HEADER HYDROLASE 03-APR-19 6R9M TITLE STRUCTURE OF SACCHAROMYCES CEREVISIAE APO PAN2 PSEUDOUBIQUITIN TITLE 2 HYDROLASE-RNA EXONUCLEASE (UCH-EXO) MODULE IN COMPLEX WITH AAGGAA 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: AAGGAA RNA; COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_TAXID: 559292; SOURCE 4 GENE: PAN2, YGL094C; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 11 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 12 ORGANISM_TAXID: 4932; SOURCE 13 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 6R9M 1 REMARK REVDAT 4 21-AUG-19 6R9M 1 REMARK REVDAT 3 19-JUN-19 6R9M 1 JRNL REVDAT 2 29-MAY-19 6R9M 1 JRNL REVDAT 1 22-MAY-19 6R9M 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. 3.33 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 20857 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.240 REMARK 3 FREE R VALUE TEST SET COUNT : 1092 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 63.0320 - 6.6555 1.00 2606 151 0.2060 0.2690 REMARK 3 2 6.6555 - 5.2835 1.00 2483 146 0.2795 0.3172 REMARK 3 3 5.2835 - 4.6159 1.00 2468 137 0.2088 0.2643 REMARK 3 4 4.6159 - 4.1940 1.00 2475 118 0.2137 0.2848 REMARK 3 5 4.1940 - 3.8934 1.00 2465 124 0.2445 0.3025 REMARK 3 6 3.8934 - 3.6639 1.00 2423 137 0.2790 0.3348 REMARK 3 7 3.6639 - 3.4804 1.00 2394 157 0.3084 0.3911 REMARK 3 8 3.4804 - 3.3289 1.00 2451 122 0.3582 0.4138 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.540 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 152.5 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 : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 461 THROUGH 649 ) REMARK 3 ORIGIN FOR THE GROUP (A):-156.5757 169.6085 295.7448 REMARK 3 T TENSOR REMARK 3 T11: 0.6946 T22: 1.2314 REMARK 3 T33: 0.7041 T12: 0.0847 REMARK 3 T13: -0.0476 T23: 0.0624 REMARK 3 L TENSOR REMARK 3 L11: 3.1307 L22: 7.4204 REMARK 3 L33: 8.4503 L12: -0.0628 REMARK 3 L13: -0.3342 L23: 2.6418 REMARK 3 S TENSOR REMARK 3 S11: -0.2330 S12: -0.0525 S13: 0.0305 REMARK 3 S21: 0.1609 S22: 0.1326 S23: -0.1905 REMARK 3 S31: 0.4022 S32: 0.6836 S33: 0.0691 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 650 THROUGH 694 ) REMARK 3 ORIGIN FOR THE GROUP (A):-157.2929 183.8945 269.6403 REMARK 3 T TENSOR REMARK 3 T11: 1.3272 T22: 1.7819 REMARK 3 T33: 0.7837 T12: 0.0036 REMARK 3 T13: -0.1570 T23: 0.1905 REMARK 3 L TENSOR REMARK 3 L11: 8.5738 L22: 2.2596 REMARK 3 L33: 4.8591 L12: -0.6429 REMARK 3 L13: -5.6713 L23: 1.9425 REMARK 3 S TENSOR REMARK 3 S11: 0.4183 S12: 1.0115 S13: 0.8974 REMARK 3 S21: 0.4252 S22: 0.1671 S23: 0.1805 REMARK 3 S31: 0.3075 S32: 0.0671 S33: -0.5219 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 695 THROUGH 864 ) REMARK 3 ORIGIN FOR THE GROUP (A):-166.8549 182.1003 286.9647 REMARK 3 T TENSOR REMARK 3 T11: 1.0566 T22: 1.2153 REMARK 3 T33: 0.6154 T12: 0.1637 REMARK 3 T13: -0.1554 T23: 0.0278 REMARK 3 L TENSOR REMARK 3 L11: 4.3999 L22: 7.1812 REMARK 3 L33: 7.6387 L12: -0.2415 REMARK 3 L13: 0.4548 L23: 1.0766 REMARK 3 S TENSOR REMARK 3 S11: 0.0414 S12: 0.3945 S13: 0.1873 REMARK 3 S21: -0.1570 S22: -0.0202 S23: -0.0419 REMARK 3 S31: -1.1477 S32: -0.4204 S33: -0.0379 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 865 THROUGH 1110 ) REMARK 3 ORIGIN FOR THE GROUP (A):-149.6627 147.9999 311.6599 REMARK 3 T TENSOR REMARK 3 T11: 1.3383 T22: 1.0724 REMARK 3 T33: 1.1610 T12: -0.0117 REMARK 3 T13: -0.1224 T23: 0.1155 REMARK 3 L TENSOR REMARK 3 L11: 3.4296 L22: 3.1375 REMARK 3 L33: 3.6547 L12: -0.2281 REMARK 3 L13: -0.4548 L23: -0.5479 REMARK 3 S TENSOR REMARK 3 S11: 0.3011 S12: -0.2787 S13: -0.2311 REMARK 3 S21: 0.6036 S22: -0.4021 S23: -0.5292 REMARK 3 S31: 0.7323 S32: 0.2385 S33: 0.0873 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 3 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A):-143.9694 157.0701 321.4219 REMARK 3 T TENSOR REMARK 3 T11: 2.9018 T22: 2.7616 REMARK 3 T33: 2.7031 T12: 0.3268 REMARK 3 T13: 0.3127 T23: 0.1721 REMARK 3 L TENSOR REMARK 3 L11: 4.4704 L22: 4.3619 REMARK 3 L33: 2.4810 L12: 4.2295 REMARK 3 L13: 0.1648 L23: 1.0853 REMARK 3 S TENSOR REMARK 3 S11: 3.0867 S12: 1.6429 S13: 0.7169 REMARK 3 S21: 2.6284 S22: 1.2528 S23: -0.0912 REMARK 3 S31: -2.7583 S32: -1.4267 S33: -4.0000 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 6R9M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-APR-19. REMARK 100 THE DEPOSITION ID IS D_1292101639. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-18 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 : 20875 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.329 REMARK 200 RESOLUTION RANGE LOW (A) : 86.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 1.52700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 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 (%): 71.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.35 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 45.70700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.05250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 128.64050 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.70700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.05250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 128.64050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.70700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 59.05250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 128.64050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.70700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 59.05250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 128.64050 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: 1030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 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 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 THR A 719 REMARK 465 GLU A 720 REMARK 465 THR A 721 REMARK 465 ILE A 722 REMARK 465 ILE A 884 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 ILE A 923 REMARK 465 ASP A 924 REMARK 465 HIS A 925 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 GLU A 1111 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 LYS A 472 CG CD CE NZ REMARK 470 ASP A 492 CG OD1 OD2 REMARK 470 LYS A 563 CG CD CE NZ REMARK 470 GLN A 571 CG CD OE1 NE2 REMARK 470 LYS A 575 CG CD CE NZ REMARK 470 LYS A 580 CG CD CE NZ REMARK 470 ARG A 581 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 587 CG CD OE1 OE2 REMARK 470 LEU A 592 CG CD1 CD2 REMARK 470 GLU A 593 CG CD OE1 OE2 REMARK 470 TYR A 595 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 597 CG CD OE1 OE2 REMARK 470 LEU A 599 CG CD1 CD2 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 621 CG CD CE NZ REMARK 470 LYS A 632 CG CD CE NZ REMARK 470 GLU A 657 CG CD OE1 OE2 REMARK 470 TYR A 663 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 679 CG OD1 ND2 REMARK 470 LYS A 680 CG CD CE NZ 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 LYS A 704 CG CD CE NZ REMARK 470 LYS A 709 CG CD CE NZ REMARK 470 GLU A 725 CG CD OE1 OE2 REMARK 470 LYS A 729 CG CD CE NZ REMARK 470 ASN A 748 CG OD1 ND2 REMARK 470 LYS A 753 CG CD CE NZ 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 LYS A 779 CG CD CE NZ REMARK 470 LYS A 786 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 856 CG CD OE1 OE2 REMARK 470 LYS A 860 CG CD CE NZ REMARK 470 ARG A 890 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 893 CG CD CE NZ REMARK 470 ASP A 898 CG OD1 OD2 REMARK 470 LYS A 902 CG CD CE NZ REMARK 470 GLU A 919 CG CD OE1 OE2 REMARK 470 LEU A 920 CG CD1 CD2 REMARK 470 CYS A 921 SG REMARK 470 GLU A 922 CG CD OE1 OE2 REMARK 470 ILE A 931 CG1 CG2 CD1 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 969 CG CD OE1 OE2 REMARK 470 ARG A 974 CG CD NE CZ NH1 NH2 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 LYS A1022 CG CD CE NZ 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 GLN A1062 CG CD OE1 NE2 REMARK 470 GLU A1070 CG CD OE1 OE2 REMARK 470 LYS A1080 CG CD CE NZ REMARK 470 LYS A1081 CG CD CE NZ REMARK 470 LYS A1086 CG CD CE NZ REMARK 470 GLU A1087 CG CD OE1 OE2 REMARK 470 LYS A1093 CG CD CE NZ REMARK 470 GLU A1101 CG CD OE1 OE2 REMARK 470 HIS A1105 CG ND1 CD2 CE1 NE2 REMARK 470 ASN A1106 CG OD1 ND2 REMARK 470 LYS A1108 CG CD CE NZ REMARK 470 G 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: 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 ASN A 639 63.04 34.47 REMARK 500 HIS A 640 128.10 -34.87 REMARK 500 ASN A 679 52.46 -93.80 REMARK 500 ILE A 765 -62.44 -96.85 REMARK 500 ALA A 881 52.13 -92.91 REMARK 500 GLU A 899 36.19 -99.87 REMARK 500 LEU A 920 65.52 60.17 REMARK 500 PRO A 980 56.70 -67.16 REMARK 500 LYS A 990 -70.35 -57.70 REMARK 500 ARG A 991 114.25 -163.78 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 PAN2UCH-EXO DBREF 6R9M A 461 1115 UNP P53010 PAN2_YEAST 461 1115 DBREF 6R9M B 1 6 PDB 6R9M 6R9M 1 6 SEQADV 6R9M MET A 444 UNP P53010 INITIATING METHIONINE SEQADV 6R9M HIS A 445 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 446 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 447 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 448 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 449 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 450 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 451 UNP P53010 EXPRESSION TAG SEQADV 6R9M HIS A 452 UNP P53010 EXPRESSION TAG SEQADV 6R9M LEU A 453 UNP P53010 EXPRESSION TAG SEQADV 6R9M GLU A 454 UNP P53010 EXPRESSION TAG SEQADV 6R9M VAL A 455 UNP P53010 EXPRESSION TAG SEQADV 6R9M LEU A 456 UNP P53010 EXPRESSION TAG SEQADV 6R9M PHE A 457 UNP P53010 EXPRESSION TAG SEQADV 6R9M GLN A 458 UNP P53010 EXPRESSION TAG SEQADV 6R9M GLY A 459 UNP P53010 EXPRESSION TAG SEQADV 6R9M PRO A 460 UNP P53010 EXPRESSION TAG SEQADV 6R9M 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 G G A A HELIX 1 AA1 PRO A 476 SER A 480 5 5 HELIX 2 AA2 THR A 516 PHE A 525 1 10 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 HIS A 591 ILE A 601 1 11 HELIX 7 AA7 ASN A 617 GLN A 636 1 20 HELIX 8 AA8 ILE A 642 GLY A 649 1 8 HELIX 9 AA9 ILE A 695 MET A 703 1 9 HELIX 10 AB1 LEU A 742 ARG A 750 1 9 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 SER A 864 TYR A 868 5 5 HELIX 14 AB5 TYR A 872 ARG A 877 1 6 HELIX 15 AB6 THR A 896 ALA A 900 5 5 HELIX 16 AB7 LEU A 972 GLY A 977 1 6 HELIX 17 AB8 ARG A 994 GLY A 1009 1 16 HELIX 18 AB9 LEU A 1017 ASN A 1025 1 9 HELIX 19 AC1 PRO A 1029 ASN A 1031 5 3 HELIX 20 AC2 THR A 1036 PHE A 1040 1 5 HELIX 21 AC3 SER A 1048 LEU A 1056 1 9 HELIX 22 AC4 ASP A 1067 LYS A 1088 1 22 HELIX 23 AC5 GLU A 1092 ASN A 1106 1 15 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 GLN A 724 VAL A 728 -1 O THR A 727 N GLU A 653 SHEET 4 AA1 4 LYS A 704 THR A 707 -1 N THR A 707 O GLN A 724 SHEET 1 AA2 6 ILE A 675 SER A 676 0 SHEET 2 AA2 6 VAL A 734 SER A 740 1 O SER A 740 N ILE A 675 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 VAL A 770 N SER A 763 SHEET 1 AA3 7 ILE A 675 SER A 676 0 SHEET 2 AA3 7 VAL A 734 SER A 740 1 O SER A 740 N ILE A 675 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 TYR A 808 N TYR A 792 SHEET 6 AA3 7 PHE A 819 PHE A 824 -1 O PHE A 824 N THR A 807 SHEET 7 AA3 7 VAL A 829 ILE A 832 -1 O VAL A 830 N MET A 823 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 ALA A 938 ARG A 946 -1 N ALA A 940 O VAL A 962 SHEET 4 AA4 6 LEU A 906 VAL A 914 -1 N ALA A 912 O ARG A 941 SHEET 5 AA4 6 VAL A1011 GLY A1014 1 O VAL A1013 N VAL A 907 SHEET 6 AA4 6 ILE A1033 ASP A1035 1 O ARG A1034 N PHE A1012 CRYST1 91.414 118.105 257.281 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 0.010939 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008467 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003887 0.00000 MASTER 496 0 0 23 23 0 0 6 4673 2 0 53 END