HEADER HYDROLASE 11-MAR-25 9QF9 TITLE STRUCTURE OF THE GH13 DOMAIN OF RUMINOCOCCUS BROMII AMY16 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUMINOCOCCUS BROMII AMY16; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.1; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: REMOVAL OF SIGNALLING PEPTIDE FOR SECRETION, ADDITION COMPND 7 OF N-TERMINAL 6X HIS-TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINOCOCCUS BROMII L2-63; SOURCE 3 ORGANISM_TAXID: 657321; SOURCE 4 GENE: SPE92332.1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 STAR KEYWDS GH13, RUMINOCOCCUS BROMII, AMY16, HYDROLASE EXPDTA ELECTRON MICROSCOPY AUTHOR B.H.WIMMER,O.MEDALIA REVDAT 2 10-DEC-25 9QF9 1 JRNL REVDAT 1 22-OCT-25 9QF9 0 JRNL AUTH B.H.WIMMER,S.MORAIS,I.AMIT,O.TOVAR-HERRERA,M.TATLI, JRNL AUTH 2 A.TRAUTWEIN-SCHULT,B.PFISTER,R.ZALK,P.TODTLI,S.SIMONI, JRNL AUTH 3 M.LISIBACH,L.LEVIN,D.BECHER,E.A.BAYER,O.MEDALIA,I.MIZRAHI JRNL TITL SPATIAL CONSTRAINTS DRIVE AMYLOSOME-MEDIATED RESISTANT JRNL TITL 2 STARCH DEGRADATION BY RUMINOCOCCUS BROMII IN THE HUMAN JRNL TITL 3 COLON. JRNL REF NAT COMMUN V. 16 10763 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 41298524 JRNL DOI 10.1038/S41467-025-65800-1 REMARK 2 REMARK 2 RESOLUTION. 4.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, EPU, CRYOSPARC, ISOLDE, REMARK 3 PHENIX, CRYOSPARC, 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 : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT 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) : 4.600 REMARK 3 NUMBER OF PARTICLES : 354079 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 9QF9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAR-25. REMARK 100 THE DEPOSITION ID IS D_1292146257. 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 : RUMINOCOCCUS BROMII AMY16 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.10 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 : 29000 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2400.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6500.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 130000 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: 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 MET A 26 REMARK 465 ALA A 27 REMARK 465 HIS A 28 REMARK 465 HIS A 29 REMARK 465 HIS A 30 REMARK 465 HIS A 31 REMARK 465 HIS A 32 REMARK 465 HIS A 33 REMARK 465 ALA A 34 REMARK 465 GLU A 35 REMARK 465 SER A 36 REMARK 465 SER A 37 REMARK 465 PRO A 38 REMARK 465 THR A 39 REMARK 465 VAL A 40 REMARK 465 SER A 41 REMARK 465 ALA A 42 REMARK 465 GLU A 460 REMARK 465 PRO A 461 REMARK 465 GLU A 462 REMARK 465 GLY A 463 REMARK 465 PRO A 464 REMARK 465 SER A 465 REMARK 465 ALA A 466 REMARK 465 SER A 467 REMARK 465 VAL A 468 REMARK 465 THR A 469 REMARK 465 PRO A 470 REMARK 465 GLY A 471 REMARK 465 SER A 472 REMARK 465 THR A 473 REMARK 465 ASN A 474 REMARK 465 TYR A 475 REMARK 465 ASN A 476 REMARK 465 THR A 477 REMARK 465 ASP A 478 REMARK 465 GLU A 479 REMARK 465 LEU A 480 REMARK 465 THR A 481 REMARK 465 LEU A 482 REMARK 465 THR A 483 REMARK 465 LEU A 484 REMARK 465 ASN A 485 REMARK 465 CYS A 486 REMARK 465 LYS A 487 REMARK 465 TYR A 488 REMARK 465 ALA A 489 REMARK 465 LYS A 490 REMARK 465 ASN A 491 REMARK 465 ALA A 492 REMARK 465 GLN A 493 REMARK 465 TYR A 494 REMARK 465 SER A 495 REMARK 465 ILE A 496 REMARK 465 ASP A 497 REMARK 465 ASP A 498 REMARK 465 GLY A 499 REMARK 465 ALA A 500 REMARK 465 PHE A 501 REMARK 465 VAL A 502 REMARK 465 ASN A 503 REMARK 465 TYR A 504 REMARK 465 THR A 505 REMARK 465 ASN A 506 REMARK 465 GLY A 507 REMARK 465 GLN A 508 REMARK 465 LYS A 509 REMARK 465 ILE A 510 REMARK 465 THR A 511 REMARK 465 ILE A 512 REMARK 465 GLY A 513 REMARK 465 THR A 514 REMARK 465 ASN A 515 REMARK 465 LEU A 516 REMARK 465 ASP A 517 REMARK 465 TYR A 518 REMARK 465 ASP A 519 REMARK 465 THR A 520 REMARK 465 VAL A 521 REMARK 465 THR A 522 REMARK 465 THR A 523 REMARK 465 VAL A 524 REMARK 465 THR A 525 REMARK 465 VAL A 526 REMARK 465 LYS A 527 REMARK 465 ALA A 528 REMARK 465 SER A 529 REMARK 465 ASP A 530 REMARK 465 GLY A 531 REMARK 465 LYS A 532 REMARK 465 THR A 533 REMARK 465 THR A 534 REMARK 465 SER A 535 REMARK 465 ASP A 536 REMARK 465 PRO A 537 REMARK 465 GLU A 538 REMARK 465 THR A 539 REMARK 465 TYR A 540 REMARK 465 THR A 541 REMARK 465 TYR A 542 REMARK 465 THR A 543 REMARK 465 LYS A 544 REMARK 465 VAL A 545 REMARK 465 ASP A 546 REMARK 465 PRO A 547 REMARK 465 ASN A 548 REMARK 465 ALA A 549 REMARK 465 VAL A 550 REMARK 465 LYS A 551 REMARK 465 VAL A 552 REMARK 465 VAL A 553 REMARK 465 ALA A 554 REMARK 465 TYR A 555 REMARK 465 ASP A 556 REMARK 465 ASN A 557 REMARK 465 SER A 558 REMARK 465 SER A 559 REMARK 465 THR A 560 REMARK 465 LYS A 561 REMARK 465 TRP A 562 REMARK 465 SER A 563 REMARK 465 LYS A 564 REMARK 465 VAL A 565 REMARK 465 ASN A 566 REMARK 465 ALA A 567 REMARK 465 TYR A 568 REMARK 465 PHE A 569 REMARK 465 TRP A 570 REMARK 465 SER A 571 REMARK 465 ASP A 572 REMARK 465 ASP A 573 REMARK 465 ASN A 574 REMARK 465 LYS A 575 REMARK 465 GLU A 576 REMARK 465 MET A 577 REMARK 465 THR A 578 REMARK 465 SER A 579 REMARK 465 TRP A 580 REMARK 465 PRO A 581 REMARK 465 GLY A 582 REMARK 465 LYS A 583 REMARK 465 LYS A 584 REMARK 465 MET A 585 REMARK 465 THR A 586 REMARK 465 ASP A 587 REMARK 465 LYS A 588 REMARK 465 GLY A 589 REMARK 465 ASN A 590 REMARK 465 ASN A 591 REMARK 465 ILE A 592 REMARK 465 PHE A 593 REMARK 465 ASP A 594 REMARK 465 ILE A 595 REMARK 465 GLU A 596 REMARK 465 VAL A 597 REMARK 465 PRO A 598 REMARK 465 ASP A 599 REMARK 465 GLY A 600 REMARK 465 ALA A 601 REMARK 465 LYS A 602 REMARK 465 TYR A 603 REMARK 465 VAL A 604 REMARK 465 ILE A 605 REMARK 465 PHE A 606 REMARK 465 ASN A 607 REMARK 465 ASN A 608 REMARK 465 GLY A 609 REMARK 465 ASP A 610 REMARK 465 SER A 611 REMARK 465 GLN A 612 REMARK 465 THR A 613 REMARK 465 ASP A 614 REMARK 465 ASP A 615 REMARK 465 LEU A 616 REMARK 465 ARG A 617 REMARK 465 ILE A 618 REMARK 465 ALA A 619 REMARK 465 ASP A 620 REMARK 465 GLY A 621 REMARK 465 ASN A 622 REMARK 465 LYS A 623 REMARK 465 ILE A 624 REMARK 465 TYR A 625 REMARK 465 SER A 626 REMARK 465 ASN A 627 REMARK 465 GLY A 628 REMARK 465 SER A 629 REMARK 465 TRP A 630 REMARK 465 GLN A 631 REMARK 465 ASN A 632 REMARK 465 TYR A 633 REMARK 465 SER A 634 REMARK 465 THR A 635 REMARK 465 VAL A 636 REMARK 465 LYS A 637 REMARK 465 PRO A 638 REMARK 465 THR A 639 REMARK 465 GLN A 640 REMARK 465 PRO A 641 REMARK 465 THR A 642 REMARK 465 THR A 643 REMARK 465 ALA A 644 REMARK 465 PRO A 645 REMARK 465 SER A 646 REMARK 465 THR A 647 REMARK 465 THR A 648 REMARK 465 VAL A 649 REMARK 465 ARG A 650 REMARK 465 PRO A 651 REMARK 465 THR A 652 REMARK 465 THR A 653 REMARK 465 ILE A 654 REMARK 465 ALA A 655 REMARK 465 THR A 656 REMARK 465 GLN A 657 REMARK 465 PRO A 658 REMARK 465 THR A 659 REMARK 465 THR A 660 REMARK 465 SER A 661 REMARK 465 GLN A 662 REMARK 465 PRO A 663 REMARK 465 THR A 664 REMARK 465 THR A 665 REMARK 465 THR A 666 REMARK 465 GLN A 667 REMARK 465 PRO A 668 REMARK 465 THR A 669 REMARK 465 THR A 670 REMARK 465 THR A 671 REMARK 465 GLN A 672 REMARK 465 PRO A 673 REMARK 465 ALA A 674 REMARK 465 THR A 675 REMARK 465 THR A 676 REMARK 465 GLN A 677 REMARK 465 PRO A 678 REMARK 465 ALA A 679 REMARK 465 THR A 680 REMARK 465 THR A 681 REMARK 465 GLN A 682 REMARK 465 PRO A 683 REMARK 465 SER A 684 REMARK 465 THR A 685 REMARK 465 THR A 686 REMARK 465 GLN A 687 REMARK 465 PRO A 688 REMARK 465 VAL A 689 REMARK 465 THR A 690 REMARK 465 GLU A 691 REMARK 465 PRO A 692 REMARK 465 SER A 693 REMARK 465 ASN A 694 REMARK 465 ARG A 695 REMARK 465 ILE A 696 REMARK 465 LEU A 697 REMARK 465 ILE A 698 REMARK 465 GLY A 699 REMARK 465 ASP A 700 REMARK 465 VAL A 701 REMARK 465 ASP A 702 REMARK 465 LEU A 703 REMARK 465 ASN A 704 REMARK 465 GLY A 705 REMARK 465 THR A 706 REMARK 465 ILE A 707 REMARK 465 THR A 708 REMARK 465 VAL A 709 REMARK 465 CYS A 710 REMARK 465 ASP A 711 REMARK 465 SER A 712 REMARK 465 THR A 713 REMARK 465 GLU A 714 REMARK 465 VAL A 715 REMARK 465 GLN A 716 REMARK 465 ARG A 717 REMARK 465 TYR A 718 REMARK 465 ILE A 719 REMARK 465 ALA A 720 REMARK 465 CYS A 721 REMARK 465 ILE A 722 REMARK 465 SER A 723 REMARK 465 THR A 724 REMARK 465 LEU A 725 REMARK 465 SER A 726 REMARK 465 ASP A 727 REMARK 465 GLU A 728 REMARK 465 ALA A 729 REMARK 465 LEU A 730 REMARK 465 ILE A 731 REMARK 465 ALA A 732 REMARK 465 ALA A 733 REMARK 465 ASP A 734 REMARK 465 VAL A 735 REMARK 465 ASN A 736 REMARK 465 LYS A 737 REMARK 465 ASP A 738 REMARK 465 SER A 739 REMARK 465 VAL A 740 REMARK 465 ILE A 741 REMARK 465 SER A 742 REMARK 465 VAL A 743 REMARK 465 LYS A 744 REMARK 465 ASP A 745 REMARK 465 ALA A 746 REMARK 465 THR A 747 REMARK 465 MET A 748 REMARK 465 ILE A 749 REMARK 465 GLN A 750 REMARK 465 ALA A 751 REMARK 465 TYR A 752 REMARK 465 ILE A 753 REMARK 465 VAL A 754 REMARK 465 LYS A 755 REMARK 465 LEU A 756 REMARK 465 ILE A 757 REMARK 465 VAL A 758 REMARK 465 GLU A 759 REMARK 465 ASP A 760 REMARK 465 SER A 761 REMARK 465 TYR A 762 REMARK 465 CYS A 763 REMARK 465 GLY A 764 REMARK 465 THR A 765 REMARK 465 TYR A 766 REMARK 465 THR A 767 REMARK 465 GLU A 768 REMARK 465 ASN A 769 REMARK 465 VAL A 770 REMARK 465 ALA A 771 REMARK 465 PRO A 772 REMARK 465 THR A 773 REMARK 465 GLN A 774 REMARK 465 PRO A 775 REMARK 465 THR A 776 REMARK 465 THR A 777 REMARK 465 ASN A 778 REMARK 465 VAL A 779 REMARK 465 THR A 780 REMARK 465 GLU A 781 REMARK 465 PRO A 782 REMARK 465 THR A 783 REMARK 465 THR A 784 REMARK 465 GLU A 785 REMARK 465 PRO A 786 REMARK 465 THR A 787 REMARK 465 SER A 788 REMARK 465 ILE A 789 REMARK 465 GLN A 790 REMARK 465 THR A 791 REMARK 465 LYS A 792 REMARK 465 ASN A 793 REMARK 465 TYR A 794 REMARK 465 VAL A 795 REMARK 465 TYR A 796 REMARK 465 PHE A 797 REMARK 465 ASN A 798 REMARK 465 ASN A 799 REMARK 465 THR A 800 REMARK 465 GLU A 801 REMARK 465 ASN A 802 REMARK 465 TRP A 803 REMARK 465 SER A 804 REMARK 465 THR A 805 REMARK 465 VAL A 806 REMARK 465 ASN A 807 REMARK 465 VAL A 808 REMARK 465 TYR A 809 REMARK 465 VAL A 810 REMARK 465 TRP A 811 REMARK 465 SER A 812 REMARK 465 SER A 813 REMARK 465 LYS A 814 REMARK 465 ASP A 815 REMARK 465 SER A 816 REMARK 465 THR A 817 REMARK 465 TYR A 818 REMARK 465 MET A 819 REMARK 465 SER A 820 REMARK 465 TRP A 821 REMARK 465 PRO A 822 REMARK 465 GLY A 823 REMARK 465 MET A 824 REMARK 465 ALA A 825 REMARK 465 MET A 826 REMARK 465 GLU A 827 REMARK 465 SER A 828 REMARK 465 ILE A 829 REMARK 465 GLY A 830 REMARK 465 ASN A 831 REMARK 465 ASN A 832 REMARK 465 THR A 833 REMARK 465 TYR A 834 REMARK 465 ARG A 835 REMARK 465 PHE A 836 REMARK 465 GLU A 837 REMARK 465 LEU A 838 REMARK 465 PRO A 839 REMARK 465 ASN A 840 REMARK 465 GLY A 841 REMARK 465 ALA A 842 REMARK 465 ASP A 843 REMARK 465 TYR A 844 REMARK 465 ALA A 845 REMARK 465 ILE A 846 REMARK 465 PHE A 847 REMARK 465 ASN A 848 REMARK 465 ASN A 849 REMARK 465 GLY A 850 REMARK 465 SER A 851 REMARK 465 THR A 852 REMARK 465 GLN A 853 REMARK 465 THR A 854 REMARK 465 GLY A 855 REMARK 465 ASP A 856 REMARK 465 LEU A 857 REMARK 465 LYS A 858 REMARK 465 ILE A 859 REMARK 465 PRO A 860 REMARK 465 ASP A 861 REMARK 465 VAL A 862 REMARK 465 ASN A 863 REMARK 465 MET A 864 REMARK 465 ILE A 865 REMARK 465 TYR A 866 REMARK 465 SER A 867 REMARK 465 ASN A 868 REMARK 465 GLY A 869 REMARK 465 GLN A 870 REMARK 465 TRP A 871 REMARK 465 SER A 872 REMARK 465 LYS A 873 REMARK 465 TYR A 874 REMARK 465 SER A 875 REMARK 465 LYS A 876 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 OD2 ASP A 430 HG SER A 433 1.58 REMARK 500 HG SER A 295 OD1 ASP A 297 1.58 REMARK 500 HG SER A 286 OE2 GLU A 291 1.58 REMARK 500 HG SER A 285 OE1 GLU A 291 1.60 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 ARG A 209 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 346 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 398 NE - CZ - NH2 ANGL. DEV. = 3.6 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 ILE A 51 -43.68 -133.81 REMARK 500 PHE A 60 106.97 -53.98 REMARK 500 PHE A 104 63.58 -102.73 REMARK 500 PRO A 180 175.37 -58.92 REMARK 500 ASN A 311 -127.16 -90.67 REMARK 500 GLN A 323 -75.41 -41.05 REMARK 500 ASN A 324 26.72 -75.77 REMARK 500 LYS A 338 -11.23 56.68 REMARK 500 PRO A 347 163.53 -49.77 REMARK 500 ASP A 381 124.42 -39.43 REMARK 500 SER A 415 45.12 -141.44 REMARK 500 ASP A 458 62.47 -69.96 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 TYR A 237 0.10 SIDE CHAIN REMARK 500 ARG A 346 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-53102 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE GH13 DOMAIN OF RUMINOCOCCUS BROMII AMY16 DBREF 9QF9 A 26 876 PDB 9QF9 9QF9 26 876 SEQRES 1 A 851 MET ALA HIS HIS HIS HIS HIS HIS ALA GLU SER SER PRO SEQRES 2 A 851 THR VAL SER ALA ASN LYS TYR LYS LEU LYS ASP ASN ILE SEQRES 3 A 851 GLN ASP GLY VAL ILE LEU HIS CYS PHE ASP TRP THR TYR SEQRES 4 A 851 ASN ASP ILE LYS ALA GLU LEU PRO LYS ILE ALA LYS ALA SEQRES 5 A 851 GLY PHE THR SER ILE GLN THR SER PRO ALA GLN PRO ASN SEQRES 6 A 851 GLY THR GLY THR TRP TYR TRP LEU TYR GLN PRO ILE SER SEQRES 7 A 851 PHE SER ILE GLY THR ASN GLY VAL GLY THR LYS ALA GLU SEQRES 8 A 851 LEU GLN SER LEU CYS ASP GLU ALA ASP LYS TYR GLY ILE SEQRES 9 A 851 LYS ILE ILE VAL ASP VAL VAL ALA ASN HIS LEU ARG GLY SEQRES 10 A 851 ASP HIS ASN ASN ILE ASP ASN ASP LEU LYS PRO SER GLU SEQRES 11 A 851 TYR TRP HIS THR PHE GLY GLY GLY ILE ASP TRP LYS ASN SEQRES 12 A 851 ARG TRP GLN VAL THR HIS GLY SER ILE GLY MET PRO ASP SEQRES 13 A 851 ILE ALA THR GLU ASN PRO TYR VAL GLN GLN LYS VAL CYS SEQRES 14 A 851 ASN TYR VAL GLN GLU LEU LYS SER VAL GLY VAL ASP GLY SEQRES 15 A 851 LEU ARG TRP ASP ALA ALA LYS HIS ILE GLY VAL PRO SER SEQRES 16 A 851 GLU GLY ASP ASP PHE TRP LYS SER VAL THR GLN TYR GLY SEQRES 17 A 851 LEU TYR ASN TYR GLY GLU ILE LEU GLY GLY PRO ASP ASP SEQRES 18 A 851 ARG SER THR GLY ASN GLU ASP ILE MET LYS GLU TYR THR SEQRES 19 A 851 ASP TYR ILE SER VAL THR ASP SER ASN TYR GLY LYS GLU SEQRES 20 A 851 LEU ARG ASP SER PHE ASN SER GLY LYS ALA PRO THR SER SEQRES 21 A 851 SER GLY ASN TRP SER GLU LYS GLY ILE SER ASN ASP LYS SEQRES 22 A 851 LEU LEU TYR TRP GLY GLU SER HIS ASP THR TRP SER ASN SEQRES 23 A 851 ASN LYS ASP TRP GLY PHE SER ASN GLU MET SER GLN ASN SEQRES 24 A 851 VAL ILE ASP ARG ALA TYR ALA VAL ALA ALA SER ARG ASN SEQRES 25 A 851 LYS VAL THR ALA LEU TYR PHE SER ARG PRO SER SER THR SEQRES 26 A 851 ASN LYS GLU SER ILE LYS MET GLY GLU LYS GLY SER THR SEQRES 27 A 851 HIS PHE THR SER SER GLU VAL ALA GLN ILE ASN LYS PHE SEQRES 28 A 851 HIS ASN ALA MET ASP GLY LYS ALA ASP TYR TYR THR VAL SEQRES 29 A 851 SER ASP GLY CYS SER VAL ILE THR ARG LYS ASP GLY GLY SEQRES 30 A 851 ALA VAL ILE VAL LYS GLY SER GLY SER GLY GLU VAL SER SEQRES 31 A 851 VAL GLU ASN GLY GLY GLY TYR ALA LYS PRO GLY THR TYR SEQRES 32 A 851 THR ASP ALA VAL SER GLY ASN THR PHE THR ILE THR SER SEQRES 33 A 851 SER THR ILE SER GLY THR ILE GLY SER SER GLY ILE ALA SEQRES 34 A 851 VAL VAL TYR ASP ALA GLU PRO GLU GLY PRO SER ALA SER SEQRES 35 A 851 VAL THR PRO GLY SER THR ASN TYR ASN THR ASP GLU LEU SEQRES 36 A 851 THR LEU THR LEU ASN CYS LYS TYR ALA LYS ASN ALA GLN SEQRES 37 A 851 TYR SER ILE ASP ASP GLY ALA PHE VAL ASN TYR THR ASN SEQRES 38 A 851 GLY GLN LYS ILE THR ILE GLY THR ASN LEU ASP TYR ASP SEQRES 39 A 851 THR VAL THR THR VAL THR VAL LYS ALA SER ASP GLY LYS SEQRES 40 A 851 THR THR SER ASP PRO GLU THR TYR THR TYR THR LYS VAL SEQRES 41 A 851 ASP PRO ASN ALA VAL LYS VAL VAL ALA TYR ASP ASN SER SEQRES 42 A 851 SER THR LYS TRP SER LYS VAL ASN ALA TYR PHE TRP SER SEQRES 43 A 851 ASP ASP ASN LYS GLU MET THR SER TRP PRO GLY LYS LYS SEQRES 44 A 851 MET THR ASP LYS GLY ASN ASN ILE PHE ASP ILE GLU VAL SEQRES 45 A 851 PRO ASP GLY ALA LYS TYR VAL ILE PHE ASN ASN GLY ASP SEQRES 46 A 851 SER GLN THR ASP ASP LEU ARG ILE ALA ASP GLY ASN LYS SEQRES 47 A 851 ILE TYR SER ASN GLY SER TRP GLN ASN TYR SER THR VAL SEQRES 48 A 851 LYS PRO THR GLN PRO THR THR ALA PRO SER THR THR VAL SEQRES 49 A 851 ARG PRO THR THR ILE ALA THR GLN PRO THR THR SER GLN SEQRES 50 A 851 PRO THR THR THR GLN PRO THR THR THR GLN PRO ALA THR SEQRES 51 A 851 THR GLN PRO ALA THR THR GLN PRO SER THR THR GLN PRO SEQRES 52 A 851 VAL THR GLU PRO SER ASN ARG ILE LEU ILE GLY ASP VAL SEQRES 53 A 851 ASP LEU ASN GLY THR ILE THR VAL CYS ASP SER THR GLU SEQRES 54 A 851 VAL GLN ARG TYR ILE ALA CYS ILE SER THR LEU SER ASP SEQRES 55 A 851 GLU ALA LEU ILE ALA ALA ASP VAL ASN LYS ASP SER VAL SEQRES 56 A 851 ILE SER VAL LYS ASP ALA THR MET ILE GLN ALA TYR ILE SEQRES 57 A 851 VAL LYS LEU ILE VAL GLU ASP SER TYR CYS GLY THR TYR SEQRES 58 A 851 THR GLU ASN VAL ALA PRO THR GLN PRO THR THR ASN VAL SEQRES 59 A 851 THR GLU PRO THR THR GLU PRO THR SER ILE GLN THR LYS SEQRES 60 A 851 ASN TYR VAL TYR PHE ASN ASN THR GLU ASN TRP SER THR SEQRES 61 A 851 VAL ASN VAL TYR VAL TRP SER SER LYS ASP SER THR TYR SEQRES 62 A 851 MET SER TRP PRO GLY MET ALA MET GLU SER ILE GLY ASN SEQRES 63 A 851 ASN THR TYR ARG PHE GLU LEU PRO ASN GLY ALA ASP TYR SEQRES 64 A 851 ALA ILE PHE ASN ASN GLY SER THR GLN THR GLY ASP LEU SEQRES 65 A 851 LYS ILE PRO ASP VAL ASN MET ILE TYR SER ASN GLY GLN SEQRES 66 A 851 TRP SER LYS TYR SER LYS HELIX 1 AA1 THR A 63 ALA A 77 1 15 HELIX 2 AA2 THR A 94 LEU A 98 5 5 HELIX 3 AA3 THR A 113 TYR A 127 1 15 HELIX 4 AA4 ASP A 143 ILE A 147 5 5 HELIX 5 AA5 PRO A 153 TRP A 157 5 5 HELIX 6 AA6 ASN A 168 GLY A 175 1 8 HELIX 7 AA7 ASN A 186 VAL A 203 1 18 HELIX 8 AA8 VAL A 218 GLY A 222 5 5 HELIX 9 AA9 ASP A 224 GLN A 231 1 8 HELIX 10 AB1 GLY A 250 ASP A 260 1 11 HELIX 11 AB2 ASP A 266 SER A 279 1 14 HELIX 12 AB3 GLY A 287 LYS A 292 1 6 HELIX 13 AB4 SER A 295 LYS A 298 5 4 HELIX 14 AB5 SER A 305 ASN A 311 1 7 HELIX 15 AB6 ASN A 312 PHE A 317 1 6 HELIX 16 AB7 SER A 318 MET A 321 5 4 HELIX 17 AB8 SER A 322 ARG A 336 1 15 HELIX 18 AB9 THR A 363 THR A 366 5 4 HELIX 19 AC1 SER A 367 ASP A 381 1 15 HELIX 20 AC2 GLY A 419 TYR A 422 5 4 SHEET 1 AA1 8 SER A 263 VAL A 264 0 SHEET 2 AA1 8 TYR A 235 GLY A 238 1 N GLY A 238 O SER A 263 SHEET 3 AA1 8 GLY A 207 TRP A 210 1 N LEU A 208 O TYR A 235 SHEET 4 AA1 8 LYS A 130 VAL A 135 1 N VAL A 135 O ARG A 209 SHEET 5 AA1 8 SER A 81 THR A 84 1 N THR A 84 O ASP A 134 SHEET 6 AA1 8 VAL A 55 HIS A 58 1 N LEU A 57 O GLN A 83 SHEET 7 AA1 8 THR A 340 PHE A 344 1 O TYR A 343 N ILE A 56 SHEET 8 AA1 8 LEU A 300 TRP A 302 1 N TYR A 301 O THR A 340 SHEET 1 AA2 4 ASP A 385 SER A 390 0 SHEET 2 AA2 4 CYS A 393 ARG A 398 -1 O VAL A 395 N THR A 388 SHEET 3 AA2 4 ALA A 403 LYS A 407 -1 O VAL A 404 N ILE A 396 SHEET 4 AA2 4 ILE A 453 VAL A 456 -1 O ALA A 454 N ILE A 405 SHEET 1 AA3 4 GLU A 413 GLU A 417 0 SHEET 2 AA3 4 THR A 443 THR A 447 -1 O ILE A 444 N VAL A 416 SHEET 3 AA3 4 THR A 436 ILE A 439 -1 N THR A 438 O SER A 445 SHEET 4 AA3 4 GLY A 426 THR A 429 -1 N TYR A 428 O PHE A 437 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 TER 6263 ALA A 459 MASTER 621 0 0 20 16 0 0 6 3219 1 0 66 END