HEADER DNA BINDING PROTEIN 19-AUG-25 9SF9 TITLE DIMERIC FORM OF THE STREPTOCOCCUS PYOGENES NUCLEASE A (SPNA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDONUCLEASE/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING COMPND 3 PROTEIN; COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES; SOURCE 3 ORGANISM_TAXID: 1314; SOURCE 4 GENE: SPY_0747; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STREPTOCOCCUS PYOGENES, NUCLEASE, SPNA, DNA BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR I.A.BENNIG,J.STROBAEK,R.MARMEDE,A.SELLERBERG,A.NEUMANN,A.FRIAES, AUTHOR 2 M.RAMIREZ,M.HALL,M.COLLIN,L.MALMSTROM,S.EKSTROM,I.FRICK,L.BJORCK, AUTHOR 3 L.J.HAPPONEN REVDAT 1 02-SEP-26 9SF9 0 JRNL AUTH I.A.BENNIG,J.STROBAEK,R.MARMEDE,A.NEUMANN,A.FRIAES, JRNL AUTH 2 M.RAMIREZ,M.HALL,M.COLLIN,L.MALMSTROM,S.EKSTROM,I.FRICK, JRNL AUTH 3 L.BJORCK,H.J.HAPPONEN JRNL TITL DIMERIC STREPTOCOCCUS PYOGENES NUCLEASE A SPNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, PHENIX, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.800 REMARK 3 NUMBER OF PARTICLES : 126766 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9SF9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-AUG-25. REMARK 100 THE DEPOSITION ID IS D_1292150271. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : STREPTOCOCCUS PYOGENES NUCLEASE REMARK 245 A, SPNA REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2200.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6000.00 REMARK 245 ILLUMINATION MODE : OTHER REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 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 VAL A 290 REMARK 465 VAL A 309 REMARK 465 GLN A 313 REMARK 465 LEU A 319 REMARK 465 LYS A 347 REMARK 465 ASN A 348 REMARK 465 ALA A 349 REMARK 465 LYS A 350 REMARK 465 VAL A 351 REMARK 465 GLY A 354 REMARK 465 THR A 358 REMARK 465 ILE A 359 REMARK 465 SER A 360 REMARK 465 GLY A 361 REMARK 465 LYS A 387 REMARK 465 ALA A 388 REMARK 465 VAL A 389 REMARK 465 THR A 390 REMARK 465 LYS A 391 REMARK 465 THR A 392 REMARK 465 GLY A 393 REMARK 465 THR A 394 REMARK 465 ALA A 395 REMARK 465 GLN A 396 REMARK 465 ILE A 414 REMARK 465 ARG A 420 REMARK 465 LYS A 493 REMARK 465 LYS A 525 REMARK 465 ASN A 526 REMARK 465 SER A 529 REMARK 465 ASP A 661 REMARK 465 VAL A 674 REMARK 465 ASN A 675 REMARK 465 GLY A 676 REMARK 465 VAL A 733 REMARK 465 THR A 734 REMARK 465 LYS A 757 REMARK 465 HIS A 758 REMARK 465 GLY A 783 REMARK 465 SER B 322 REMARK 465 GLY B 334 REMARK 465 LYS B 387 REMARK 465 ALA B 388 REMARK 465 VAL B 389 REMARK 465 GLY B 393 REMARK 465 THR B 394 REMARK 465 ALA B 395 REMARK 465 GLN B 396 REMARK 465 HIS B 758 REMARK 465 GLU B 782 REMARK 465 GLY B 783 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 291 CG CD CE NZ REMARK 470 GLU A 294 CG CD OE1 OE2 REMARK 470 SER A 299 OG REMARK 470 LEU A 304 CG CD1 CD2 REMARK 470 LEU A 305 CG CD1 CD2 REMARK 470 LYS A 306 CG CD CE NZ REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 THR A 310 OG1 CG2 REMARK 470 VAL A 311 CG1 CG2 REMARK 470 GLU A 312 CG CD OE1 OE2 REMARK 470 VAL A 315 CG1 CG2 REMARK 470 TYR A 318 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 320 CG OD1 OD2 REMARK 470 ASP A 321 CG OD1 OD2 REMARK 470 SER A 322 OG REMARK 470 LEU A 330 CG CD1 CD2 REMARK 470 ASN A 331 CG OD1 ND2 REMARK 470 ASP A 333 CG OD1 OD2 REMARK 470 LEU A 336 CG CD1 CD2 REMARK 470 ARG A 343 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 345 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 352 CG CD OE1 NE2 REMARK 470 ASP A 355 CG OD1 OD2 REMARK 470 LEU A 357 CG CD1 CD2 REMARK 470 GLU A 362 CG CD OE1 OE2 REMARK 470 GLU A 364 CG CD OE1 OE2 REMARK 470 PHE A 366 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 369 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 372 CG CD OE1 OE2 REMARK 470 GLU A 373 CG CD OE1 OE2 REMARK 470 GLN A 376 CG CD OE1 NE2 REMARK 470 VAL A 385 CG1 CG2 REMARK 470 VAL A 397 CG1 CG2 REMARK 470 SER A 399 OG REMARK 470 LYS A 405 CG CD CE NZ REMARK 470 ASP A 406 CG OD1 OD2 REMARK 470 ILE A 408 CG1 CG2 CD1 REMARK 470 ASN A 412 CG OD1 ND2 REMARK 470 ASN A 416 CG OD1 ND2 REMARK 470 VAL A 421 CG1 CG2 REMARK 470 GLU A 425 CG CD OE1 OE2 REMARK 470 GLU A 426 CG CD OE1 OE2 REMARK 470 ASP A 443 CG OD1 OD2 REMARK 470 ASP A 444 CG OD1 OD2 REMARK 470 LYS A 452 CG CD CE NZ REMARK 470 THR A 464 OG1 CG2 REMARK 470 ARG A 465 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 478 CG OD1 ND2 REMARK 470 LYS A 490 CG CD CE NZ REMARK 470 LYS A 491 CG CD CE NZ REMARK 470 GLN A 494 OE1 NE2 REMARK 470 ILE A 495 CG1 CG2 CD1 REMARK 470 LYS A 503 CG CD CE NZ REMARK 470 ARG A 505 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 522 CG OD1 OD2 REMARK 470 ASP A 523 CG OD1 OD2 REMARK 470 ASP A 532 CG OD1 OD2 REMARK 470 LYS A 536 CE NZ REMARK 470 LYS A 539 CG CD CE NZ REMARK 470 GLN A 543 CG CD OE1 NE2 REMARK 470 ASP A 545 CG OD1 OD2 REMARK 470 SER A 547 OG REMARK 470 LYS A 548 CG CD CE NZ REMARK 470 SER A 564 OG REMARK 470 LYS A 567 CG CD CE NZ REMARK 470 ASP A 568 CG OD1 OD2 REMARK 470 GLU A 569 CG CD OE1 OE2 REMARK 470 LYS A 572 CG CD CE NZ REMARK 470 ARG A 573 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 601 OD1 OD2 REMARK 470 ASP A 602 CG OD1 OD2 REMARK 470 GLN A 609 CD OE1 NE2 REMARK 470 ASP A 616 CG OD1 OD2 REMARK 470 LYS A 619 CG CD CE NZ REMARK 470 LYS A 620 CG CD CE NZ REMARK 470 THR A 625 OG1 CG2 REMARK 470 ARG A 627 NH1 NH2 REMARK 470 GLU A 634 CD OE1 OE2 REMARK 470 ASP A 638 CG OD1 OD2 REMARK 470 GLN A 641 O NE2 REMARK 470 GLU A 655 CG CD OE1 OE2 REMARK 470 SER A 658 OG REMARK 470 LYS A 662 CE NZ REMARK 470 ARG A 668 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 669 CG OD1 OD2 REMARK 470 THR A 672 OG1 CG2 REMARK 470 GLU A 677 CG CD OE1 OE2 REMARK 470 ASN A 679 CG OD1 ND2 REMARK 470 ASP A 686 CG OD1 OD2 REMARK 470 THR A 688 OG1 CG2 REMARK 470 ASN A 689 CG OD1 ND2 REMARK 470 ALA A 690 CB REMARK 470 LYS A 693 CG CD CE NZ REMARK 470 ASP A 694 CG OD1 OD2 REMARK 470 ARG A 708 NH1 NH2 REMARK 470 LYS A 709 CG CD CE NZ REMARK 470 ARG A 721 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 736 CG CD CE NZ REMARK 470 GLU A 738 CG CD OE1 OE2 REMARK 470 GLN A 739 CG CD OE1 NE2 REMARK 470 ASN A 746 CG OD1 ND2 REMARK 470 GLN A 750 CG CD OE1 NE2 REMARK 470 LYS A 753 O CG CD CE NZ REMARK 470 GLU A 754 CG CD OE1 OE2 REMARK 470 GLN A 759 CG CD OE1 NE2 REMARK 470 LYS A 775 CD CE NZ REMARK 470 GLU A 781 OE1 OE2 REMARK 470 GLU A 782 CG CD OE1 OE2 REMARK 470 ASP A 784 CG OD1 OD2 REMARK 470 ASP A 793 CG OD1 OD2 REMARK 470 ARG A 816 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 817 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 820 OD2 REMARK 470 GLU A 835 OE2 REMARK 470 VAL B 290 CG1 CG2 REMARK 470 LYS B 291 CG CD CE NZ REMARK 470 GLY B 293 O REMARK 470 GLU B 294 CG CD OE1 OE2 REMARK 470 SER B 302 OG REMARK 470 LEU B 304 CG CD1 CD2 REMARK 470 LEU B 305 CB CG CD1 CD2 REMARK 470 LYS B 306 O CB CG CD CE NZ REMARK 470 LYS B 307 CD CE NZ REMARK 470 ALA B 308 CB REMARK 470 VAL B 309 CG1 CG2 REMARK 470 THR B 310 OG1 CG2 REMARK 470 GLU B 312 CG CD OE1 OE2 REMARK 470 GLN B 313 CG CD OE1 NE2 REMARK 470 ASP B 320 CG OD1 OD2 REMARK 470 ASP B 321 C O OD2 REMARK 470 ASP B 329 CG OD1 OD2 REMARK 470 LEU B 330 CG CD1 CD2 REMARK 470 ASN B 331 CG OD1 ND2 REMARK 470 ASP B 333 CG OD1 OD2 REMARK 470 ASP B 335 CG OD1 OD2 REMARK 470 LEU B 336 CG CD1 CD2 REMARK 470 LYS B 347 CG CD CE NZ REMARK 470 ASN B 348 ND2 REMARK 470 LYS B 350 CG CD CE NZ REMARK 470 GLN B 352 CG CD OE1 NE2 REMARK 470 ASP B 355 CG OD1 OD2 REMARK 470 VAL B 356 CG2 REMARK 470 LEU B 357 CG CD1 CD2 REMARK 470 THR B 358 OG1 CG2 REMARK 470 ILE B 359 CG1 CG2 CD1 REMARK 470 SER B 360 O CB OG REMARK 470 GLY B 361 O REMARK 470 GLU B 362 CG CD OE1 OE2 REMARK 470 GLU B 364 OE1 REMARK 470 GLU B 365 OE1 OE2 REMARK 470 ARG B 369 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 372 CG CD OE1 OE2 REMARK 470 GLU B 373 CG CD OE1 OE2 REMARK 470 LYS B 375 CG CD CE NZ REMARK 470 GLN B 376 CG CD OE1 NE2 REMARK 470 ILE B 384 CG1 CG2 CD1 REMARK 470 VAL B 385 O CB CG1 CG2 REMARK 470 ALA B 386 CB REMARK 470 THR B 390 O OG1 CG2 REMARK 470 LYS B 391 CD CE NZ REMARK 470 THR B 392 OG1 CG2 REMARK 470 SER B 399 OG REMARK 470 LYS B 405 CG CD CE NZ REMARK 470 ARG B 407 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 408 CD1 REMARK 470 ASN B 416 CG OD1 ND2 REMARK 470 ARG B 420 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 421 O CG1 CG2 REMARK 470 ASP B 423 CB CG OD1 OD2 REMARK 470 GLU B 425 CG CD OE1 OE2 REMARK 470 GLU B 426 CG CD OE1 OE2 REMARK 470 GLU B 433 OE2 REMARK 470 GLU B 436 CG CD OE1 OE2 REMARK 470 ASP B 444 CG OD1 OD2 REMARK 470 LYS B 452 CG CD CE NZ REMARK 470 SER B 462 OG REMARK 470 THR B 464 OG1 CG2 REMARK 470 ASN B 469 CG OD1 ND2 REMARK 470 ASN B 478 CG OD1 ND2 REMARK 470 LYS B 490 CG CD CE NZ REMARK 470 LYS B 491 CG CD CE NZ REMARK 470 LYS B 493 CG CD CE NZ REMARK 470 LYS B 503 CG CD CE NZ REMARK 470 LYS B 518 CG CD CE NZ REMARK 470 ASP B 523 CG OD1 OD2 REMARK 470 SER B 524 OG REMARK 470 LYS B 525 CG CD CE NZ REMARK 470 ASN B 526 CG OD1 ND2 REMARK 470 SER B 529 OG REMARK 470 MET B 531 CG SD CE REMARK 470 LYS B 536 CG CD CE NZ REMARK 470 LYS B 539 CG CD CE NZ REMARK 470 GLN B 543 CG CD OE1 NE2 REMARK 470 LYS B 567 CG CD CE NZ REMARK 470 ASP B 568 OD1 OD2 REMARK 470 GLU B 569 CG CD OE1 OE2 REMARK 470 LYS B 572 CG CD CE NZ REMARK 470 ARG B 573 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 576 CG CD OE1 OE2 REMARK 470 ASP B 601 CG OD1 OD2 REMARK 470 GLN B 609 CG CD OE1 NE2 REMARK 470 LYS B 620 CG CD CE NZ REMARK 470 ARG B 627 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 631 CG1 CG2 CD1 REMARK 470 GLU B 634 CG CD OE1 OE2 REMARK 470 VAL B 637 CG1 CG2 REMARK 470 ASP B 638 CG OD1 OD2 REMARK 470 GLU B 655 CG CD OE1 OE2 REMARK 470 ASP B 661 CG OD1 OD2 REMARK 470 ARG B 668 CG CD NE CZ NH1 NH2 REMARK 470 THR B 672 OG1 CG2 REMARK 470 VAL B 674 CG1 CG2 REMARK 470 ASN B 675 CG OD1 ND2 REMARK 470 GLU B 677 CG CD OE1 OE2 REMARK 470 ASP B 686 CG OD1 OD2 REMARK 470 LYS B 693 CG CD CE NZ REMARK 470 ASP B 694 CG OD1 OD2 REMARK 470 LYS B 697 CG CD CE NZ REMARK 470 GLU B 702 CG CD OE1 OE2 REMARK 470 LYS B 709 CG CD CE NZ REMARK 470 ARG B 721 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 723 CG OD1 OD2 REMARK 470 ASN B 724 CG OD1 ND2 REMARK 470 GLN B 731 CG CD OE1 NE2 REMARK 470 VAL B 733 CG1 CG2 REMARK 470 THR B 734 OG1 CG2 REMARK 470 PHE B 735 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 736 NZ REMARK 470 GLU B 738 CG CD OE1 OE2 REMARK 470 GLN B 739 CG CD OE1 NE2 REMARK 470 ARG B 740 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 743 CG1 CG2 REMARK 470 ASN B 746 CG OD1 ND2 REMARK 470 GLN B 750 CG CD OE1 NE2 REMARK 470 LYS B 753 CE NZ REMARK 470 GLU B 754 CG CD OE1 OE2 REMARK 470 LYS B 757 CG CD CE NZ REMARK 470 GLN B 759 CG CD OE1 NE2 REMARK 470 ILE B 762 CG1 CG2 CD1 REMARK 470 ASP B 767 CG OD1 OD2 REMARK 470 LYS B 775 CG CD CE NZ REMARK 470 GLU B 781 CG CD OE1 OE2 REMARK 470 ASP B 784 CG OD1 OD2 REMARK 470 ILE B 794 CG1 CG2 CD1 REMARK 470 ASP B 810 CG OD1 OD2 REMARK 470 ARG B 816 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 820 CG OD1 OD2 REMARK 470 GLU B 835 CG CD OE1 OE2 REMARK 470 ASP B 842 OD1 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 298 57.31 -96.36 REMARK 500 LYS A 405 -80.96 -111.84 REMARK 500 ASN A 412 -50.89 70.06 REMARK 500 ASP A 417 16.21 -176.77 REMARK 500 SER A 462 43.00 -69.99 REMARK 500 LYS A 491 65.01 -161.76 REMARK 500 GLU A 557 84.54 67.53 REMARK 500 ALA A 584 73.24 49.59 REMARK 500 THR A 600 124.15 -36.77 REMARK 500 ASP A 602 37.50 -151.80 REMARK 500 ASN A 636 16.02 56.64 REMARK 500 ASN A 689 126.33 -39.72 REMARK 500 TYR A 727 61.52 -106.12 REMARK 500 SER A 790 8.96 -67.46 REMARK 500 HIS A 817 11.06 -59.52 REMARK 500 ALA B 298 59.32 -108.46 REMARK 500 ALA B 337 -70.69 -78.58 REMARK 500 THR B 338 105.41 -47.52 REMARK 500 ASP B 340 32.72 -99.77 REMARK 500 ALA B 349 98.56 -179.68 REMARK 500 SER B 360 68.39 -151.64 REMARK 500 GLU B 362 -113.09 -105.24 REMARK 500 VAL B 363 137.56 168.78 REMARK 500 ARG B 369 113.46 -34.53 REMARK 500 VAL B 385 63.67 -109.82 REMARK 500 LYS B 391 104.88 -46.55 REMARK 500 ASN B 412 -5.17 71.99 REMARK 500 ASN B 416 17.59 -168.66 REMARK 500 ASP B 417 15.69 -158.24 REMARK 500 ARG B 420 52.03 -140.76 REMARK 500 VAL B 421 53.60 179.72 REMARK 500 PHE B 422 119.80 -33.41 REMARK 500 ASP B 423 89.33 -154.34 REMARK 500 PRO B 424 -1.86 -56.85 REMARK 500 ASN B 468 -179.98 -68.96 REMARK 500 ASN B 478 50.06 -114.88 REMARK 500 GLU B 557 78.04 67.64 REMARK 500 ALA B 584 73.72 52.69 REMARK 500 ASP B 595 -164.66 -74.72 REMARK 500 ASP B 602 33.15 -163.77 REMARK 500 THR B 688 39.16 82.40 REMARK 500 ALA B 690 -16.28 67.07 REMARK 500 TYR B 727 50.73 -107.36 REMARK 500 VAL B 730 82.39 -62.02 REMARK 500 VAL B 733 -135.76 163.69 REMARK 500 THR B 734 -114.48 174.96 REMARK 500 PHE B 735 -155.40 79.28 REMARK 500 LYS B 736 158.97 84.49 REMARK 500 SER B 737 -14.97 77.74 REMARK 500 SER B 790 36.42 -72.64 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. 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 791 0.13 SIDE CHAIN REMARK 500 ARG B 791 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-54817 RELATED DB: EMDB REMARK 900 DIMERIC FORM OF THE STREPTOCOCCUS PYOGENES NUCLEASE A (SPNA) DBREF 9SF9 A 290 852 UNP Q9A0J7 Q9A0J7_STRP1 290 852 DBREF 9SF9 B 290 852 UNP Q9A0J7 Q9A0J7_STRP1 290 852 SEQRES 1 A 563 VAL LYS ILE GLY GLU ILE GLN GLY ALA SER HIS THR SER SEQRES 2 A 563 PRO LEU LEU LYS LYS ALA VAL THR VAL GLU GLN VAL VAL SEQRES 3 A 563 VAL THR TYR LEU ASP ASP SER THR HIS PHE TYR VAL GLN SEQRES 4 A 563 ASP LEU ASN GLY ASP GLY ASP LEU ALA THR SER ASP GLY SEQRES 5 A 563 ILE ARG VAL PHE ALA LYS ASN ALA LYS VAL GLN VAL GLY SEQRES 6 A 563 ASP VAL LEU THR ILE SER GLY GLU VAL GLU GLU PHE PHE SEQRES 7 A 563 GLY ARG GLY TYR GLU GLU ARG LYS GLN THR ASP LEU THR SEQRES 8 A 563 ILE THR GLN ILE VAL ALA LYS ALA VAL THR LYS THR GLY SEQRES 9 A 563 THR ALA GLN VAL PRO SER PRO LEU VAL LEU GLY LYS ASP SEQRES 10 A 563 ARG ILE ALA PRO ALA ASN ILE ILE ASP ASN ASP GLY LEU SEQRES 11 A 563 ARG VAL PHE ASP PRO GLU GLU ASP ALA ILE ASP TYR TRP SEQRES 12 A 563 GLU SER MET GLU GLY MET LEU VAL ALA VAL ASP ASP ALA SEQRES 13 A 563 LYS ILE LEU GLY PRO MET LYS ASN LYS GLU ILE TYR VAL SEQRES 14 A 563 LEU PRO GLY SER SER THR ARG PRO LEU ASN ASN SER GLY SEQRES 15 A 563 GLY VAL LEU LEU PRO ALA ASN SER TYR ASN THR ASP VAL SEQRES 16 A 563 ILE PRO VAL LEU PHE LYS LYS GLY LYS GLN ILE ILE LYS SEQRES 17 A 563 ALA GLY ASP SER TYR LYS GLY ARG LEU ALA GLY PRO VAL SEQRES 18 A 563 SER TYR SER TYR GLY ASN TYR LYS VAL PHE VAL ASP ASP SEQRES 19 A 563 SER LYS ASN MET PRO SER LEU MET ASP GLY HIS LEU LYS SEQRES 20 A 563 PRO GLU LYS THR ASN LEU GLN LYS ASP LEU SER LYS LEU SEQRES 21 A 563 SER ILE ALA SER TYR ASN ILE GLU ASN PHE SER ALA ASN SEQRES 22 A 563 PRO SER SER THR LYS ASP GLU LYS VAL LYS ARG ILE ALA SEQRES 23 A 563 GLU SER PHE ILE HIS ASP LEU ASN ALA PRO ASP ILE ILE SEQRES 24 A 563 GLY LEU ILE GLU VAL GLN ASP ASN ASN GLY PRO THR ASP SEQRES 25 A 563 ASP GLY THR THR ASP ALA THR GLN SER ALA GLN ARG LEU SEQRES 26 A 563 ILE ASP ALA ILE LYS LYS LEU GLY GLY PRO THR TYR ARG SEQRES 27 A 563 TYR VAL ASP ILE ALA PRO GLU ASN ASN VAL ASP GLY GLY SEQRES 28 A 563 GLN PRO GLY GLY ASN ILE ARG THR GLY PHE LEU TYR GLN SEQRES 29 A 563 PRO GLU ARG VAL SER LEU SER ASP LYS PRO LYS GLY GLY SEQRES 30 A 563 ALA ARG ASP ALA LEU THR TRP VAL ASN GLY GLU LEU ASN SEQRES 31 A 563 LEU SER VAL GLY ARG ILE ASP PRO THR ASN ALA ALA TRP SEQRES 32 A 563 LYS ASP VAL ARG LYS SER LEU ALA ALA GLU PHE ILE PHE SEQRES 33 A 563 GLN GLY ARG LYS VAL VAL VAL VAL ALA ASN HIS LEU ASN SEQRES 34 A 563 SER LYS ARG GLY ASP ASN ALA LEU TYR GLY CYS VAL GLN SEQRES 35 A 563 PRO VAL THR PHE LYS SER GLU GLN ARG ARG HIS VAL LEU SEQRES 36 A 563 ALA ASN MET LEU ALA GLN PHE ALA LYS GLU GLY ALA LYS SEQRES 37 A 563 HIS GLN ALA ASN ILE VAL MET LEU GLY ASP PHE ASN ASP SEQRES 38 A 563 PHE GLU PHE THR LYS THR ILE GLN LEU ILE GLU GLU GLY SEQRES 39 A 563 ASP MET VAL ASN LEU VAL SER ARG HIS ASP ILE SER ASP SEQRES 40 A 563 ARG TYR SER TYR PHE HIS GLN GLY ASN ASN GLN THR LEU SEQRES 41 A 563 ASP ASN ILE LEU VAL SER ARG HIS LEU LEU ASP HIS TYR SEQRES 42 A 563 GLU PHE ASP MET VAL HIS VAL ASN SER PRO PHE MET GLU SEQRES 43 A 563 ALA HIS GLY ARG ALA SER ASP HIS ASP PRO LEU LEU LEU SEQRES 44 A 563 GLN LEU SER PHE SEQRES 1 B 563 VAL LYS ILE GLY GLU ILE GLN GLY ALA SER HIS THR SER SEQRES 2 B 563 PRO LEU LEU LYS LYS ALA VAL THR VAL GLU GLN VAL VAL SEQRES 3 B 563 VAL THR TYR LEU ASP ASP SER THR HIS PHE TYR VAL GLN SEQRES 4 B 563 ASP LEU ASN GLY ASP GLY ASP LEU ALA THR SER ASP GLY SEQRES 5 B 563 ILE ARG VAL PHE ALA LYS ASN ALA LYS VAL GLN VAL GLY SEQRES 6 B 563 ASP VAL LEU THR ILE SER GLY GLU VAL GLU GLU PHE PHE SEQRES 7 B 563 GLY ARG GLY TYR GLU GLU ARG LYS GLN THR ASP LEU THR SEQRES 8 B 563 ILE THR GLN ILE VAL ALA LYS ALA VAL THR LYS THR GLY SEQRES 9 B 563 THR ALA GLN VAL PRO SER PRO LEU VAL LEU GLY LYS ASP SEQRES 10 B 563 ARG ILE ALA PRO ALA ASN ILE ILE ASP ASN ASP GLY LEU SEQRES 11 B 563 ARG VAL PHE ASP PRO GLU GLU ASP ALA ILE ASP TYR TRP SEQRES 12 B 563 GLU SER MET GLU GLY MET LEU VAL ALA VAL ASP ASP ALA SEQRES 13 B 563 LYS ILE LEU GLY PRO MET LYS ASN LYS GLU ILE TYR VAL SEQRES 14 B 563 LEU PRO GLY SER SER THR ARG PRO LEU ASN ASN SER GLY SEQRES 15 B 563 GLY VAL LEU LEU PRO ALA ASN SER TYR ASN THR ASP VAL SEQRES 16 B 563 ILE PRO VAL LEU PHE LYS LYS GLY LYS GLN ILE ILE LYS SEQRES 17 B 563 ALA GLY ASP SER TYR LYS GLY ARG LEU ALA GLY PRO VAL SEQRES 18 B 563 SER TYR SER TYR GLY ASN TYR LYS VAL PHE VAL ASP ASP SEQRES 19 B 563 SER LYS ASN MET PRO SER LEU MET ASP GLY HIS LEU LYS SEQRES 20 B 563 PRO GLU LYS THR ASN LEU GLN LYS ASP LEU SER LYS LEU SEQRES 21 B 563 SER ILE ALA SER TYR ASN ILE GLU ASN PHE SER ALA ASN SEQRES 22 B 563 PRO SER SER THR LYS ASP GLU LYS VAL LYS ARG ILE ALA SEQRES 23 B 563 GLU SER PHE ILE HIS ASP LEU ASN ALA PRO ASP ILE ILE SEQRES 24 B 563 GLY LEU ILE GLU VAL GLN ASP ASN ASN GLY PRO THR ASP SEQRES 25 B 563 ASP GLY THR THR ASP ALA THR GLN SER ALA GLN ARG LEU SEQRES 26 B 563 ILE ASP ALA ILE LYS LYS LEU GLY GLY PRO THR TYR ARG SEQRES 27 B 563 TYR VAL ASP ILE ALA PRO GLU ASN ASN VAL ASP GLY GLY SEQRES 28 B 563 GLN PRO GLY GLY ASN ILE ARG THR GLY PHE LEU TYR GLN SEQRES 29 B 563 PRO GLU ARG VAL SER LEU SER ASP LYS PRO LYS GLY GLY SEQRES 30 B 563 ALA ARG ASP ALA LEU THR TRP VAL ASN GLY GLU LEU ASN SEQRES 31 B 563 LEU SER VAL GLY ARG ILE ASP PRO THR ASN ALA ALA TRP SEQRES 32 B 563 LYS ASP VAL ARG LYS SER LEU ALA ALA GLU PHE ILE PHE SEQRES 33 B 563 GLN GLY ARG LYS VAL VAL VAL VAL ALA ASN HIS LEU ASN SEQRES 34 B 563 SER LYS ARG GLY ASP ASN ALA LEU TYR GLY CYS VAL GLN SEQRES 35 B 563 PRO VAL THR PHE LYS SER GLU GLN ARG ARG HIS VAL LEU SEQRES 36 B 563 ALA ASN MET LEU ALA GLN PHE ALA LYS GLU GLY ALA LYS SEQRES 37 B 563 HIS GLN ALA ASN ILE VAL MET LEU GLY ASP PHE ASN ASP SEQRES 38 B 563 PHE GLU PHE THR LYS THR ILE GLN LEU ILE GLU GLU GLY SEQRES 39 B 563 ASP MET VAL ASN LEU VAL SER ARG HIS ASP ILE SER ASP SEQRES 40 B 563 ARG TYR SER TYR PHE HIS GLN GLY ASN ASN GLN THR LEU SEQRES 41 B 563 ASP ASN ILE LEU VAL SER ARG HIS LEU LEU ASP HIS TYR SEQRES 42 B 563 GLU PHE ASP MET VAL HIS VAL ASN SER PRO PHE MET GLU SEQRES 43 B 563 ALA HIS GLY ARG ALA SER ASP HIS ASP PRO LEU LEU LEU SEQRES 44 B 563 GLN LEU SER PHE HELIX 1 AA1 LYS A 291 GLY A 297 1 7 HELIX 2 AA2 GLU A 373 ASP A 378 1 6 HELIX 3 AA3 ASP A 427 SER A 434 1 8 HELIX 4 AA4 LYS A 567 HIS A 580 1 14 HELIX 5 AA5 ALA A 607 LEU A 621 1 15 HELIX 6 AA6 ASN A 689 LYS A 693 5 5 HELIX 7 AA7 LYS A 736 LYS A 753 1 18 HELIX 8 AA8 THR A 774 GLU A 782 1 9 HELIX 9 AA9 ASP A 793 ARG A 797 5 5 HELIX 10 AB1 HIS A 817 LEU A 819 5 3 HELIX 11 AB2 MET A 834 GLY A 838 5 5 HELIX 12 AB3 LYS B 291 GLN B 296 1 6 HELIX 13 AB4 GLU B 373 ASP B 378 1 6 HELIX 14 AB5 ASP B 427 SER B 434 1 8 HELIX 15 AB6 LYS B 567 HIS B 580 1 14 HELIX 16 AB7 ALA B 607 LEU B 621 1 15 HELIX 17 AB8 SER B 737 LYS B 757 1 21 HELIX 18 AB9 THR B 774 GLU B 781 1 8 HELIX 19 AC1 HIS B 817 ASP B 820 5 4 SHEET 1 AA1 5 VAL A 315 TYR A 318 0 SHEET 2 AA1 5 HIS A 324 GLN A 328 -1 O TYR A 326 N THR A 317 SHEET 3 AA1 5 GLY A 341 PHE A 345 -1 O VAL A 344 N PHE A 325 SHEET 4 AA1 5 ILE A 381 VAL A 385 1 O ILE A 384 N PHE A 345 SHEET 5 AA1 5 VAL A 363 PHE A 366 -1 N GLU A 364 O GLN A 383 SHEET 1 AA2 3 LEU A 401 VAL A 402 0 SHEET 2 AA2 3 VAL A 440 ILE A 447 1 O ALA A 441 N LEU A 401 SHEET 3 AA2 3 SER A 501 GLY A 508 -1 O GLY A 508 N VAL A 440 SHEET 1 AA3 6 LEU A 401 VAL A 402 0 SHEET 2 AA3 6 VAL A 440 ILE A 447 1 O ALA A 441 N LEU A 401 SHEET 3 AA3 6 GLU A 455 LEU A 459 -1 O LEU A 459 N LYS A 446 SHEET 4 AA3 6 ILE A 485 PHE A 489 -1 O ILE A 485 N VAL A 458 SHEET 5 AA3 6 ASN A 516 VAL A 521 1 O VAL A 519 N PRO A 486 SHEET 6 AA3 6 VAL A 510 SER A 513 -1 N SER A 511 O LYS A 518 SHEET 1 AA4 6 ARG A 627 VAL A 629 0 SHEET 2 AA4 6 ARG A 647 TYR A 652 -1 O TYR A 652 N ARG A 627 SHEET 3 AA4 6 ILE A 587 VAL A 593 -1 N VAL A 593 O ARG A 647 SHEET 4 AA4 6 LYS A 548 PHE A 559 1 N PHE A 559 O GLU A 592 SHEET 5 AA4 6 LEU A 846 SER A 851 -1 O LEU A 850 N LEU A 549 SHEET 6 AA4 6 GLU A 823 MET A 826 -1 N ASP A 825 O LEU A 847 SHEET 1 AA5 3 SER A 658 LEU A 659 0 SHEET 2 AA5 3 ARG A 696 PHE A 705 -1 O ILE A 704 N SER A 658 SHEET 3 AA5 3 VAL A 682 ARG A 684 -1 N GLY A 683 O ALA A 700 SHEET 1 AA6 6 SER A 658 LEU A 659 0 SHEET 2 AA6 6 ARG A 696 PHE A 705 -1 O ILE A 704 N SER A 658 SHEET 3 AA6 6 ARG A 708 HIS A 716 -1 O ARG A 708 N PHE A 705 SHEET 4 AA6 6 ASN A 761 ASP A 767 1 O VAL A 763 N VAL A 713 SHEET 5 AA6 6 ASP A 810 SER A 815 -1 O LEU A 813 N MET A 764 SHEET 6 AA6 6 MET A 785 ASN A 787 -1 N VAL A 786 O VAL A 814 SHEET 1 AA7 2 TYR A 800 HIS A 802 0 SHEET 2 AA7 2 ASN A 805 GLN A 807 -1 O ASN A 805 N HIS A 802 SHEET 1 AA8 6 VAL B 356 LEU B 357 0 SHEET 2 AA8 6 VAL B 314 TYR B 318 -1 N VAL B 314 O LEU B 357 SHEET 3 AA8 6 HIS B 324 ASP B 329 -1 O GLN B 328 N VAL B 315 SHEET 4 AA8 6 GLY B 341 PHE B 345 -1 O VAL B 344 N PHE B 325 SHEET 5 AA8 6 ILE B 381 ILE B 384 1 O ILE B 384 N ARG B 343 SHEET 6 AA8 6 GLU B 364 PHE B 366 -1 N GLU B 364 O GLN B 383 SHEET 1 AA9 7 LEU B 401 VAL B 402 0 SHEET 2 AA9 7 LEU B 439 ASP B 443 1 O ALA B 441 N LEU B 401 SHEET 3 AA9 7 ARG B 505 SER B 513 -1 O GLY B 508 N VAL B 440 SHEET 4 AA9 7 ASN B 516 VAL B 521 -1 O ASN B 516 N SER B 513 SHEET 5 AA9 7 ILE B 485 PHE B 489 1 N LEU B 488 O VAL B 521 SHEET 6 AA9 7 GLU B 455 LEU B 459 -1 N ILE B 456 O VAL B 487 SHEET 7 AA9 7 LYS B 446 ILE B 447 -1 N LYS B 446 O LEU B 459 SHEET 1 AB1 3 VAL B 473 LEU B 474 0 SHEET 2 AB1 3 ASN B 805 GLN B 807 1 O ASN B 806 N VAL B 473 SHEET 3 AB1 3 TYR B 800 PHE B 801 -1 N TYR B 800 O GLN B 807 SHEET 1 AB2 2 SER B 501 LYS B 503 0 SHEET 2 AB2 2 SER B 529 MET B 531 -1 O MET B 531 N SER B 501 SHEET 1 AB3 6 ARG B 627 VAL B 629 0 SHEET 2 AB3 6 ARG B 647 TYR B 652 -1 O PHE B 650 N VAL B 629 SHEET 3 AB3 6 ILE B 587 VAL B 593 -1 N VAL B 593 O ARG B 647 SHEET 4 AB3 6 LEU B 549 PHE B 559 1 N ALA B 552 O ILE B 587 SHEET 5 AB3 6 LEU B 846 LEU B 850 -1 O LEU B 848 N ILE B 551 SHEET 6 AB3 6 TYR B 822 MET B 826 -1 N ASP B 825 O LEU B 847 SHEET 1 AB4 3 SER B 658 LEU B 659 0 SHEET 2 AB4 3 LEU B 699 PHE B 705 -1 O ILE B 704 N SER B 658 SHEET 3 AB4 3 VAL B 682 ARG B 684 -1 N GLY B 683 O ALA B 700 SHEET 1 AB5 6 SER B 658 LEU B 659 0 SHEET 2 AB5 6 LEU B 699 PHE B 705 -1 O ILE B 704 N SER B 658 SHEET 3 AB5 6 ARG B 708 HIS B 716 -1 O VAL B 710 N PHE B 703 SHEET 4 AB5 6 ASN B 761 ASP B 767 1 O VAL B 763 N VAL B 711 SHEET 5 AB5 6 LEU B 813 SER B 815 -1 O LEU B 813 N MET B 764 SHEET 6 AB5 6 MET B 785 ASN B 787 -1 N VAL B 786 O VAL B 814 SHEET 1 AB6 2 TRP B 673 VAL B 674 0 SHEET 2 AB6 2 GLU B 677 LEU B 678 -1 N GLU B 677 O VAL B 674 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MASTER 499 0 0 19 66 0 0 6 7555 2 0 88 END