HEADER CHAPERONE 03-JUN-24 8ZR0 TITLE CRYSTAL STRUCTURE OF SKD3 IN COMPLEX WITH AMPPNP COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASEINOLYTIC PEPTIDASE B PROTEIN HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SKD3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH, BRACHYDANIO RERIO; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: CLPB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DISAGGREGASE, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR S.LEE,C.LEE REVDAT 1 11-JUN-25 8ZR0 0 JRNL AUTH S.LEE,C.LEE JRNL TITL CRYSTAL STRUCTURE OF SKD3 IN COMPLEX WITH AMPPNP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.83 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.500 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 16173 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1612 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 48.3000 - 5.2682 1.00 2628 143 0.1728 0.2201 REMARK 3 2 5.2682 - 4.1822 1.00 2596 138 0.1904 0.2412 REMARK 3 3 4.1822 - 3.6538 1.00 2554 132 0.2012 0.2703 REMARK 3 4 3.6538 - 3.3198 0.99 2551 134 0.2407 0.2725 REMARK 3 5 3.3198 - 3.0819 0.99 2555 128 0.2898 0.3457 REMARK 3 6 3.0819 - 2.9002 0.96 2477 137 0.3515 0.3958 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) : 0.470 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.008 3968 REMARK 3 ANGLE : 1.329 5352 REMARK 3 CHIRALITY : 0.046 596 REMARK 3 PLANARITY : 0.006 694 REMARK 3 DIHEDRAL : 16.165 1496 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 121:175 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.795 -54.236 29.826 REMARK 3 T TENSOR REMARK 3 T11: 1.1026 T22: 0.8634 REMARK 3 T33: 1.5129 T12: -0.1260 REMARK 3 T13: 0.1761 T23: 0.2659 REMARK 3 L TENSOR REMARK 3 L11: 1.4942 L22: 2.8473 REMARK 3 L33: 2.0681 L12: 0.4062 REMARK 3 L13: -0.2302 L23: 1.5131 REMARK 3 S TENSOR REMARK 3 S11: 0.1580 S12: -0.1762 S13: -1.4462 REMARK 3 S21: 0.8753 S22: -0.0132 S23: 0.6794 REMARK 3 S31: 1.4469 S32: -0.6950 S33: -0.2421 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 176:343 ) REMARK 3 ORIGIN FOR THE GROUP (A): 56.654 -36.211 16.025 REMARK 3 T TENSOR REMARK 3 T11: 0.6326 T22: 0.5848 REMARK 3 T33: 0.6350 T12: -0.0218 REMARK 3 T13: 0.0653 T23: 0.0510 REMARK 3 L TENSOR REMARK 3 L11: 3.7790 L22: 2.2672 REMARK 3 L33: 1.6237 L12: -1.3482 REMARK 3 L13: 1.6274 L23: -1.1704 REMARK 3 S TENSOR REMARK 3 S11: -0.0568 S12: 0.0856 S13: -0.5170 REMARK 3 S21: 0.1447 S22: -0.1082 S23: 0.4298 REMARK 3 S31: 0.0619 S32: 0.0823 S33: 0.1600 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 344:381 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.688 -13.729 1.564 REMARK 3 T TENSOR REMARK 3 T11: 0.9416 T22: 1.2008 REMARK 3 T33: 1.7213 T12: 0.2915 REMARK 3 T13: 0.0947 T23: 0.1734 REMARK 3 L TENSOR REMARK 3 L11: 1.6103 L22: 1.3884 REMARK 3 L33: 1.8578 L12: 0.2103 REMARK 3 L13: 1.5176 L23: -0.2570 REMARK 3 S TENSOR REMARK 3 S11: 0.2909 S12: 0.2001 S13: 1.4927 REMARK 3 S21: 0.0241 S22: -0.0328 S23: 2.2590 REMARK 3 S31: -1.6683 S32: -1.2635 S33: -0.0719 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 396:446 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.643 -18.161 3.912 REMARK 3 T TENSOR REMARK 3 T11: 0.9913 T22: 1.1846 REMARK 3 T33: 2.0574 T12: -0.0787 REMARK 3 T13: 0.0849 T23: 0.2619 REMARK 3 L TENSOR REMARK 3 L11: 1.5190 L22: 0.9941 REMARK 3 L33: 1.3915 L12: 0.5030 REMARK 3 L13: -0.9593 L23: -1.1430 REMARK 3 S TENSOR REMARK 3 S11: -0.1554 S12: 0.3796 S13: -0.4094 REMARK 3 S21: -0.0910 S22: 0.5151 S23: 2.1371 REMARK 3 S31: -0.6022 S32: -0.8670 S33: -0.3729 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 447:477 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.236 -22.206 17.595 REMARK 3 T TENSOR REMARK 3 T11: 0.9985 T22: 0.9243 REMARK 3 T33: 1.2414 T12: -0.0903 REMARK 3 T13: -0.0780 T23: 0.1288 REMARK 3 L TENSOR REMARK 3 L11: 3.9469 L22: 2.2209 REMARK 3 L33: 4.0309 L12: 2.1736 REMARK 3 L13: -0.0345 L23: -0.6577 REMARK 3 S TENSOR REMARK 3 S11: 1.0159 S12: -1.0809 S13: -0.8622 REMARK 3 S21: 1.2505 S22: 0.1275 S23: 0.4654 REMARK 3 S31: -0.1500 S32: 0.1892 S33: -0.6812 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND RESID 478:501 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.924 -35.538 19.604 REMARK 3 T TENSOR REMARK 3 T11: 1.4143 T22: 1.5437 REMARK 3 T33: 1.6080 T12: 0.0016 REMARK 3 T13: -0.2089 T23: 0.1443 REMARK 3 L TENSOR REMARK 3 L11: 0.1338 L22: 0.7768 REMARK 3 L33: 1.3823 L12: 0.3611 REMARK 3 L13: -0.1671 L23: -0.1670 REMARK 3 S TENSOR REMARK 3 S11: 0.3845 S12: -1.5005 S13: -0.7660 REMARK 3 S21: 0.6887 S22: 0.6411 S23: -0.3436 REMARK 3 S31: -1.2632 S32: 1.6172 S33: -0.5150 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN A AND RESID 502:529 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.050 -20.451 19.017 REMARK 3 T TENSOR REMARK 3 T11: 1.3375 T22: 1.0690 REMARK 3 T33: 1.3994 T12: -0.0934 REMARK 3 T13: 0.4095 T23: -0.1244 REMARK 3 L TENSOR REMARK 3 L11: 7.4745 L22: 0.9296 REMARK 3 L33: 3.6054 L12: -1.5837 REMARK 3 L13: -2.4283 L23: -0.7310 REMARK 3 S TENSOR REMARK 3 S11: -0.5593 S12: -1.6139 S13: -0.4790 REMARK 3 S21: 0.9712 S22: 0.5882 S23: 1.4305 REMARK 3 S31: 0.3109 S32: -0.4428 S33: -0.3852 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN A AND RESID 530:574 ) REMARK 3 ORIGIN FOR THE GROUP (A): 50.992 -5.930 2.617 REMARK 3 T TENSOR REMARK 3 T11: 0.7229 T22: 0.6925 REMARK 3 T33: 0.5596 T12: -0.1249 REMARK 3 T13: -0.0861 T23: -0.2885 REMARK 3 L TENSOR REMARK 3 L11: 2.0538 L22: 4.5011 REMARK 3 L33: 2.0899 L12: 0.8868 REMARK 3 L13: 0.5987 L23: -1.5961 REMARK 3 S TENSOR REMARK 3 S11: 0.4158 S12: -0.6084 S13: -0.1669 REMARK 3 S21: 0.5706 S22: -0.3308 S23: 0.2863 REMARK 3 S31: -0.4468 S32: 0.3853 S33: -0.3393 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: ( CHAIN A AND RESID 575:628 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.106 3.589 0.298 REMARK 3 T TENSOR REMARK 3 T11: 0.9561 T22: 0.6553 REMARK 3 T33: 1.0308 T12: -0.1089 REMARK 3 T13: -0.1232 T23: -0.1448 REMARK 3 L TENSOR REMARK 3 L11: 2.7204 L22: 2.9469 REMARK 3 L33: 1.0116 L12: 0.3566 REMARK 3 L13: -0.7007 L23: -0.6955 REMARK 3 S TENSOR REMARK 3 S11: 0.1463 S12: -0.3793 S13: 0.3315 REMARK 3 S21: 0.5546 S22: -0.2587 S23: 0.0763 REMARK 3 S31: -0.3916 S32: -0.0221 S33: 0.0666 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 8ZR0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1300048316. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAR-21 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 : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16197 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.29800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% SOKALAN CP5, 100 MM BIS-TRIS PH REMARK 280 6.0, 100 MM AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.98667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 29.99333 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 44.99000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.99667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 74.98333 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 ASP A 120 REMARK 465 GLY A 382 REMARK 465 SER A 383 REMARK 465 PRO A 384 REMARK 465 PRO A 385 REMARK 465 GLY A 386 REMARK 465 TYR A 387 REMARK 465 VAL A 388 REMARK 465 GLY A 389 REMARK 465 HIS A 390 REMARK 465 ASP A 391 REMARK 465 GLU A 392 REMARK 465 GLY A 393 REMARK 465 GLY A 394 REMARK 465 GLN A 395 REMARK 465 ARG A 432 REMARK 465 LEU A 433 REMARK 465 THR A 434 REMARK 465 ASP A 435 REMARK 465 GLY A 436 REMARK 465 LYS A 437 REMARK 465 GLY A 438 REMARK 465 LYS A 439 REMARK 465 SER A 614 REMARK 465 GLN A 615 REMARK 465 HIS A 616 REMARK 465 THR A 617 REMARK 465 ASP A 618 REMARK 465 GLY A 619 REMARK 465 GLN A 629 REMARK 465 GLU A 630 REMARK 465 ASP A 631 REMARK 465 LYS A 632 REMARK 465 THR A 633 REMARK 465 SER A 634 REMARK 465 ARG A 635 REMARK 465 LYS A 636 REMARK 465 LEU A 637 REMARK 465 GLU A 638 REMARK 465 ILE A 639 REMARK 465 GLN A 640 REMARK 465 PRO A 641 REMARK 465 PRO A 642 REMARK 465 LEU A 643 REMARK 465 ASN A 644 REMARK 465 PRO A 645 REMARK 465 GLN A 646 REMARK 465 ASP A 647 REMARK 465 THR A 648 REMARK 465 ALA A 649 REMARK 465 HIS A 650 REMARK 465 THR A 651 REMARK 465 PRO A 652 REMARK 465 ARG A 653 REMARK 465 LYS A 654 REMARK 465 HIS A 655 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 187 -79.72 -108.79 REMARK 500 PHE A 211 -88.11 -119.06 REMARK 500 GLN A 372 -1.06 -145.61 REMARK 500 LYS A 415 79.31 -102.27 REMARK 500 LYS A 444 -56.80 -126.97 REMARK 500 GLU A 480 51.45 -149.90 REMARK 500 ARG A 511 -2.09 72.21 REMARK 500 LYS A 568 1.17 -68.10 REMARK 500 REMARK 500 REMARK: NULL DBREF1 8ZR0 A 120 655 UNP A0A8M3AT32_DANRE DBREF2 8ZR0 A A0A8M3AT32 120 655 SEQRES 1 A 536 ASP LYS ALA GLU ALA PHE LEU GLU ALA ALA ARG SER ASN SEQRES 2 A 536 ASP THR GLU GLU ILE ARG ARG LEU LEU SER GLU GLY LEU SEQRES 3 A 536 ASP PRO ASN THR ARG HIS ARG LEU GLY TRP THR ALA LEU SEQRES 4 A 536 MET VAL ALA ALA MET ASN THR GLN HIS ASN VAL VAL LYS SEQRES 5 A 536 LEU LEU LEU ASP ALA GLY ALA ASP PRO ASN LEU GLY ASP SEQRES 6 A 536 GLY PHE SER SER VAL TYR ASP THR ALA ARG GLU LYS SER SEQRES 7 A 536 LEU HIS SER LEU GLU VAL LEU VAL SER ARG GLU ASP GLU SEQRES 8 A 536 PHE SER SER ARG LEU SER SER ARG ALA SER PHE ARG GLY SEQRES 9 A 536 CYS SER ALA LEU HIS TYR ALA ALA LEU ALA ASP ASP LEU SEQRES 10 A 536 GLN THR VAL ARG LEU LEU LEU ASP ALA GLY ALA ASP PRO SEQRES 11 A 536 SER LEU LYS ASN ASP LEU GLY HIS THR PRO LEU SER TYR SEQRES 12 A 536 ALA ARG ASP GLY GLU LEU SER ALA VAL LEU ARG ASP ALA SEQRES 13 A 536 GLN ASP THR PHE ALA GLU ALA GLN ARG LYS ARG GLU ALA SEQRES 14 A 536 GLU GLU ARG ARG LYS PHE PRO LEU GLU ARG ARG LEU LYS SEQRES 15 A 536 GLU HIS ILE ILE GLY GLN GLU GLY ALA ILE ASN THR VAL SEQRES 16 A 536 ALA SER ALA ILE ARG ARG LYS GLU ASN GLY TRP TYR ASP SEQRES 17 A 536 GLU GLU HIS PRO LEU VAL PHE LEU PHE LEU GLY SER SER SEQRES 18 A 536 GLY ILE GLY LYS THR GLU LEU ALA LYS GLN VAL ALA ARG SEQRES 19 A 536 TYR MET HIS LYS ASP ILE LYS LYS GLY PHE ILE ARG MET SEQRES 20 A 536 ASP MET SER GLU PHE GLN GLU LYS HIS GLU VAL ALA LYS SEQRES 21 A 536 PHE ILE GLY SER PRO PRO GLY TYR VAL GLY HIS ASP GLU SEQRES 22 A 536 GLY GLY GLN LEU THR LYS GLN LEU LYS GLN SER PRO SER SEQRES 23 A 536 ALA VAL VAL LEU PHE ASP GLU VAL GLU LYS ALA HIS PRO SEQRES 24 A 536 ASP VAL LEU THR VAL MET LEU GLN LEU PHE ASP GLU GLY SEQRES 25 A 536 ARG LEU THR ASP GLY LYS GLY LYS THR ILE GLU CYS LYS SEQRES 26 A 536 ASP ALA ILE PHE ILE MET THR SER ASN ALA ALA SER ASP SEQRES 27 A 536 GLU ILE ALA GLN HIS ALA LEU GLN LEU ARG GLN GLU ALA SEQRES 28 A 536 GLN GLU GLN SER ARG ARG ARG LEU ALA GLU ASN LEU ASP SEQRES 29 A 536 ASP VAL GLN LYS SER GLU ASN ILE THR ILE SER ASN THR SEQRES 30 A 536 PHE LYS GLU GLN VAL ILE ARG PRO ILE LEU LYS ALA HIS SEQRES 31 A 536 PHE ARG ARG ASP GLU PHE LEU GLY ARG ILE ASN GLU ILE SEQRES 32 A 536 VAL TYR PHE LEU PRO PHE CYS HIS SER GLU LEU LEU GLN SEQRES 33 A 536 LEU VAL SER ARG GLU LEU HIS TYR TRP ALA LYS LYS ALA SEQRES 34 A 536 LYS GLN ARG HIS ASN ILE THR LEU LEU TRP GLU ARG PRO SEQRES 35 A 536 VAL LEU GLU LEU LEU VAL LYS GLY TYR ASN LEU HIS TYR SEQRES 36 A 536 GLY ALA ARG SER ILE LYS HIS GLU VAL GLU ARG ARG VAL SEQRES 37 A 536 VAL ASN GLN LEU ALA ALA ALA PHE GLU GLN GLU LEU LEU SEQRES 38 A 536 PRO LYS GLY CYS THR LEU ARG LEU THR VAL ASP ARG ASP SEQRES 39 A 536 SER GLN HIS THR ASP GLY ALA PRO VAL LEU ARG LEU GLU SEQRES 40 A 536 LEU LEU GLN GLU ASP LYS THR SER ARG LYS LEU GLU ILE SEQRES 41 A 536 GLN PRO PRO LEU ASN PRO GLN ASP THR ALA HIS THR PRO SEQRES 42 A 536 ARG LYS HIS HET ANP A 701 31 HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER FORMUL 2 ANP C10 H17 N6 O12 P3 FORMUL 3 HOH *3(H2 O) HELIX 1 AA1 ALA A 122 ASN A 132 1 11 HELIX 2 AA2 ASP A 133 GLU A 143 1 11 HELIX 3 AA3 THR A 156 ASN A 164 1 9 HELIX 4 AA4 GLN A 166 GLY A 177 1 12 HELIX 5 AA5 SER A 188 LYS A 196 1 9 HELIX 6 AA6 HIS A 199 GLU A 210 1 12 HELIX 7 AA7 SER A 225 ALA A 233 1 9 HELIX 8 AA8 ASP A 235 ALA A 245 1 11 HELIX 9 AA9 GLY A 266 PHE A 294 1 29 HELIX 10 AB1 PHE A 294 ILE A 304 1 11 HELIX 11 AB2 GLN A 307 GLY A 324 1 18 HELIX 12 AB3 GLY A 343 LYS A 357 1 15 HELIX 13 AB4 SER A 369 PHE A 371 5 3 HELIX 14 AB5 GLU A 373 ILE A 381 1 9 HELIX 15 AB6 THR A 397 SER A 403 1 7 HELIX 16 AB7 HIS A 417 GLY A 431 1 15 HELIX 17 AB8 ALA A 455 HIS A 462 1 8 HELIX 18 AB9 ALA A 463 LEU A 478 1 16 HELIX 19 AC1 ASN A 481 ASN A 490 1 10 HELIX 20 AC2 THR A 492 GLU A 499 1 8 HELIX 21 AC3 VAL A 501 ARG A 511 1 11 HELIX 22 AC4 ARG A 512 ARG A 518 1 7 HELIX 23 AC5 CYS A 529 HIS A 552 1 24 HELIX 24 AC6 GLU A 559 LYS A 568 1 10 HELIX 25 AC7 GLY A 569 TYR A 570 5 2 HELIX 26 AC8 ASN A 571 TYR A 574 5 4 HELIX 27 AC9 GLY A 575 VAL A 587 1 13 HELIX 28 AD1 VAL A 587 GLN A 597 1 11 SHEET 1 AA1 5 PHE A 363 ASP A 367 0 SHEET 2 AA1 5 VAL A 407 ASP A 411 1 O VAL A 407 N ILE A 364 SHEET 3 AA1 5 ILE A 447 SER A 452 1 O ILE A 447 N VAL A 408 SHEET 4 AA1 5 LEU A 332 LEU A 337 1 N PHE A 336 O MET A 450 SHEET 5 AA1 5 GLU A 521 TYR A 524 1 O VAL A 523 N LEU A 335 SHEET 1 AA2 3 THR A 555 TRP A 558 0 SHEET 2 AA2 3 THR A 605 ASP A 611 1 O LEU A 606 N THR A 555 SHEET 3 AA2 3 VAL A 622 LEU A 627 -1 O ARG A 624 N THR A 609 CRYST1 119.699 119.699 89.980 90.00 90.00 120.00 P 65 6 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 0.008354 0.004823 0.000000 0.00000 SCALE2 0.000000 0.009647 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011114 0.00000 CONECT 3860 3861 3862 3863 3867 CONECT 3861 3860 CONECT 3862 3860 CONECT 3863 3860 CONECT 3864 3865 3866 3867 3871 CONECT 3865 3864 CONECT 3866 3864 CONECT 3867 3860 3864 CONECT 3868 3869 3870 3871 3872 CONECT 3869 3868 CONECT 3870 3868 CONECT 3871 3864 3868 CONECT 3872 3868 3873 CONECT 3873 3872 3874 CONECT 3874 3873 3875 3876 CONECT 3875 3874 3880 CONECT 3876 3874 3877 3878 CONECT 3877 3876 CONECT 3878 3876 3879 3880 CONECT 3879 3878 CONECT 3880 3875 3878 3881 CONECT 3881 3880 3882 3890 CONECT 3882 3881 3883 CONECT 3883 3882 3884 CONECT 3884 3883 3885 3890 CONECT 3885 3884 3886 3887 CONECT 3886 3885 CONECT 3887 3885 3888 CONECT 3888 3887 3889 CONECT 3889 3888 3890 CONECT 3890 3881 3884 3889 MASTER 426 0 1 28 8 0 0 6 3892 1 31 42 END