A 407 VAL TYR VAL ALA LEU ASP ARG VAL CYS ASP PHE TYR ARG SEQRES 10 A 407 GLU SER LEU LEU LYS ASN ARG GLU ALA SER GLU TYR VAL SEQRES 11 A 407 LYS SER ARG GLY ILE ASP PRO LYS VAL ALA ARG LYS PHE SEQRES 12 A 407 ASP LEU GLY TYR ALA PRO SER SER GLU ALA LEU VAL LYS SEQRES 13 A 407 VAL LEU LYS GLU ASN ASP LEU LEU GLU ALA TYR LEU GLU SEQRES 14 A 407 THR LYS ASN LEU LEU SER PRO THR LYS GLY VAL TYR ARG SEQRES 15 A 407 ASP LEU PHE LEU ARG ARG VAL VAL ILE PRO ILE LYS ASP SEQRES 16 A 407 PRO ARG GLY ARG VAL ILE GLY PHE GLY GLY ARG ARG ILE SEQRES 17 A 407 VAL GLU ASP LYS SER PRO LYS TYR ILE ASN SER PRO ASP SEQRES 18 A 407 SER ARG VAL PHE LYS LYS GLY GLU ASN LEU PHE GLY LEU SEQRES 19 A 407 TYR GLU ALA LYS GLU TYR ILE LYS GLU GLU GLY PHE ALA SEQRES 20 A 407 ILE LEU VAL GLU GLY TYR PHE ASP LEU LEU ARG LEU PHE SEQRES 21 A 407 SER GLU GLY ILE ARG ASN VAL VAL ALA PRO LEU GLY THR SEQRES 22 A 407 ALA LEU THR GLN ASN GLN ALA ASN LEU LEU SER LYS PHE SEQRES 23 A 407 THR LYS LYS VAL TYR ILE LEU TYR ASP GLY ASP ASP ALA SEQRES 24 A 407 GLY ARG LYS ALA MET LYS SER ALA ILE PRO LEU LEU LEU SEQRES 25 A 407 SER ALA GLY VAL GLU VAL TYR PRO VAL TYR LEU PRO GLU SEQRES 26 A 407 GLY TYR ASP PRO ASP GLU PHE ILE LYS GLU PHE GLY LYS SEQRES 27 A 407 GLU GLU LEU ARG ARG LEU ILE ASN SER SER GLY GLU LEU SEQRES 28 A 407 PHE GLU THR LEU ILE LYS THR ALA ARG GLU ASN LEU GLU SEQRES 29 A 407 GLU LYS THR ARG GLU PHE ARG TYR TYR LEU GLY PHE ILE SEQRES 30 A 407 SER ASP GLY VAL ARG ARG PHE ALA LEU ALA SER GLU PHE SEQRES 31 A 407 HIS THR LYS TYR LYS VAL PRO MET GLU ILE LEU LEU MET SEQRES 32 A 407 LYS ILE GLU LYS HET ZN A 501 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ FORMUL 3 HOH *169(H2 O) HELIX 1 1 SER A 3 ILE A 12 1 10 HELIX 2 2 ASP A 13 LEU A 22 1 10 HELIX 3 3 ASP A 64 ASP A 74 1 11 HELIX 4 4 SER A 76 GLY A 89 1 14 HELIX 5 5 SER A 98 ASN A 121 1 24 HELIX 6 6 ASN A 121 ARG A 131 1 11 HELIX 7 7 ASP A 134 PHE A 141 1 8 HELIX 8 8 SER A 148 ASP A 160 1 13 HELIX 9 9 LEU A 161 GLU A 167 1 7 HELIX 10 10 LYS A 224 GLU A 227 5 4 HELIX 11 11 GLY A 231 GLY A 243 1 13 HELIX 12 12 GLY A 250 GLU A 260 1 11 HELIX 13 13 THR A 274 LYS A 283 1 10 HELIX 14 14 ASP A 295 ALA A 312 1 18 HELIX 15 15 ASP A 326 GLY A 335 1 10 HELIX 16 16 GLY A 335 SER A 346 1 12 HELIX 17 17 GLU A 348 ALA A 357 1 10 HELIX 18 18 ASN A 360 GLY A 373 1 14 HELIX 19 19 ASP A 377 LYS A 393 1 17 HELIX 20 20 PRO A 395 LEU A 400 1 6 SHEET 1 A 5 GLU A 25 VAL A 27 0 SHEET 2 A 5 ASN A 30 THR A 33 -1 O ARG A 32 N GLU A 25 SHEET 3 A 5 PHE A 45 SER A 48 -1 O VAL A 47 N TYR A 31 SHEET 4 A 5 ILE A 53 CYS A 56 -1 O ILE A 53 N SER A 48 SHEET 5 A 5 GLY A 62 GLY A 63 -1 O GLY A 63 N PHE A 54 SHEET 1 B 4 GLY A 144 TYR A 145 0 SHEET 2 B 4 ARG A 186 LYS A 192 -1 O VAL A 188 N GLY A 144 SHEET 3 B 4 VAL A 198 ARG A 205 -1 O GLY A 202 N ILE A 189 SHEET 4 B 4 TYR A 214 ASN A 216 -1 O ILE A 215 N GLY A 203 SHEET 1 C 2 LEU A 171 LEU A 172 0 SHEET 2 C 2 ARG A 180 ASP A 181 -1 O ARG A 180 N LEU A 172 SHEET 1 D 5 LEU A 229 PHE A 230 0 SHEET 2 D 5 VAL A 265 PRO A 268 -1 O ALA A 267 N PHE A 230 SHEET 3 D 5 ALA A 245 LEU A 247 1 N ILE A 246 O VAL A 266 SHEET 4 D 5 LYS A 287 LEU A 291 1 O TYR A 289 N LEU A 247 SHEET 5 D 5 GLU A 315 VAL A 319 1 O VAL A 319 N ILE A 290 LINK SG CYS A 35 ZN ZN A 501 1555 1555 2.27 LINK ND1 HIS A 38 ZN ZN A 501 1555 1555 1.99 LINK SG CYS A 56 ZN ZN A 501 1555 1555 2.41 LINK SG CYS A 59 ZN ZN A 501 1555 1555 2.34 SITE 1 AC1 4 CYS A 35 HIS A 38 CYS A 56 CYS A 59 CRYST1 43.222 66.403 138.157 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.023136 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015060 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007238 0.00000