HEADER STRUCTURAL PROTEIN 10-FEB-26 10UY TITLE COHESIN DOMAIN NUMBER 4 FROM GENE LOCUS RCAL_2942 OF RUMINOCOCCUS TITLE 2 CALLIDUS, A TYPE 4 COHESIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: COHESIN DOMAIN NUMBER 4; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINOCOCCUS CALLIDUS; SOURCE 3 ORGANISM_TAXID: 40519; SOURCE 4 GENE: RCAL_2942; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET29B KEYWDS CELLULOSOME, COHESIN, EXTRACELLULAR, COHESIN TYPE 4, STRUCTURAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.TAKAYESU,M.R.SAWAYA,M.A.ARBING,R.T.CLUBB REVDAT 1 05-AUG-26 10UY 0 JRNL AUTH C.MINOR,A.TAKAYESU,M.A.ARBING,S.M.HA,R.P.GUNSALUS, JRNL AUTH 2 M.PELLEGRINI,M.R.SAWAYA,R.T.CLUBB JRNL TITL ALPHAFOLD-DRIVEN STRUCTURAL PROTEOMICS REVEALS EXTENSIVE JRNL TITL 2 CELLULOSOME MACHINERY IN HUMAN RUMINOCOCCAL SYMBIONTS. JRNL REF MBIO 29526 2026 JRNL REFN ESSN 2150-7511 JRNL PMID 42489485 JRNL DOI 10.1128/MBIO.01295-26 REMARK 2 REMARK 2 RESOLUTION. 1.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.21.2_5419: ???) 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) : 1.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 3 NUMBER OF REFLECTIONS : 51933 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.163 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5194 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 30.6700 - 3.4200 0.99 1850 206 0.1429 0.1694 REMARK 3 2 3.4200 - 2.7100 1.00 1780 200 0.1195 0.1373 REMARK 3 3 2.7100 - 2.3700 1.00 1736 193 0.1269 0.1581 REMARK 3 4 2.3700 - 2.1500 1.00 1723 192 0.1178 0.1456 REMARK 3 5 2.1500 - 2.0000 1.00 1714 191 0.1155 0.1615 REMARK 3 6 2.0000 - 1.8800 0.98 1690 189 0.1217 0.1441 REMARK 3 7 1.8800 - 1.7900 0.99 1685 185 0.1261 0.1634 REMARK 3 8 1.7900 - 1.7100 1.00 1716 193 0.1259 0.1495 REMARK 3 9 1.7100 - 1.6400 0.99 1707 188 0.1275 0.1540 REMARK 3 10 1.6400 - 1.5900 0.99 1656 185 0.1224 0.1660 REMARK 3 11 1.5900 - 1.5400 0.99 1669 187 0.1206 0.1750 REMARK 3 12 1.5400 - 1.4900 0.99 1699 191 0.1197 0.1476 REMARK 3 13 1.4900 - 1.4500 0.99 1660 181 0.1311 0.1669 REMARK 3 14 1.4500 - 1.4200 0.97 1640 184 0.1406 0.1796 REMARK 3 15 1.4200 - 1.3900 0.97 1660 181 0.1436 0.1778 REMARK 3 16 1.3900 - 1.3600 0.98 1638 184 0.1401 0.1674 REMARK 3 17 1.3600 - 1.3300 0.99 1678 186 0.1400 0.2025 REMARK 3 18 1.3300 - 1.3000 0.97 1652 181 0.1407 0.1856 REMARK 3 19 1.3000 - 1.2800 0.99 1633 182 0.1452 0.1768 REMARK 3 20 1.2800 - 1.2600 0.97 1651 184 0.1476 0.1900 REMARK 3 21 1.2600 - 1.2400 0.98 1645 185 0.1478 0.1851 REMARK 3 22 1.2400 - 1.2200 0.97 1609 174 0.1445 0.1962 REMARK 3 23 1.2200 - 1.2000 0.95 1601 185 0.1570 0.1825 REMARK 3 24 1.2000 - 1.1800 0.90 1547 160 0.1648 0.1713 REMARK 3 25 1.1800 - 1.1700 0.82 1343 162 0.1669 0.2184 REMARK 3 26 1.1700 - 1.1500 0.74 1244 148 0.1873 0.2042 REMARK 3 27 1.1500 - 1.1400 0.68 1136 112 0.1901 0.2258 REMARK 3 28 1.1400 - 1.1300 0.64 1068 109 0.2015 0.2130 REMARK 3 29 1.1300 - 1.1100 0.54 912 89 0.2195 0.2484 REMARK 3 30 1.1100 - 1.1000 0.48 797 107 0.2519 0.3026 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.12 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 : 0.007 1317 REMARK 3 ANGLE : 0.957 1812 REMARK 3 CHIRALITY : 0.082 218 REMARK 3 PLANARITY : 0.007 233 REMARK 3 DIHEDRAL : 12.533 478 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 10UY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-26. REMARK 100 THE DEPOSITION ID IS D_1000304302. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-APR-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20250714 REMARK 200 DATA SCALING SOFTWARE : XSCALE 20250714 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 547047 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 54.845 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.5100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 52.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.320 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: THICK, SPEAR-SHAPED PLATE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE PH 4.6, 8% (W/V) REMARK 280 PEG 4000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 16.85000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.84500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.49500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.84500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.85000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 18.49500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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 481 REMARK 465 GLY A 482 REMARK 465 SER A 483 REMARK 465 ASP A 484 REMARK 465 LYS A 485 REMARK 465 ILE A 486 REMARK 465 HIS A 487 REMARK 465 HIS A 488 REMARK 465 HIS A 489 REMARK 465 HIS A 490 REMARK 465 HIS A 491 REMARK 465 HIS A 492 REMARK 465 GLU A 493 REMARK 465 ASN A 494 REMARK 465 LEU A 495 REMARK 465 ALA A 660 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 LEU A 629 CD1 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 ASP A 564 108.68 -173.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 909 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A 910 DISTANCE = 7.40 ANGSTROMS DBREF 10UY A 481 660 PDB 10UY 10UY 481 660 SEQRES 1 A 180 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS GLU SEQRES 2 A 180 ASN LEU TYR PHE GLN GLY SER ALA ASN GLU LEU THR ALA SEQRES 3 A 180 ALA ALA THR VAL LYS ILE SER ASP VAL GLU ILE ASP THR SEQRES 4 A 180 TYR HIS LEU TRP LEU LYS SER TYR VAL VAL ASP VAL PRO SEQRES 5 A 180 ILE VAL LEU LYS ARG ASN THR GLY VAL SER TYR LEU SER SEQRES 6 A 180 MET GLY VAL PHE TYR ASP GLU THR VAL ALA GLN ALA GLN SEQRES 7 A 180 GLU LEU GLN SER VAL ASP ILE ASP GLN ILE GLY VAL LEU SEQRES 8 A 180 ASP ASP PHE SER GLN ARG ALA SER SER GLY ALA SER SER SEQRES 9 A 180 GLY TRP LEU GLU PHE ARG SER VAL ASP PRO GLY SER GLY SEQRES 10 A 180 TYR VAL TYR SER GLY THR THR LEU GLY VAL LEU LYS ILE SEQRES 11 A 180 LYS LEU ASP GLU SER VAL LYS ALA GLY ASP VAL ILE ASP SEQRES 12 A 180 LEU SER ALA VAL SER LEU SER PRO THR GLY ALA VAL ALA SEQRES 13 A 180 THR VAL GLU ILE ALA ASP GLY SER ARG SER SER PRO ALA SEQRES 14 A 180 LEU VAL SER GLY SER ILE ARG ILE THR GLU ALA FORMUL 2 HOH *210(H2 O) HELIX 1 AA1 THR A 519 LYS A 525 1 7 HELIX 2 AA2 ASP A 573 SER A 580 1 8 HELIX 3 AA3 ASP A 593 GLY A 597 5 5 SHEET 1 AA1 5 ALA A 555 SER A 562 0 SHEET 2 AA1 5 THR A 604 LEU A 612 -1 O LYS A 609 N GLU A 559 SHEET 3 AA1 5 VAL A 528 ASN A 538 -1 N VAL A 529 O ILE A 610 SHEET 4 AA1 5 ALA A 508 ILE A 512 -1 N LYS A 511 O VAL A 534 SHEET 5 AA1 5 ALA A 649 VAL A 651 1 O ALA A 649 N VAL A 510 SHEET 1 AA2 6 ASP A 514 ASP A 518 0 SHEET 2 AA2 6 GLY A 653 THR A 658 1 O SER A 654 N VAL A 515 SHEET 3 AA2 6 VAL A 621 VAL A 627 -1 N ILE A 622 O ILE A 655 SHEET 4 AA2 6 TYR A 543 PHE A 549 -1 N PHE A 549 O SER A 625 SHEET 5 AA2 6 SER A 584 SER A 591 -1 O LEU A 587 N MET A 546 SHEET 6 AA2 6 ILE A 568 ASP A 572 -1 N GLY A 569 O ARG A 590 SHEET 1 AA3 6 ASP A 514 ASP A 518 0 SHEET 2 AA3 6 GLY A 653 THR A 658 1 O SER A 654 N VAL A 515 SHEET 3 AA3 6 VAL A 621 VAL A 627 -1 N ILE A 622 O ILE A 655 SHEET 4 AA3 6 TYR A 543 PHE A 549 -1 N PHE A 549 O SER A 625 SHEET 5 AA3 6 VAL A 638 GLU A 639 -1 O GLU A 639 N TYR A 543 SHEET 6 AA3 6 ARG A 645 SER A 646 -1 O SER A 646 N VAL A 638 CRYST1 33.700 36.990 109.690 90.00 90.00 90.00 P 21 21 21 4 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 0.029674 0.000000 0.000000 0.00000 SCALE2 0.000000 0.027034 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009117 0.00000 MASTER 278 0 0 3 17 0 0 6 1432 1 0 14 END