HEADER HYDROLASE 03-APR-19 6R9P TITLE STRUCTURE OF SACCHAROMYCES CEREVISIAE APO PAN2 PSEUDOUBIQUITIN TITLE 2 HYDROLASE-RNA EXONUCLEASE (UCH-EXO) MODULE IN COMPLEX WITH AAUUAA RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PAN2-PAN3 DEADENYLATION COMPLEX CATALYTIC SUBUNIT PAN2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PAB1P-DEPENDENT POLY(A)-SPECIFIC RIBONUCLEASE,POLY(A)- COMPND 5 NUCLEASE DEADENYLATION COMPLEX SUBUNIT 2,PAN DEADENYLATION COMPLEX COMPND 6 SUBUNIT 2; COMPND 7 EC: 3.1.13.4; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: AAUUAA RNA; COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C); SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 GENE: PAN2, YGL094C; SOURCE 8 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PACEBAC1; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 15 ORGANISM_TAXID: 4932; SOURCE 16 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN ALL EUKARYOTES. KEYWDS DEDD RNASE, DEADENYLASE, PSEUDOUBIQUITIN HYDROLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.T.L.TANG,J.A.W.STOWELL,C.H.HILL,L.A.PASSMORE REVDAT 5 24-JAN-24 6R9P 1 REMARK REVDAT 4 21-AUG-19 6R9P 1 REMARK REVDAT 3 19-JUN-19 6R9P 1 JRNL REVDAT 2 29-MAY-19 6R9P 1 JRNL REVDAT 1 22-MAY-19 6R9P 0 JRNL AUTH T.T.L.TANG,J.A.W.STOWELL,C.H.HILL,L.A.PASSMORE JRNL TITL THE INTRINSIC STRUCTURE OF POLY(A) RNA DETERMINES THE JRNL TITL 2 SPECIFICITY OF PAN2 AND CAF1 DEADENYLASES. JRNL REF NAT.STRUCT.MOL.BIOL. V. 26 433 2019 JRNL REFN ESSN 1545-9985 JRNL PMID 31110294 JRNL DOI 10.1038/S41594-019-0227-9 REMARK 2 REMARK 2 RESOLUTION. 2.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 86.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 28616 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.264 REMARK 3 R VALUE (WORKING SET) : 0.261 REMARK 3 FREE R VALUE : 0.309 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1461 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 86.5147 - 6.4203 1.00 2860 170 0.2478 0.2752 REMARK 3 2 6.4203 - 5.0962 1.00 2761 135 0.2861 0.3372 REMARK 3 3 5.0962 - 4.4520 1.00 2735 151 0.2193 0.3038 REMARK 3 4 4.4520 - 4.0450 1.00 2718 131 0.2385 0.3050 REMARK 3 5 4.0450 - 3.7550 1.00 2697 162 0.2479 0.2968 REMARK 3 6 3.7550 - 3.5336 1.00 2680 140 0.2972 0.3277 REMARK 3 7 3.5336 - 3.3567 1.00 2691 138 0.2950 0.3392 REMARK 3 8 3.3567 - 3.2105 1.00 2696 132 0.3101 0.3795 REMARK 3 9 3.2105 - 3.0869 0.99 2661 136 0.3505 0.4350 REMARK 3 10 3.0869 - 2.9804 1.00 2656 166 0.3960 0.4372 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.660 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 133.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 461 THROUGH 617 ) REMARK 3 ORIGIN FOR THE GROUP (A):-157.3419 168.6820 297.2344 REMARK 3 T TENSOR REMARK 3 T11: 0.6229 T22: 0.7848 REMARK 3 T33: 0.3933 T12: 0.0326 REMARK 3 T13: -0.0435 T23: 0.0323 REMARK 3 L TENSOR REMARK 3 L11: 6.2351 L22: 9.3522 REMARK 3 L33: 9.5760 L12: -1.0848 REMARK 3 L13: -2.2025 L23: 1.9296 REMARK 3 S TENSOR REMARK 3 S11: -0.2433 S12: -0.6871 S13: 0.0911 REMARK 3 S21: 0.5988 S22: 0.2009 S23: -0.3572 REMARK 3 S31: 0.3383 S32: -0.2253 S33: 0.0899 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 618 THROUGH 858 ) REMARK 3 ORIGIN FOR THE GROUP (A):-163.9065 178.5653 281.3233 REMARK 3 T TENSOR REMARK 3 T11: 0.8964 T22: 1.4097 REMARK 3 T33: 0.5848 T12: 0.3147 REMARK 3 T13: -0.0772 T23: 0.0631 REMARK 3 L TENSOR REMARK 3 L11: 4.0800 L22: 4.2260 REMARK 3 L33: 8.0993 L12: 0.1001 REMARK 3 L13: -0.1113 L23: 0.4393 REMARK 3 S TENSOR REMARK 3 S11: -0.0209 S12: 0.7303 S13: 0.5290 REMARK 3 S21: -0.6275 S22: 0.0339 S23: 0.4980 REMARK 3 S31: -1.2257 S32: -1.5085 S33: -0.0266 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 859 THROUGH 1111 ) REMARK 3 ORIGIN FOR THE GROUP (A):-150.6234 147.2360 309.4601 REMARK 3 T TENSOR REMARK 3 T11: 1.1313 T22: 0.7761 REMARK 3 T33: 0.8246 T12: -0.2523 REMARK 3 T13: 0.0331 T23: 0.0282 REMARK 3 L TENSOR REMARK 3 L11: 2.7973 L22: 5.0870 REMARK 3 L33: 8.0157 L12: -0.7486 REMARK 3 L13: -0.1397 L23: -1.7578 REMARK 3 S TENSOR REMARK 3 S11: 0.1420 S12: -0.2712 S13: -0.5161 REMARK 3 S21: 0.3717 S22: -0.2924 S23: -0.3663 REMARK 3 S31: 1.7019 S32: -0.1865 S33: 0.0733 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 3 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A):-145.2200 154.8869 319.0862 REMARK 3 T TENSOR REMARK 3 T11: 2.9018 T22: 3.6914 REMARK 3 T33: 1.6703 T12: -0.8304 REMARK 3 T13: 0.1243 T23: 0.1758 REMARK 3 L TENSOR REMARK 3 L11: 8.4694 L22: 5.6897 REMARK 3 L33: 6.6413 L12: -1.4153 REMARK 3 L13: -1.9648 L23: -5.4801 REMARK 3 S TENSOR REMARK 3 S11: -1.0171 S12: 6.0369 S13: 1.2529 REMARK 3 S21: 3.7001 S22: -0.0745 S23: 0.7191 REMARK 3 S31: 4.6375 S32: -2.3258 S33: 1.0902 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6R9P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-APR-19. REMARK 100 THE DEPOSITION ID IS D_1292101641. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9159 REMARK 200 MONOCHROMATOR : SINGLE BOUNCE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 1.12 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28662 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.980 REMARK 200 RESOLUTION RANGE LOW (A) : 106.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.21 REMARK 200 R MERGE FOR SHELL (I) : 1.51200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8 REMARK 200 STARTING MODEL: 4CZW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.4 M AMMONIUM PHOSPHATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.94250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.54550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 127.94400 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.94250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.54550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 127.94400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.94250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 58.54550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 127.94400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.94250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 58.54550 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 127.94400 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 444 REMARK 465 HIS A 445 REMARK 465 HIS A 446 REMARK 465 HIS A 447 REMARK 465 HIS A 448 REMARK 465 HIS A 449 REMARK 465 HIS A 450 REMARK 465 HIS A 451 REMARK 465 HIS A 452 REMARK 465 LEU A 453 REMARK 465 GLU A 454 REMARK 465 VAL A 455 REMARK 465 LEU A 456 REMARK 465 PHE A 457 REMARK 465 GLN A 458 REMARK 465 GLY A 459 REMARK 465 PRO A 460 REMARK 465 GLY A 487 REMARK 465 ARG A 488 REMARK 465 PHE A 489 REMARK 465 GLY A 490 REMARK 465 THR A 491 REMARK 465 GLN A 582 REMARK 465 LEU A 583 REMARK 465 GLU A 584 REMARK 465 ASN A 585 REMARK 465 GLY A 586 REMARK 465 GLU A 587 REMARK 465 ARG A 602 REMARK 465 GLU A 603 REMARK 465 SER A 604 REMARK 465 ILE A 605 REMARK 465 GLU A 606 REMARK 465 ASP A 607 REMARK 465 PHE A 608 REMARK 465 ASN A 609 REMARK 465 SER A 610 REMARK 465 SER A 611 REMARK 465 ASN A 687 REMARK 465 LYS A 688 REMARK 465 LYS A 689 REMARK 465 SER A 690 REMARK 465 ASN A 691 REMARK 465 ILE A 712 REMARK 465 CYS A 713 REMARK 465 PRO A 714 REMARK 465 THR A 715 REMARK 465 CYS A 716 REMARK 465 GLY A 717 REMARK 465 LYS A 718 REMARK 465 ARG A 885 REMARK 465 ASP A 886 REMARK 465 THR A 887 REMARK 465 ALA A 888 REMARK 465 ARG A 889 REMARK 465 GLN A 926 REMARK 465 GLY A 927 REMARK 465 ILE A 928 REMARK 465 ARG A 929 REMARK 465 SER A 930 REMARK 465 ILE A 931 REMARK 465 THR A 1112 REMARK 465 SER A 1113 REMARK 465 LYS A 1114 REMARK 465 GLY A 1115 REMARK 465 A B 1 REMARK 465 A B 2 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 ASN A 471 CG OD1 ND2 REMARK 470 LYS A 472 CG CD CE NZ REMARK 470 LEU A 484 CG CD1 CD2 REMARK 470 ASP A 492 CG OD1 OD2 REMARK 470 LYS A 575 CG CD CE NZ REMARK 470 LYS A 580 CG CD CE NZ REMARK 470 GLU A 590 CG CD OE1 OE2 REMARK 470 GLU A 593 CG CD OE1 OE2 REMARK 470 TYR A 595 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 601 CG1 CG2 CD1 REMARK 470 GLU A 612 CG CD OE1 OE2 REMARK 470 LYS A 615 CG CD CE NZ REMARK 470 ARG A 616 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 632 CG CD CE NZ REMARK 470 CYS A 658 SG REMARK 470 ASP A 661 CG OD1 OD2 REMARK 470 ASN A 679 CG OD1 ND2 REMARK 470 LYS A 680 CG CD CE NZ REMARK 470 VAL A 682 CG1 CG2 REMARK 470 ILE A 683 CG1 CG2 CD1 REMARK 470 LYS A 684 CG CD CE NZ REMARK 470 GLN A 685 CG CD OE1 NE2 REMARK 470 LEU A 686 CG CD1 CD2 REMARK 470 GLU A 700 CG CD OE1 OE2 REMARK 470 LYS A 704 CG CD CE NZ REMARK 470 LYS A 709 CG CD CE NZ REMARK 470 ASN A 710 CG OD1 ND2 REMARK 470 SER A 711 OG REMARK 470 THR A 719 OG1 CG2 REMARK 470 GLU A 720 CG CD OE1 OE2 REMARK 470 ILE A 722 CG1 CG2 CD1 REMARK 470 GLU A 725 CG CD OE1 OE2 REMARK 470 LYS A 729 CG CD CE NZ REMARK 470 GLU A 745 CG CD OE1 OE2 REMARK 470 LYS A 753 CG CD CE NZ REMARK 470 PHE A 760 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR A 761 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 765 CG1 CG2 CD1 REMARK 470 LYS A 766 CG CD CE NZ REMARK 470 LYS A 768 CG CD CE NZ REMARK 470 LEU A 771 CG CD1 CD2 REMARK 470 ARG A 772 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 777 CG CD OE1 OE2 REMARK 470 LYS A 779 CG CD CE NZ REMARK 470 LYS A 786 CG CD CE NZ REMARK 470 GLU A 788 CG CD OE1 OE2 REMARK 470 GLU A 802 CG CD OE1 OE2 REMARK 470 LYS A 810 CG CD CE NZ REMARK 470 LYS A 815 CG CD CE NZ REMARK 470 LYS A 820 CG CD CE NZ REMARK 470 GLU A 835 CG CD OE1 OE2 REMARK 470 LYS A 839 CG CD CE NZ REMARK 470 GLU A 856 CG CD OE1 OE2 REMARK 470 LYS A 860 CG CD CE NZ REMARK 470 ARG A 877 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 882 CG OD1 ND2 REMARK 470 ILE A 884 CG1 CG2 CD1 REMARK 470 ARG A 890 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 891 CG CD OE1 OE2 REMARK 470 LYS A 893 CG CD CE NZ REMARK 470 LYS A 902 CG CD CE NZ REMARK 470 LEU A 906 CG CD1 CD2 REMARK 470 GLN A 917 CG CD OE1 NE2 REMARK 470 CYS A 921 SG REMARK 470 GLU A 922 CG CD OE1 OE2 REMARK 470 ILE A 923 CG1 CG2 CD1 REMARK 470 ASP A 924 CG OD1 OD2 REMARK 470 HIS A 925 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 932 CG1 CG2 CD1 REMARK 470 ARG A 933 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 936 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 949 CG CD OE1 OE2 REMARK 470 GLU A 951 CG CD OE1 OE2 REMARK 470 LEU A 972 CG CD1 CD2 REMARK 470 ARG A 974 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 979 CG CD1 CD2 REMARK 470 ASP A 984 CG OD1 OD2 REMARK 470 GLU A 986 CG CD OE1 OE2 REMARK 470 LYS A 987 CG CD CE NZ REMARK 470 LYS A 990 CG CD CE NZ REMARK 470 ARG A 991 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 994 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1022 CG CD CE NZ REMARK 470 PHE A1040 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A1041 CG CD1 CD2 REMARK 470 LYS A1044 CG CD CE NZ REMARK 470 LEU A1047 CG CD1 CD2 REMARK 470 ARG A1050 CG CD NE CZ NH1 NH2 REMARK 470 MET A1059 CG SD CE REMARK 470 ASN A1060 CG OD1 ND2 REMARK 470 ILE A1061 CG1 CG2 CD1 REMARK 470 GLN A1062 CG CD OE1 NE2 REMARK 470 GLU A1063 CG CD OE1 OE2 REMARK 470 LYS A1080 CG CD CE NZ REMARK 470 LYS A1081 CG CD CE NZ REMARK 470 LEU A1083 CG CD1 CD2 REMARK 470 LYS A1086 CG CD CE NZ REMARK 470 GLU A1087 CG CD OE1 OE2 REMARK 470 GLU A1092 CG CD OE1 OE2 REMARK 470 LYS A1093 CG CD CE NZ REMARK 470 LEU A1095 CG CD1 CD2 REMARK 470 GLU A1101 CG CD OE1 OE2 REMARK 470 ASN A1106 CG OD1 ND2 REMARK 470 LYS A1108 CG CD CE NZ REMARK 470 U B 3 P OP1 OP2 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 OH TYR A 523 OD1 ASN A 623 2.19 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 PRO A1110 C - N - CD ANGL. DEV. = -15.1 DEGREES REMARK 500 PRO A1110 CA - N - CD ANGL. DEV. = -12.3 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 CYS A 536 2.77 -64.43 REMARK 500 LEU A 596 30.59 -85.08 REMARK 500 GLU A 597 32.64 -88.04 REMARK 500 SER A 598 -6.45 -56.35 REMARK 500 THR A 637 -178.47 -68.72 REMARK 500 HIS A 640 121.44 -38.95 REMARK 500 HIS A 662 115.38 -161.54 REMARK 500 LYS A 729 36.04 -99.14 REMARK 500 SER A 773 36.68 -94.53 REMARK 500 SER A 776 72.45 -69.84 REMARK 500 HIS A 783 124.04 -31.40 REMARK 500 GLU A 899 58.05 -95.07 REMARK 500 CYS A 921 -165.90 -126.61 REMARK 500 LEU A 972 67.32 62.25 REMARK 500 THR A 989 47.29 35.38 REMARK 500 SER A1048 -177.44 -63.85 REMARK 500 GLU A1063 -7.38 71.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6R9I RELATED DB: PDB REMARK 900 STRUCTURE OF APO PAN2 UCH-EXO. DBREF 6R9P A 461 1115 UNP P53010 PAN2_YEAST 461 1115 DBREF 6R9P B 1 6 PDB 6R9P 6R9P 1 6 SEQADV 6R9P MET A 444 UNP P53010 INITIATING METHIONINE SEQADV 6R9P HIS A 445 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 446 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 447 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 448 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 449 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 450 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 451 UNP P53010 EXPRESSION TAG SEQADV 6R9P HIS A 452 UNP P53010 EXPRESSION TAG SEQADV 6R9P LEU A 453 UNP P53010 EXPRESSION TAG SEQADV 6R9P GLU A 454 UNP P53010 EXPRESSION TAG SEQADV 6R9P VAL A 455 UNP P53010 EXPRESSION TAG SEQADV 6R9P LEU A 456 UNP P53010 EXPRESSION TAG SEQADV 6R9P PHE A 457 UNP P53010 EXPRESSION TAG SEQADV 6R9P GLN A 458 UNP P53010 EXPRESSION TAG SEQADV 6R9P GLY A 459 UNP P53010 EXPRESSION TAG SEQADV 6R9P PRO A 460 UNP P53010 EXPRESSION TAG SEQADV 6R9P ALA A 912 UNP P53010 GLU 912 ENGINEERED MUTATION SEQRES 1 A 672 MET HIS HIS HIS HIS HIS HIS HIS HIS LEU GLU VAL LEU SEQRES 2 A 672 PHE GLN GLY PRO THR SER ASP ILE GLN THR TYR THR SER SEQRES 3 A 672 ILE ASN LYS TYR GLU VAL PRO PRO ALA TYR SER ARG LEU SEQRES 4 A 672 PRO LEU THR SER GLY ARG PHE GLY THR ASP ASN PHE ASP SEQRES 5 A 672 PHE THR PRO PHE ASN ASN THR GLU TYR SER GLY LEU ASP SEQRES 6 A 672 PRO ASP VAL ASP ASN HIS TYR THR ASN ALA ILE ILE GLN SEQRES 7 A 672 LEU TYR ARG PHE ILE PRO GLU MET PHE ASN PHE VAL VAL SEQRES 8 A 672 GLY CYS LEU LYS ASP GLU ASN PHE GLU THR THR LEU LEU SEQRES 9 A 672 THR ASP LEU GLY TYR LEU PHE ASP MET MET GLU ARG SER SEQRES 10 A 672 HIS GLY LYS ILE CYS SER SER SER ASN PHE GLN ALA SER SEQRES 11 A 672 LEU LYS SER LEU THR ASP LYS ARG GLN LEU GLU ASN GLY SEQRES 12 A 672 GLU PRO GLN GLU HIS LEU GLU GLU TYR LEU GLU SER LEU SEQRES 13 A 672 CYS ILE ARG GLU SER ILE GLU ASP PHE ASN SER SER GLU SEQRES 14 A 672 SER ILE LYS ARG ASN MET PRO GLN LYS PHE ASN ARG PHE SEQRES 15 A 672 LEU LEU SER GLN LEU ILE LYS GLU GLU ALA GLN THR VAL SEQRES 16 A 672 ASN HIS ASN ILE THR LEU ASN GLN CYS PHE GLY LEU GLU SEQRES 17 A 672 THR GLU ILE ARG THR GLU CYS SER CYS ASP HIS TYR ASP SEQRES 18 A 672 THR THR VAL LYS LEU LEU PRO SER LEU SER ILE SER GLY SEQRES 19 A 672 ILE ASN LYS THR VAL ILE LYS GLN LEU ASN LYS LYS SER SEQRES 20 A 672 ASN GLY GLN ASN ILE LEU PRO TYR ILE GLU TYR ALA MET SEQRES 21 A 672 LYS ASN VAL THR GLN LYS ASN SER ILE CYS PRO THR CYS SEQRES 22 A 672 GLY LYS THR GLU THR ILE THR GLN GLU CYS THR VAL LYS SEQRES 23 A 672 ASN LEU PRO SER VAL LEU SER LEU GLU LEU SER LEU LEU SEQRES 24 A 672 ASP THR GLU PHE SER ASN ILE ARG SER SER LYS ASN TRP SEQRES 25 A 672 LEU THR SER GLU PHE TYR GLY SER ILE ILE LYS ASN LYS SEQRES 26 A 672 ALA VAL LEU ARG SER THR ALA SER GLU LEU LYS GLY THR SEQRES 27 A 672 SER HIS ILE PHE LYS TYR GLU LEU ASN GLY TYR VAL ALA SEQRES 28 A 672 LYS ILE THR ASP ASN ASN ASN GLU THR ARG LEU VAL THR SEQRES 29 A 672 TYR VAL LYS LYS TYR ASN PRO LYS GLU ASN CYS PHE LYS SEQRES 30 A 672 TRP LEU MET PHE ASN ASP TYR LEU VAL VAL GLU ILE THR SEQRES 31 A 672 GLU GLU GLU ALA LEU LYS MET THR TYR PRO TRP LYS THR SEQRES 32 A 672 PRO GLU ILE ILE ILE TYR CYS ASP ALA GLU GLU LEU ARG SEQRES 33 A 672 LYS PRO PHE PHE SER VAL ASP THR TYR SER ILE ASN TYR SEQRES 34 A 672 ASP ILE LEU PHE ARG ASP TYR PHE ALA ASN GLY ILE ARG SEQRES 35 A 672 ASP THR ALA ARG ARG GLU TYR LYS LEU LEU THR HIS ASP SEQRES 36 A 672 GLU ALA PRO LYS SER GLY THR LEU VAL ALA ILE ASP ALA SEQRES 37 A 672 ALA PHE VAL SER LEU GLN SER GLU LEU CYS GLU ILE ASP SEQRES 38 A 672 HIS GLN GLY ILE ARG SER ILE ILE ARG PRO LYS ARG THR SEQRES 39 A 672 ALA LEU ALA ARG ILE SER ILE ILE ARG GLY GLU GLU GLY SEQRES 40 A 672 GLU LEU TYR GLY VAL PRO PHE VAL ASP ASP TYR VAL VAL SEQRES 41 A 672 ASN THR ASN HIS ILE GLU ASP TYR LEU THR ARG TYR SER SEQRES 42 A 672 GLY ILE LEU PRO GLY ASP LEU ASP PRO GLU LYS SER THR SEQRES 43 A 672 LYS ARG LEU VAL ARG ARG ASN VAL VAL TYR ARG LYS VAL SEQRES 44 A 672 TRP LEU LEU MET GLN LEU GLY CYS VAL PHE VAL GLY HIS SEQRES 45 A 672 GLY LEU ASN ASN ASP PHE LYS HIS ILE ASN ILE ASN VAL SEQRES 46 A 672 PRO ARG ASN GLN ILE ARG ASP THR ALA ILE TYR PHE LEU SEQRES 47 A 672 GLN GLY LYS ARG TYR LEU SER LEU ARG TYR LEU ALA TYR SEQRES 48 A 672 VAL LEU LEU GLY MET ASN ILE GLN GLU GLY ASN HIS ASP SEQRES 49 A 672 SER ILE GLU ASP ALA HIS THR ALA LEU ILE LEU TYR LYS SEQRES 50 A 672 LYS TYR LEU HIS LEU LYS GLU LYS ALA ILE PHE GLU LYS SEQRES 51 A 672 VAL LEU ASN SER VAL TYR GLU GLU GLY ARG ALA HIS ASN SEQRES 52 A 672 PHE LYS VAL PRO GLU THR SER LYS GLY SEQRES 1 B 6 A A U U A A HELIX 1 AA1 PRO A 476 SER A 480 5 5 HELIX 2 AA2 TYR A 515 PHE A 525 1 11 HELIX 3 AA3 ILE A 526 CYS A 536 1 11 HELIX 4 AA4 THR A 544 HIS A 561 1 18 HELIX 5 AA5 SER A 567 ASP A 579 1 13 HELIX 6 AA6 GLN A 589 LEU A 596 1 8 HELIX 7 AA7 ASN A 617 ALA A 635 1 19 HELIX 8 AA8 LEU A 644 GLY A 649 1 6 HELIX 9 AA9 ILE A 695 MET A 703 1 9 HELIX 10 AB1 LEU A 742 SER A 752 1 11 HELIX 11 AB2 THR A 833 LYS A 839 1 7 HELIX 12 AB3 ALA A 855 ARG A 859 1 5 HELIX 13 AB4 TYR A 872 PHE A 876 5 5 HELIX 14 AB5 ARG A 994 GLY A 1009 1 16 HELIX 15 AB6 GLY A 1016 ILE A 1024 1 9 HELIX 16 AB7 PRO A 1029 ASN A 1031 5 3 HELIX 17 AB8 THR A 1036 PHE A 1040 1 5 HELIX 18 AB9 LEU A 1049 LEU A 1056 1 8 HELIX 19 AC1 ASP A 1067 LYS A 1088 1 22 HELIX 20 AC2 ILE A 1090 GLY A 1102 1 13 SHEET 1 AA1 4 HIS A 662 LEU A 670 0 SHEET 2 AA1 4 LEU A 650 SER A 659 -1 N ILE A 654 O THR A 666 SHEET 3 AA1 4 THR A 723 VAL A 728 -1 O GLU A 725 N ARG A 655 SHEET 4 AA1 4 LYS A 704 THR A 707 -1 N ASN A 705 O CYS A 726 SHEET 1 AA2 6 SER A 672 SER A 676 0 SHEET 2 AA2 6 VAL A 734 SER A 740 1 O SER A 736 N LEU A 673 SHEET 3 AA2 6 LYS A 845 ASP A 854 -1 O ILE A 850 N LEU A 737 SHEET 4 AA2 6 PHE A 785 THR A 797 -1 N LYS A 795 O THR A 846 SHEET 5 AA2 6 GLU A 759 SER A 763 -1 N PHE A 760 O TYR A 787 SHEET 6 AA2 6 VAL A 770 ARG A 772 -1 O ARG A 772 N TYR A 761 SHEET 1 AA3 7 SER A 672 SER A 676 0 SHEET 2 AA3 7 VAL A 734 SER A 740 1 O SER A 736 N LEU A 673 SHEET 3 AA3 7 LYS A 845 ASP A 854 -1 O ILE A 850 N LEU A 737 SHEET 4 AA3 7 PHE A 785 THR A 797 -1 N LYS A 795 O THR A 846 SHEET 5 AA3 7 THR A 803 TYR A 812 -1 O ARG A 804 N ILE A 796 SHEET 6 AA3 7 PHE A 819 PHE A 824 -1 O LEU A 822 N VAL A 809 SHEET 7 AA3 7 VAL A 829 ILE A 832 -1 O ILE A 832 N TRP A 821 SHEET 1 AA4 6 LEU A 992 VAL A 993 0 SHEET 2 AA4 6 PRO A 956 VAL A 962 1 N TYR A 961 O VAL A 993 SHEET 3 AA4 6 THR A 937 ILE A 945 -1 N ALA A 940 O VAL A 962 SHEET 4 AA4 6 LEU A 906 SER A 915 -1 N VAL A 914 O ALA A 938 SHEET 5 AA4 6 VAL A1011 GLY A1014 1 O VAL A1013 N ILE A 909 SHEET 6 AA4 6 ILE A1033 ASP A1035 1 O ARG A1034 N PHE A1012 CRYST1 91.885 117.091 255.888 90.00 90.00 90.00 I 2 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 0.010883 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008540 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003908 0.00000