HEADER RNA BINDING PROTEIN 25-APR-24 8ZAW TITLE CRYSTAL STRUCTURE OF PNPASE IN ANABAENA COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYNUCLEOTIDE PHOSPHORYLASE,PNPASE; COMPND 5 EC: 2.7.7.8; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: SEQUENCE REFERENCE FOR ANABAENA (1163) IS NOT COMPND 8 AVAILABLE IN UNIPROT AT THE TIME OF BIOCURATION. CURRENT SEQUENCE COMPND 9 REFERENCE IS FROM UNIPROT ID Q8YP11. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ANABAENA; SOURCE 3 ORGANISM_TAXID: 1163; SOURCE 4 GENE: PNP, ALL4396; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 561 KEYWDS POLYNUCLEOTIDE PHOSPHORYLASE, EXORIBONUCLEASE, RNA DEGRADATION, KEYWDS 2 ANABAENA, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.J.PENG REVDAT 1 30-APR-25 8ZAW 0 JRNL AUTH Y.J.PENG JRNL TITL STRUCTURE OF PNPASE IN ANABAENA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.18.2_3874: ???) 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 15740 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.233 REMARK 3 R VALUE (WORKING SET) : 0.231 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 761 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 32.4100 - 4.6100 0.99 2975 180 0.2278 0.2573 REMARK 3 2 4.6100 - 3.6600 1.00 2985 165 0.2094 0.2767 REMARK 3 3 3.6600 - 3.2000 1.00 3031 124 0.2316 0.3054 REMARK 3 4 3.2000 - 2.9100 1.00 3019 152 0.2482 0.3160 REMARK 3 5 2.9100 - 2.7000 0.99 2969 140 0.2619 0.3226 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.890 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 : 0.011 3792 REMARK 3 ANGLE : 1.257 5142 REMARK 3 CHIRALITY : 0.063 617 REMARK 3 PLANARITY : 0.008 668 REMARK 3 DIHEDRAL : 18.681 526 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 8ZAW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 28-APR-24. REMARK 100 THE DEPOSITION ID IS D_1300047330. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-23 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 : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15740 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT 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 (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 400, 0.16 M CACL2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.55950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.72644 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 64.81667 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 44.55950 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 25.72644 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 64.81667 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 44.55950 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 25.72644 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.81667 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 51.45288 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 129.63333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 51.45288 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 129.63333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 51.45288 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 129.63333 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 60580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 44.55950 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -77.17932 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 89.11900 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 -12 REMARK 465 ALA A -11 REMARK 465 SER A -10 REMARK 465 TRP A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 REMARK 465 PRO A -6 REMARK 465 GLN A -5 REMARK 465 PHE A -4 REMARK 465 GLU A -3 REMARK 465 LYS A -2 REMARK 465 GLY A -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 ARG A 49 REMARK 465 GLU A 50 REMARK 465 GLY A 51 REMARK 465 ILE A 52 REMARK 465 ASP A 53 REMARK 465 PHE A 54 REMARK 465 LEU A 55 REMARK 465 GLY A 73 REMARK 465 GLY A 74 REMARK 465 ILE A 75 REMARK 465 MET A 76 REMARK 465 ARG A 77 REMARK 465 ARG A 78 REMARK 465 GLU A 79 REMARK 465 GLY A 80 REMARK 465 ARG A 81 REMARK 465 PRO A 82 REMARK 465 PRO A 83 REMARK 465 GLU A 84 REMARK 465 GLU A 227 REMARK 465 ILE A 228 REMARK 465 VAL A 229 REMARK 465 GLN A 230 REMARK 465 GLU A 231 REMARK 465 ALA A 232 REMARK 465 PRO A 233 REMARK 465 PRO A 234 REMARK 465 GLU A 235 REMARK 465 VAL A 236 REMARK 465 ASP A 237 REMARK 465 GLN A 238 REMARK 465 GLY A 369 REMARK 465 ASP A 370 REMARK 465 ALA A 371 REMARK 465 GLN A 372 REMARK 465 ASN A 373 REMARK 465 LEU A 374 REMARK 465 ASN A 375 REMARK 465 ASP A 376 REMARK 465 ASP A 377 REMARK 465 LEU A 378 REMARK 465 GLN A 379 REMARK 465 THR A 380 REMARK 465 ASP A 381 REMARK 465 GLN A 382 REMARK 465 SER A 383 REMARK 465 LYS A 384 REMARK 465 PHE A 392 REMARK 465 PRO A 393 REMARK 465 PRO A 394 REMARK 465 PHE A 395 REMARK 465 SER A 396 REMARK 465 VAL A 397 REMARK 465 GLY A 398 REMARK 465 GLU A 399 REMARK 465 THR A 400 REMARK 465 LYS A 401 REMARK 465 PRO A 402 REMARK 465 LEU A 403 REMARK 465 ARG A 404 REMARK 465 ALA A 405 REMARK 465 PRO A 406 REMARK 465 GLY A 407 REMARK 465 ARG A 408 REMARK 465 ARG A 409 REMARK 465 GLU A 410 REMARK 465 ILE A 411 REMARK 465 GLY A 412 REMARK 465 HIS A 413 REMARK 465 PRO A 563 REMARK 465 ARG A 564 REMARK 465 LEU A 565 REMARK 465 LEU A 566 REMARK 465 THR A 567 REMARK 465 ILE A 568 REMARK 465 LYS A 569 REMARK 465 ILE A 570 REMARK 465 ASP A 571 REMARK 465 PRO A 572 REMARK 465 ASP A 573 REMARK 465 MET A 574 REMARK 465 ILE A 575 REMARK 465 GLY A 576 REMARK 465 LEU A 577 REMARK 465 VAL A 578 REMARK 465 ILE A 579 REMARK 465 GLY A 580 REMARK 465 PRO A 581 REMARK 465 GLY A 582 REMARK 465 GLY A 583 REMARK 465 LYS A 584 REMARK 465 THR A 585 REMARK 465 ILE A 586 REMARK 465 LYS A 587 REMARK 465 GLY A 588 REMARK 465 ILE A 589 REMARK 465 THR A 590 REMARK 465 GLU A 591 REMARK 465 GLU A 592 REMARK 465 THR A 593 REMARK 465 GLY A 594 REMARK 465 ALA A 595 REMARK 465 LYS A 596 REMARK 465 ILE A 597 REMARK 465 ASP A 598 REMARK 465 ILE A 599 REMARK 465 GLU A 600 REMARK 465 ASP A 601 REMARK 465 ASP A 602 REMARK 465 GLY A 603 REMARK 465 THR A 604 REMARK 465 VAL A 605 REMARK 465 THR A 606 REMARK 465 ILE A 607 REMARK 465 SER A 608 REMARK 465 ALA A 609 REMARK 465 VAL A 610 REMARK 465 ASP A 611 REMARK 465 GLU A 612 REMARK 465 ASN A 613 REMARK 465 LYS A 614 REMARK 465 ALA A 615 REMARK 465 LYS A 616 REMARK 465 ARG A 617 REMARK 465 ALA A 618 REMARK 465 ARG A 619 REMARK 465 ASN A 620 REMARK 465 ILE A 621 REMARK 465 VAL A 622 REMARK 465 GLN A 623 REMARK 465 GLY A 624 REMARK 465 MET A 625 REMARK 465 THR A 626 REMARK 465 ARG A 627 REMARK 465 LYS A 628 REMARK 465 LEU A 629 REMARK 465 ASN A 630 REMARK 465 GLU A 631 REMARK 465 GLY A 632 REMARK 465 ASP A 633 REMARK 465 VAL A 634 REMARK 465 TYR A 635 REMARK 465 ALA A 636 REMARK 465 GLY A 637 REMARK 465 ARG A 638 REMARK 465 VAL A 639 REMARK 465 THR A 640 REMARK 465 ARG A 641 REMARK 465 ILE A 642 REMARK 465 ILE A 643 REMARK 465 PRO A 644 REMARK 465 ILE A 645 REMARK 465 GLY A 646 REMARK 465 ALA A 647 REMARK 465 PHE A 648 REMARK 465 VAL A 649 REMARK 465 GLU A 650 REMARK 465 PHE A 651 REMARK 465 LEU A 652 REMARK 465 PRO A 653 REMARK 465 GLY A 654 REMARK 465 LYS A 655 REMARK 465 GLU A 656 REMARK 465 GLY A 657 REMARK 465 MET A 658 REMARK 465 ILE A 659 REMARK 465 HIS A 660 REMARK 465 ILE A 661 REMARK 465 SER A 662 REMARK 465 GLN A 663 REMARK 465 LEU A 664 REMARK 465 ALA A 665 REMARK 465 ASP A 666 REMARK 465 TYR A 667 REMARK 465 ARG A 668 REMARK 465 VAL A 669 REMARK 465 GLY A 670 REMARK 465 LYS A 671 REMARK 465 VAL A 672 REMARK 465 GLU A 673 REMARK 465 ASP A 674 REMARK 465 GLU A 675 REMARK 465 VAL A 676 REMARK 465 ALA A 677 REMARK 465 VAL A 678 REMARK 465 GLY A 679 REMARK 465 ASP A 680 REMARK 465 GLU A 681 REMARK 465 VAL A 682 REMARK 465 ILE A 683 REMARK 465 VAL A 684 REMARK 465 LYS A 685 REMARK 465 VAL A 686 REMARK 465 ARG A 687 REMARK 465 GLU A 688 REMARK 465 ILE A 689 REMARK 465 ASP A 690 REMARK 465 ASN A 691 REMARK 465 LYS A 692 REMARK 465 GLY A 693 REMARK 465 ARG A 694 REMARK 465 ILE A 695 REMARK 465 ASN A 696 REMARK 465 LEU A 697 REMARK 465 THR A 698 REMARK 465 ARG A 699 REMARK 465 LEU A 700 REMARK 465 GLY A 701 REMARK 465 ILE A 702 REMARK 465 HIS A 703 REMARK 465 PRO A 704 REMARK 465 ASP A 705 REMARK 465 GLN A 706 REMARK 465 ALA A 707 REMARK 465 ALA A 708 REMARK 465 ALA A 709 REMARK 465 ALA A 710 REMARK 465 ARG A 711 REMARK 465 GLU A 712 REMARK 465 ALA A 713 REMARK 465 ALA A 714 REMARK 465 ALA A 715 REMARK 465 VAL A 716 REMARK 465 ASN A 717 REMARK 465 ARG A 718 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 345 CB ARG A 345 CG -0.186 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 ALA A 216 CB - CA - C ANGL. DEV. = -13.7 DEGREES REMARK 500 ARG A 345 CG - CD - NE ANGL. DEV. = -18.9 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 ALA A 23 70.54 57.76 REMARK 500 LYS A 140 53.25 36.84 REMARK 500 ASN A 192 78.20 -103.36 REMARK 500 SER A 298 48.02 -79.11 REMARK 500 LYS A 299 -21.29 -169.52 REMARK 500 ASN A 321 43.65 -105.43 REMARK 500 TYR A 386 93.15 21.01 REMARK 500 ASN A 445 -12.43 -142.78 REMARK 500 GLU A 481 75.22 -109.57 REMARK 500 THR A 508 -167.80 -118.67 REMARK 500 GLN A 516 116.58 -165.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 266 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 8ZAW A 1 718 UNP Q8YP11 PNP_NOSS1 1 718 SEQADV 8ZAW MET A -12 UNP Q8YP11 INITIATING METHIONINE SEQADV 8ZAW ALA A -11 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW SER A -10 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW TRP A -9 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW SER A -8 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW HIS A -7 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW PRO A -6 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW GLN A -5 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW PHE A -4 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW GLU A -3 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW LYS A -2 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW GLY A -1 UNP Q8YP11 EXPRESSION TAG SEQADV 8ZAW ALA A 0 UNP Q8YP11 EXPRESSION TAG SEQRES 1 A 731 MET ALA SER TRP SER HIS PRO GLN PHE GLU LYS GLY ALA SEQRES 2 A 731 MET ALA GLU PHE GLU LYS SER ILE SER PHE ASP GLY ARG SEQRES 3 A 731 ASP ILE ARG LEU LYS VAL GLY LEU LEU ALA PRO GLN ALA SEQRES 4 A 731 GLY GLY SER VAL LEU ILE GLU SER GLY ASP THR ALA VAL SEQRES 5 A 731 LEU VAL THR ALA THR ARG SER PRO GLY ARG GLU GLY ILE SEQRES 6 A 731 ASP PHE LEU PRO LEU THR VAL ASP TYR GLU GLU ARG LEU SEQRES 7 A 731 TYR ALA ALA GLY ARG ILE PRO GLY GLY ILE MET ARG ARG SEQRES 8 A 731 GLU GLY ARG PRO PRO GLU LYS THR ILE LEU THR SER ARG SEQRES 9 A 731 LEU ILE ASP ARG PRO LEU ARG PRO LEU PHE PRO SER TRP SEQRES 10 A 731 LEU ARG ASP ASP LEU GLN VAL VAL ALA LEU THR MET SER SEQRES 11 A 731 MET ASP GLU GLN VAL PRO PRO ASP VAL LEU ALA VAL THR SEQRES 12 A 731 GLY ALA SER ILE ALA THR LEU ILE ALA LYS ILE PRO PHE SEQRES 13 A 731 ASN GLY PRO MET ALA ALA VAL ARG VAL GLY LEU VAL GLY SEQRES 14 A 731 ASP ASP PHE ILE ILE ASN PRO THR TYR ALA GLU ILE GLU SEQRES 15 A 731 ALA GLY ASP LEU ASP LEU VAL VAL ALA GLY SER PRO HIS SEQRES 16 A 731 GLY VAL ILE MET VAL GLU ALA GLY ALA ASN GLN LEU PRO SEQRES 17 A 731 GLU ARG ASP ILE ILE GLU ALA ILE ASP PHE GLY TYR GLU SEQRES 18 A 731 ALA VAL ARG ASP LEU ILE LYS ALA GLN LEU ASP LEU VAL SEQRES 19 A 731 ALA GLU LEU GLY LEU GLU ILE VAL GLN GLU ALA PRO PRO SEQRES 20 A 731 GLU VAL ASP GLN THR LEU GLU ASN TYR ILE ARG ASP ARG SEQRES 21 A 731 ALA SER ASP GLU ILE LYS LYS ILE LEU ALA GLN PHE GLU SEQRES 22 A 731 LEU THR LYS PRO GLU ARG ASP ALA ALA LEU ASP VAL VAL SEQRES 23 A 731 LYS ASP ASN ILE ALA THR ALA ILE ALA GLU LEU PRO GLU SEQRES 24 A 731 GLU ASP PRO ILE ARG LEU ALA ALA THR ALA ASN SER LYS SEQRES 25 A 731 ALA LEU GLY ASN THR PHE LYS ASP ILE THR LYS TYR PHE SEQRES 26 A 731 MET ARG ARG GLN ILE VAL GLU ASP ASN VAL ARG VAL ASP SEQRES 27 A 731 GLY ARG LYS LEU ASP GLN VAL ARG PRO VAL SER SER GLN SEQRES 28 A 731 VAL GLY VAL LEU PRO LYS ARG VAL HIS GLY SER GLY LEU SEQRES 29 A 731 PHE ASN ARG GLY LEU THR GLN VAL LEU SER ALA CYS THR SEQRES 30 A 731 LEU GLY THR PRO GLY ASP ALA GLN ASN LEU ASN ASP ASP SEQRES 31 A 731 LEU GLN THR ASP GLN SER LYS ARG TYR LEU HIS HIS TYR SEQRES 32 A 731 ASN PHE PRO PRO PHE SER VAL GLY GLU THR LYS PRO LEU SEQRES 33 A 731 ARG ALA PRO GLY ARG ARG GLU ILE GLY HIS GLY ALA LEU SEQRES 34 A 731 ALA GLU ARG ALA ILE LEU PRO VAL LEU PRO PRO LYS GLU SEQRES 35 A 731 GLN PHE PRO TYR VAL ILE ARG VAL VAL SER GLU VAL LEU SEQRES 36 A 731 SER SER ASN GLY SER THR SER MET GLY SER VAL CYS GLY SEQRES 37 A 731 SER THR LEU ALA LEU MET ASP ALA GLY VAL PRO ILE LEU SEQRES 38 A 731 LYS PRO VAL SER GLY ALA ALA MET GLY LEU ILE LYS GLU SEQRES 39 A 731 GLY ASP GLU VAL ARG VAL LEU THR ASP ILE GLN GLY ILE SEQRES 40 A 731 GLU ASP PHE LEU GLY ASP MET ASP PHE LYS VAL ALA GLY SEQRES 41 A 731 THR ASP ALA GLY ILE THR ALA LEU GLN MET ASP MET LYS SEQRES 42 A 731 ILE SER GLY LEU SER LEU GLU VAL ILE ALA GLN ALA ILE SEQRES 43 A 731 HIS GLN ALA LYS ASP ALA ARG LEU HIS ILE LEU ASP LYS SEQRES 44 A 731 MET LEU GLN THR ILE ASP GLN PRO ARG THR GLU THR SER SEQRES 45 A 731 PRO TYR ALA PRO ARG LEU LEU THR ILE LYS ILE ASP PRO SEQRES 46 A 731 ASP MET ILE GLY LEU VAL ILE GLY PRO GLY GLY LYS THR SEQRES 47 A 731 ILE LYS GLY ILE THR GLU GLU THR GLY ALA LYS ILE ASP SEQRES 48 A 731 ILE GLU ASP ASP GLY THR VAL THR ILE SER ALA VAL ASP SEQRES 49 A 731 GLU ASN LYS ALA LYS ARG ALA ARG ASN ILE VAL GLN GLY SEQRES 50 A 731 MET THR ARG LYS LEU ASN GLU GLY ASP VAL TYR ALA GLY SEQRES 51 A 731 ARG VAL THR ARG ILE ILE PRO ILE GLY ALA PHE VAL GLU SEQRES 52 A 731 PHE LEU PRO GLY LYS GLU GLY MET ILE HIS ILE SER GLN SEQRES 53 A 731 LEU ALA ASP TYR ARG VAL GLY LYS VAL GLU ASP GLU VAL SEQRES 54 A 731 ALA VAL GLY ASP GLU VAL ILE VAL LYS VAL ARG GLU ILE SEQRES 55 A 731 ASP ASN LYS GLY ARG ILE ASN LEU THR ARG LEU GLY ILE SEQRES 56 A 731 HIS PRO ASP GLN ALA ALA ALA ALA ARG GLU ALA ALA ALA SEQRES 57 A 731 VAL ASN ARG HET MG A 801 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG MG 2+ FORMUL 3 HOH *45(H2 O) HELIX 1 AA1 THR A 86 ARG A 98 1 13 HELIX 2 AA2 PRO A 99 PHE A 101 5 3 HELIX 3 AA3 PRO A 124 ALA A 139 1 16 HELIX 4 AA4 THR A 164 GLY A 171 1 8 HELIX 5 AA5 PRO A 195 LYS A 215 1 21 HELIX 6 AA6 GLN A 217 GLY A 225 1 9 HELIX 7 AA7 LEU A 240 GLN A 258 1 19 HELIX 8 AA8 THR A 262 LEU A 284 1 23 HELIX 9 AA9 ASP A 288 ALA A 296 1 9 HELIX 10 AB1 LYS A 299 GLU A 319 1 21 HELIX 11 AB2 ALA A 415 LEU A 422 1 8 HELIX 12 AB3 PRO A 423 LEU A 425 5 3 HELIX 13 AB4 SER A 447 ALA A 463 1 17 HELIX 14 AB5 GLN A 492 LEU A 498 1 7 HELIX 15 AB6 SER A 525 LEU A 548 1 24 SHEET 1 AA1 6 PHE A 4 ILE A 8 0 SHEET 2 AA1 6 ILE A 15 VAL A 19 -1 O LEU A 17 N LYS A 6 SHEET 3 AA1 6 GLY A 28 SER A 34 -1 O GLU A 33 N ARG A 16 SHEET 4 AA1 6 THR A 37 SER A 46 -1 O VAL A 39 N ILE A 32 SHEET 5 AA1 6 ASP A 108 SER A 117 -1 O LEU A 114 N LEU A 40 SHEET 6 AA1 6 LEU A 57 GLU A 63 1 N GLU A 62 O THR A 115 SHEET 1 AA2 8 ASP A 158 ILE A 161 0 SHEET 2 AA2 8 ALA A 148 VAL A 155 -1 N VAL A 155 O ASP A 158 SHEET 3 AA2 8 LEU A 173 SER A 180 -1 O LEU A 175 N VAL A 152 SHEET 4 AA2 8 GLY A 183 LEU A 194 -1 O GLU A 188 N VAL A 176 SHEET 5 AA2 8 ILE A 512 MET A 519 -1 O ILE A 512 N LEU A 194 SHEET 6 AA2 8 MET A 501 GLY A 507 -1 N LYS A 504 O GLN A 516 SHEET 7 AA2 8 SER A 472 GLU A 481 -1 N MET A 476 O PHE A 503 SHEET 8 AA2 8 GLU A 484 THR A 489 -1 O LEU A 488 N GLY A 477 SHEET 1 AA3 5 VAL A 335 VAL A 339 0 SHEET 2 AA3 5 GLY A 348 ARG A 354 -1 O ASN A 353 N SER A 336 SHEET 3 AA3 5 THR A 357 LEU A 365 -1 O SER A 361 N GLY A 350 SHEET 4 AA3 5 ILE A 435 SER A 443 -1 O GLU A 440 N LEU A 360 SHEET 5 AA3 5 LEU A 387 TYR A 390 1 N LEU A 387 O ILE A 435 LINK OD2 ASP A 502 MG MG A 801 1555 1555 2.36 CISPEP 1 GLY A 145 PRO A 146 0 -10.29 CRYST1 89.119 89.119 194.450 90.00 90.00 120.00 H 3 9 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 0.011221 0.006478 0.000000 0.00000 SCALE2 0.000000 0.012957 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005143 0.00000 TER 3735 ALA A 562 HETATM 3736 MG MG A 801 19.678 -30.922 -10.940 1.00 30.38 MG HETATM 3737 O HOH A 901 24.390 2.240 5.349 1.00 24.56 O HETATM 3738 O HOH A 902 31.972 -9.617 -16.624 1.00 28.94 O HETATM 3739 O HOH A 903 17.956 -46.235 -13.694 1.00 9.51 O HETATM 3740 O HOH A 904 30.671 -7.345 -11.172 1.00 23.96 O HETATM 3741 O HOH A 905 25.599 -31.997 -1.130 1.00 27.39 O HETATM 3742 O HOH A 906 -6.158 -23.154 -13.541 1.00 44.68 O HETATM 3743 O HOH A 907 26.548 -24.534 -14.008 1.00 36.44 O HETATM 3744 O HOH A 908 15.293 -14.250 6.096 1.00 16.30 O HETATM 3745 O HOH A 909 10.863 3.164 -7.422 1.00 27.89 O HETATM 3746 O HOH A 910 21.786 -27.806 -5.638 1.00 33.10 O HETATM 3747 O HOH A 911 22.673 -33.995 0.536 1.00 32.38 O HETATM 3748 O HOH A 912 -0.325 -15.125 -3.742 1.00 31.27 O HETATM 3749 O HOH A 913 8.178 -36.268 -1.164 1.00 15.71 O HETATM 3750 O HOH A 914 32.804 3.400 -15.161 1.00 23.17 O HETATM 3751 O HOH A 915 28.183 -18.985 -9.891 1.00 20.31 O HETATM 3752 O HOH A 916 17.610 -12.299 15.234 1.00 28.83 O HETATM 3753 O HOH A 917 14.721 -41.939 -2.742 1.00 14.78 O HETATM 3754 O HOH A 918 30.976 -46.003 12.630 1.00 24.67 O HETATM 3755 O HOH A 919 25.713 1.802 -5.305 1.00 16.48 O HETATM 3756 O HOH A 920 33.702 -1.189 -10.326 1.00 16.35 O HETATM 3757 O HOH A 921 18.406 0.314 6.270 1.00 32.22 O HETATM 3758 O HOH A 922 25.390 -17.145 4.480 1.00 30.97 O HETATM 3759 O HOH A 923 19.138 -22.638 -39.806 1.00 35.46 O HETATM 3760 O HOH A 924 2.582 -33.365 11.135 1.00 32.21 O HETATM 3761 O HOH A 925 19.765 -18.240 7.014 1.00 21.08 O HETATM 3762 O HOH A 926 25.660 -48.251 17.244 1.00 22.34 O HETATM 3763 O HOH A 927 11.705 -39.861 -20.404 1.00 25.52 O HETATM 3764 O HOH A 928 -2.310 -26.204 10.112 1.00 20.23 O HETATM 3765 O HOH A 929 19.784 -40.749 -17.564 1.00 25.53 O HETATM 3766 O HOH A 930 29.601 1.269 -15.877 1.00 20.61 O HETATM 3767 O HOH A 931 14.777 -54.746 -0.958 1.00 20.24 O HETATM 3768 O HOH A 932 22.552 -14.163 15.960 1.00 40.50 O HETATM 3769 O HOH A 933 22.765 -15.663 5.186 1.00 21.14 O HETATM 3770 O HOH A 934 0.260 -34.010 -15.567 1.00 33.09 O HETATM 3771 O HOH A 935 32.047 -42.692 -3.475 1.00 26.56 O HETATM 3772 O HOH A 936 35.260 -13.453 3.793 1.00 30.23 O HETATM 3773 O HOH A 937 -4.411 -32.445 -21.850 1.00 31.31 O HETATM 3774 O HOH A 938 28.042 6.726 -11.236 1.00 42.87 O HETATM 3775 O HOH A 939 22.916 -33.493 -5.321 1.00 15.65 O HETATM 3776 O HOH A 940 -8.169 -23.128 -12.177 1.00 40.35 O HETATM 3777 O HOH A 941 14.538 6.530 4.375 1.00 24.31 O HETATM 3778 O HOH A 942 24.613 -17.013 -19.119 1.00 27.39 O HETATM 3779 O HOH A 943 16.516 -11.960 -24.996 1.00 35.34 O HETATM 3780 O HOH A 944 22.001 -21.210 4.893 1.00 29.67 O HETATM 3781 O HOH A 945 12.081 -47.147 -39.283 1.00 25.18 O CONECT 3277 3736 CONECT 3736 3277 MASTER 551 0 1 15 19 0 0 6 3780 1 2 57 END