HEADER TRANSFERASE 28-JUN-06 2HHP TITLE STRUCTURE OF YEAST POLY(A) POLYMERASE IN A CLOSED CONFORMATION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLY(A) POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PAP, POLYNUCLEOTIDE ADENYLYLTRANSFERASE; COMPND 5 EC: 2.7.7.19; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: PAP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TEMPLATE-INDEPENDENT RNA POLYMERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.BOHM,J.TOTH REVDAT 5 30-AUG-23 2HHP 1 REMARK LINK REVDAT 4 13-JUL-11 2HHP 1 VERSN REVDAT 3 17-NOV-09 2HHP 1 JRNL REVDAT 2 24-FEB-09 2HHP 1 VERSN REVDAT 1 23-JAN-07 2HHP 0 JRNL AUTH P.B.BALBO,J.TOTH,A.BOHM JRNL TITL X-RAY CRYSTALLOGRAPHIC AND STEADY STATE FLUORESCENCE JRNL TITL 2 CHARACTERIZATION OF THE PROTEIN DYNAMICS OF YEAST JRNL TITL 3 POLYADENYLATE POLYMERASE. JRNL REF J.MOL.BIOL. V. 366 1401 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17223131 JRNL DOI 10.1016/J.JMB.2006.12.030 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0003 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 54566 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2305 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3915 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 180 REMARK 3 BIN FREE R VALUE : 0.3100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4037 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 380 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) : 30.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : 0.23000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.452 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4337 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5922 ; 1.564 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 558 ; 6.113 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 201 ;34.041 ;23.731 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 762 ;15.165 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;17.450 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 667 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3310 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2251 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2990 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 350 ; 0.162 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 42 ; 0.202 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.178 ; 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): 2724 ; 0.994 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4301 ; 1.437 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1843 ; 2.406 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1596 ; 3.476 ; 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 : 3 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 41 A 190 REMARK 3 ORIGIN FOR THE GROUP (A): 14.8260 16.2550 9.9680 REMARK 3 T TENSOR REMARK 3 T11: 0.0097 T22: -0.0293 REMARK 3 T33: -0.0303 T12: -0.0198 REMARK 3 T13: 0.0051 T23: -0.0343 REMARK 3 L TENSOR REMARK 3 L11: 0.6060 L22: 0.6001 REMARK 3 L33: 0.1814 L12: 0.0878 REMARK 3 L13: -0.0974 L23: -0.2356 REMARK 3 S TENSOR REMARK 3 S11: -0.0536 S12: 0.0326 S13: -0.0622 REMARK 3 S21: 0.0463 S22: -0.0264 S23: -0.0926 REMARK 3 S31: -0.0192 S32: -0.0143 S33: 0.0800 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 4 A 40 REMARK 3 RESIDUE RANGE : A 191 A 357 REMARK 3 ORIGIN FOR THE GROUP (A): -2.4790 -6.8480 5.1820 REMARK 3 T TENSOR REMARK 3 T11: -0.0109 T22: -0.0335 REMARK 3 T33: -0.0129 T12: -0.0033 REMARK 3 T13: 0.0043 T23: 0.0293 REMARK 3 L TENSOR REMARK 3 L11: 1.7132 L22: 0.3024 REMARK 3 L33: 0.3216 L12: 0.0400 REMARK 3 L13: -0.0089 L23: 0.0625 REMARK 3 S TENSOR REMARK 3 S11: -0.0051 S12: -0.1957 S13: -0.2935 REMARK 3 S21: -0.0963 S22: 0.0450 S23: -0.0419 REMARK 3 S31: -0.0061 S32: -0.0296 S33: -0.0398 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 358 A 530 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0100 -6.9890 35.3550 REMARK 3 T TENSOR REMARK 3 T11: 0.1605 T22: 0.0885 REMARK 3 T33: -0.1105 T12: 0.0591 REMARK 3 T13: -0.0906 T23: 0.1162 REMARK 3 L TENSOR REMARK 3 L11: 4.7726 L22: 1.9646 REMARK 3 L33: 2.7042 L12: 0.7987 REMARK 3 L13: 1.0020 L23: -1.6460 REMARK 3 S TENSOR REMARK 3 S11: -0.0754 S12: -0.5578 S13: 0.5041 REMARK 3 S21: 0.6068 S22: 0.0021 S23: -0.0787 REMARK 3 S31: -0.4976 S32: -0.3498 S33: 0.0733 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2HHP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000038358. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 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) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56901 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 46.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.44800 REMARK 200 R SYM FOR SHELL (I) : 0.44800 REMARK 200 FOR SHELL : 3.460 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1FA0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE CRYSTALS WERE GROWN BY COMBINING REMARK 280 THE PROTEIN AT 20MG/ML WITH AN EQUAL VOLUME OF 20% ISOPROPANOL, REMARK 280 20% PEG 4000, 100MM CITRATE PH 5.6, AND 0.1% BETA REMARK 280 MERCAPTOETHANOL, AND THEN LEAVING THE HANGING DROPS FOR TWO REMARK 280 WEEKS OVER AN EMPTY RESERVOIR WELL., VAPOR DIFFUSION, HANGING REMARK 280 DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 42.45900 REMARK 290 SMTRY3 2 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 300 REMARK: THESE CRYSTALS CONTAIN ONE MOLECULE IN THE ASU, AND THE REMARK 300 PROTEIN FUNCTIONS AS A MONOMER. 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 MET A 1 REMARK 465 SER A 2 REMARK 465 SER A 3 REMARK 465 LEU A 442 REMARK 465 VAL A 443 REMARK 465 THR A 444 REMARK 465 ASP A 445 REMARK 465 GLU A 446 REMARK 465 ASN A 447 REMARK 465 LYS A 448 REMARK 465 GLU A 449 REMARK 465 GLU A 450 REMARK 465 GLU A 451 REMARK 465 SER A 452 REMARK 465 ILE A 453 REMARK 465 LYS A 454 REMARK 465 ASP A 455 REMARK 465 ALA A 456 REMARK 465 ILE A 472 REMARK 465 GLU A 473 REMARK 465 ASN A 474 REMARK 465 LYS A 475 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 GLN A 294 CG CD OE1 NE2 REMARK 470 LYS A 359 CG CD CE NZ REMARK 470 LYS A 407 CG CD CE NZ REMARK 470 GLU A 418 CG CD OE1 OE2 REMARK 470 MET A 423 CG SD CE REMARK 470 LYS A 427 CG CD CE NZ REMARK 470 LYS A 432 CG CD CE NZ REMARK 470 LYS A 458 CG CD CE NZ REMARK 470 LYS A 476 CG CD CE NZ REMARK 470 GLU A 477 CG CD OE1 OE2 REMARK 470 GLU A 497 CG CD OE1 OE2 REMARK 470 TYR A 515 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 524 CG CD OE1 OE2 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 O HOH A 635 O HOH A 872 2.02 REMARK 500 OE2 GLU A 132 NZ LYS A 147 2.07 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 ASP A 74 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 125 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 125 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP A 372 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 419 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 420 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 498 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 519 CB - CG - OD2 ANGL. DEV. = 6.0 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 PRO A 137 -5.55 -59.08 REMARK 500 ALA A 139 151.80 -34.50 REMARK 500 ALA A 139 152.72 -34.50 REMARK 500 ASP A 161 46.19 -91.20 REMARK 500 ALA A 225 98.85 170.20 REMARK 500 ASN A 288 87.29 -166.57 REMARK 500 GLU A 418 -52.01 82.10 REMARK 500 ALA A 436 34.60 -77.08 REMARK 500 LEU A 437 -166.35 -109.19 REMARK 500 ASN A 438 140.11 85.84 REMARK 500 LEU A 440 -62.40 -139.42 REMARK 500 GLU A 477 -112.73 -96.61 REMARK 500 LYS A 478 -134.48 66.65 REMARK 500 ASP A 501 -93.74 -83.63 REMARK 500 HIS A 502 -26.61 126.92 REMARK 500 GLU A 524 69.56 -67.58 REMARK 500 ASN A 525 -28.28 -170.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR A 417 GLU A 418 30.51 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 MG A 533 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 102 OD2 REMARK 620 2 FLC A 532 OG2 113.5 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 FLC A 531 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FLC A 532 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 533 DBREF 2HHP A 1 530 UNP P29468 PAP_YEAST 1 530 SEQRES 1 A 530 MET SER SER GLN LYS VAL PHE GLY ILE THR GLY PRO VAL SEQRES 2 A 530 SER THR VAL GLY ALA THR ALA ALA GLU ASN LYS LEU ASN SEQRES 3 A 530 ASP SER LEU ILE GLN GLU LEU LYS LYS GLU GLY SER PHE SEQRES 4 A 530 GLU THR GLU GLN GLU THR ALA ASN ARG VAL GLN VAL LEU SEQRES 5 A 530 LYS ILE LEU GLN GLU LEU ALA GLN ARG PHE VAL TYR GLU SEQRES 6 A 530 VAL SER LYS LYS LYS ASN MET SER ASP GLY MET ALA ARG SEQRES 7 A 530 ASP ALA GLY GLY LYS ILE PHE THR TYR GLY SER TYR ARG SEQRES 8 A 530 LEU GLY VAL HIS GLY PRO GLY SER ASP ILE ASP THR LEU SEQRES 9 A 530 VAL VAL VAL PRO LYS HIS VAL THR ARG GLU ASP PHE PHE SEQRES 10 A 530 THR VAL PHE ASP SER LEU LEU ARG GLU ARG LYS GLU LEU SEQRES 11 A 530 ASP GLU ILE ALA PRO VAL PRO ASP ALA PHE VAL PRO ILE SEQRES 12 A 530 ILE LYS ILE LYS PHE SER GLY ILE SER ILE ASP LEU ILE SEQRES 13 A 530 CYS ALA ARG LEU ASP GLN PRO GLN VAL PRO LEU SER LEU SEQRES 14 A 530 THR LEU SER ASP LYS ASN LEU LEU ARG ASN LEU ASP GLU SEQRES 15 A 530 LYS ASP LEU ARG ALA LEU ASN GLY THR ARG VAL THR ASP SEQRES 16 A 530 GLU ILE LEU GLU LEU VAL PRO LYS PRO ASN VAL PHE ARG SEQRES 17 A 530 ILE ALA LEU ARG ALA ILE LYS LEU TRP ALA GLN ARG ARG SEQRES 18 A 530 ALA VAL TYR ALA ASN ILE PHE GLY PHE PRO GLY GLY VAL SEQRES 19 A 530 ALA TRP ALA MET LEU VAL ALA ARG ILE CYS GLN LEU TYR SEQRES 20 A 530 PRO ASN ALA CYS SER ALA VAL ILE LEU ASN ARG PHE PHE SEQRES 21 A 530 ILE ILE LEU SER GLU TRP ASN TRP PRO GLN PRO VAL ILE SEQRES 22 A 530 LEU LYS PRO ILE GLU ASP GLY PRO LEU GLN VAL ARG VAL SEQRES 23 A 530 TRP ASN PRO LYS ILE TYR ALA GLN ASP ARG SER HIS ARG SEQRES 24 A 530 MET PRO VAL ILE THR PRO ALA TYR PRO SER MET CYS ALA SEQRES 25 A 530 THR HIS ASN ILE THR GLU SER THR LYS LYS VAL ILE LEU SEQRES 26 A 530 GLN GLU PHE VAL ARG GLY VAL GLN ILE THR ASN ASP ILE SEQRES 27 A 530 PHE SER ASN LYS LYS SER TRP ALA ASN LEU PHE GLU LYS SEQRES 28 A 530 ASN ASP PHE PHE PHE ARG TYR LYS PHE TYR LEU GLU ILE SEQRES 29 A 530 THR ALA TYR THR ARG GLY SER ASP GLU GLN HIS LEU LYS SEQRES 30 A 530 TRP SER GLY LEU VAL GLU SER LYS VAL ARG LEU LEU VAL SEQRES 31 A 530 MET LYS LEU GLU VAL LEU ALA GLY ILE LYS ILE ALA HIS SEQRES 32 A 530 PRO PHE THR LYS PRO PHE GLU SER SER TYR CYS CYS PRO SEQRES 33 A 530 THR GLU ASP ASP TYR GLU MET ILE GLN ASP LYS TYR GLY SEQRES 34 A 530 SER HIS LYS THR GLU THR ALA LEU ASN ALA LEU LYS LEU SEQRES 35 A 530 VAL THR ASP GLU ASN LYS GLU GLU GLU SER ILE LYS ASP SEQRES 36 A 530 ALA PRO LYS ALA TYR LEU SER THR MET TYR ILE GLY LEU SEQRES 37 A 530 ASP PHE ASN ILE GLU ASN LYS LYS GLU LYS VAL ASP ILE SEQRES 38 A 530 HIS ILE PRO CYS THR GLU PHE VAL ASN LEU CYS ARG SER SEQRES 39 A 530 PHE ASN GLU ASP TYR GLY ASP HIS LYS VAL PHE ASN LEU SEQRES 40 A 530 ALA LEU ARG PHE VAL LYS GLY TYR ASP LEU PRO ASP GLU SEQRES 41 A 530 VAL PHE ASP GLU ASN GLU LYS ARG PRO SER HET FLC A 531 13 HET FLC A 532 13 HET MG A 533 1 HETNAM FLC CITRATE ANION HETNAM MG MAGNESIUM ION FORMUL 2 FLC 2(C6 H5 O7 3-) FORMUL 4 MG MG 2+ FORMUL 5 HOH *380(H2 O) HELIX 1 1 GLN A 4 GLY A 8 5 5 HELIX 2 2 THR A 19 GLU A 36 1 18 HELIX 3 3 THR A 41 LYS A 70 1 30 HELIX 4 4 SER A 73 ALA A 80 1 8 HELIX 5 5 GLY A 88 GLY A 93 1 6 HELIX 6 6 THR A 112 GLU A 126 1 15 HELIX 7 7 ASP A 173 ARG A 178 5 6 HELIX 8 8 ASP A 181 VAL A 201 1 21 HELIX 9 9 LYS A 203 ARG A 221 1 19 HELIX 10 10 ALA A 225 GLY A 229 5 5 HELIX 11 11 GLY A 232 TYR A 247 1 16 HELIX 12 12 CYS A 251 TRP A 266 1 16 HELIX 13 13 TYR A 292 SER A 297 1 6 HELIX 14 14 THR A 317 SER A 340 1 24 HELIX 15 15 SER A 344 PHE A 349 1 6 HELIX 16 16 ASP A 353 TYR A 358 1 6 HELIX 17 17 SER A 371 VAL A 395 1 25 HELIX 18 18 ASP A 419 TYR A 428 1 10 HELIX 19 19 SER A 430 THR A 435 1 6 HELIX 20 20 ILE A 481 PHE A 495 1 15 HELIX 21 21 LYS A 513 LEU A 517 5 5 HELIX 22 22 PRO A 518 PHE A 522 5 5 SHEET 1 A 5 LYS A 83 TYR A 87 0 SHEET 2 A 5 ILE A 101 VAL A 107 -1 O LEU A 104 N PHE A 85 SHEET 3 A 5 ILE A 151 ARG A 159 1 O ASP A 154 N THR A 103 SHEET 4 A 5 ILE A 143 PHE A 148 -1 N ILE A 146 O ILE A 153 SHEET 5 A 5 LEU A 130 VAL A 136 -1 N ASP A 131 O LYS A 147 SHEET 1 B 2 VAL A 272 ILE A 273 0 SHEET 2 B 2 VAL A 302 ILE A 303 1 O ILE A 303 N VAL A 272 SHEET 1 C 3 ILE A 399 PRO A 404 0 SHEET 2 C 3 LYS A 458 PHE A 470 -1 O GLY A 467 N HIS A 403 SHEET 3 C 3 PHE A 409 CYS A 414 -1 N PHE A 409 O THR A 463 SHEET 1 D 4 ILE A 399 PRO A 404 0 SHEET 2 D 4 LYS A 458 PHE A 470 -1 O GLY A 467 N HIS A 403 SHEET 3 D 4 TYR A 361 ARG A 369 -1 N ALA A 366 O SER A 462 SHEET 4 D 4 PHE A 505 VAL A 512 -1 O VAL A 512 N TYR A 361 LINK OD2 ASP A 102 MG MG A 533 1555 1555 2.78 LINK OG2 FLC A 532 MG MG A 533 1555 1555 2.68 CISPEP 1 TRP A 268 PRO A 269 0 7.82 CISPEP 2 TYR A 307 PRO A 308 0 -4.64 CISPEP 3 ASN A 438 ALA A 439 0 5.86 CISPEP 4 ALA A 439 LEU A 440 0 -5.91 CISPEP 5 LEU A 440 LYS A 441 0 -4.92 CISPEP 6 LYS A 478 VAL A 479 0 13.09 CISPEP 7 TYR A 499 GLY A 500 0 15.39 SITE 1 AC1 6 ALA A 20 ASN A 23 LYS A 24 THR A 417 SITE 2 AC1 6 GLU A 418 ASP A 419 SITE 1 AC2 12 TYR A 224 GLY A 232 GLY A 233 VAL A 234 SITE 2 AC2 12 MG A 533 HOH A 582 HOH A 670 HOH A 759 SITE 3 AC2 12 HOH A 761 HOH A 817 HOH A 833 HOH A 866 SITE 1 AC3 3 ASP A 102 ASP A 154 FLC A 532 CRYST1 58.483 84.918 67.721 90.00 111.78 90.00 P 1 21 1 2 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017099 0.000000 0.006832 0.00000 SCALE2 0.000000 0.011776 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015902 0.00000