HEADER TRANSCRIPTION/DNA 08-MAY-23 8SSU TITLE ZNFS 3-11 OF CCCTC-BINDING FACTOR (CTCF) COMPLEXED WITH 19MER DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REPRESSOR CTCF,LIM DOMAIN-BINDING PROTEIN COMPND 3 1; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: ZINC FINGER DOMAINS 3-11 OF CTCF, RESIDUES 195-258 OF LDB1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (19-MER) STRAND I; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (19-MER) STRAND II; COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CTCF, LDB1, CLIM2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: CODONPLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PGEX6P-1; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_TAXID: 9606 KEYWDS PROTEIN-DNA COMPLEX, DNA BINDING PROTEIN, TRANSCRIPTION FACTOR, ZINC KEYWDS 2 FINGERS, INSULATOR/CHROMATIN ARCHITECTURE, TRANSCRIPTION-DNA KEYWDS 3 COMPLEX, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR J.R.HORTON,J.YANG,X.CHENG REVDAT 2 20-SEP-23 8SSU 1 JRNL REVDAT 1 02-AUG-23 8SSU 0 JRNL AUTH J.YANG,J.R.HORTON,B.LIU,V.G.CORCES,R.M.BLUMENTHAL,X.ZHANG, JRNL AUTH 2 X.CHENG JRNL TITL STRUCTURES OF CTCF-DNA COMPLEXES INCLUDING ALL 11 ZINC JRNL TITL 2 FINGERS. JRNL REF NUCLEIC ACIDS RES. V. 51 8447 2023 JRNL REFN ESSN 1362-4962 JRNL PMID 37439339 JRNL DOI 10.1093/NAR/GKAD594 REMARK 2 REMARK 2 RESOLUTION. 2.89 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.89 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 29628 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 1460 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 39.3400 - 6.2300 1.00 2888 142 0.1423 0.1597 REMARK 3 2 6.2200 - 4.9500 1.00 2886 146 0.1579 0.2003 REMARK 3 3 4.9400 - 4.3200 1.00 2891 156 0.1673 0.2205 REMARK 3 4 4.3200 - 3.9200 1.00 2872 139 0.1863 0.2453 REMARK 3 5 3.9200 - 3.6400 0.99 2833 152 0.1981 0.2273 REMARK 3 6 3.6400 - 3.4300 0.97 2856 147 0.2423 0.2882 REMARK 3 7 3.4300 - 3.2600 0.94 2666 149 0.3076 0.3838 REMARK 3 8 3.2600 - 3.1200 0.96 2780 144 0.3287 0.3863 REMARK 3 9 3.1200 - 3.0000 0.98 2810 145 0.3752 0.3691 REMARK 3 10 3.0000 - 2.8900 0.92 2686 140 0.3878 0.4726 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) : 0.477 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.139 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 78.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 93.66 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 : 0.003 2852 REMARK 3 ANGLE : 0.503 4020 REMARK 3 CHIRALITY : 0.035 427 REMARK 3 PLANARITY : 0.003 380 REMARK 3 DIHEDRAL : 21.832 1131 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 320 THROUGH 344 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.7287 -23.3801 7.0160 REMARK 3 T TENSOR REMARK 3 T11: 0.9317 T22: 1.0004 REMARK 3 T33: 0.5971 T12: -0.1212 REMARK 3 T13: 0.2017 T23: -0.1852 REMARK 3 L TENSOR REMARK 3 L11: 5.5391 L22: 7.5957 REMARK 3 L33: 6.6876 L12: -1.6756 REMARK 3 L13: 1.9448 L23: 1.5053 REMARK 3 S TENSOR REMARK 3 S11: -0.1296 S12: 0.9927 S13: -0.4205 REMARK 3 S21: -1.0511 S22: -0.0216 S23: -0.9049 REMARK 3 S31: 0.9042 S32: 1.2899 S33: 0.0982 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 345 THROUGH 487 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.4198 -13.8821 38.7345 REMARK 3 T TENSOR REMARK 3 T11: 0.8011 T22: 0.6887 REMARK 3 T33: 0.4758 T12: 0.1198 REMARK 3 T13: -0.0266 T23: -0.0603 REMARK 3 L TENSOR REMARK 3 L11: 1.2515 L22: 2.8407 REMARK 3 L33: 6.6638 L12: 0.6814 REMARK 3 L13: 0.2129 L23: 0.3938 REMARK 3 S TENSOR REMARK 3 S11: -0.0326 S12: -0.0781 S13: -0.2259 REMARK 3 S21: 0.1855 S22: 0.2677 S23: -0.2594 REMARK 3 S31: 0.3280 S32: 0.4743 S33: -0.2294 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 488 THROUGH 552 ) REMARK 3 ORIGIN FOR THE GROUP (A): 46.9705 3.2854 106.4528 REMARK 3 T TENSOR REMARK 3 T11: 1.2015 T22: 0.9266 REMARK 3 T33: 0.6566 T12: 0.1803 REMARK 3 T13: -0.0110 T23: 0.2080 REMARK 3 L TENSOR REMARK 3 L11: 1.5342 L22: 3.4343 REMARK 3 L33: 3.8745 L12: 0.8424 REMARK 3 L13: -0.6302 L23: 2.9416 REMARK 3 S TENSOR REMARK 3 S11: 0.2409 S12: 0.2386 S13: -0.0837 REMARK 3 S21: -0.7081 S22: -0.5587 S23: -0.0345 REMARK 3 S31: 0.0182 S32: -0.0715 S33: 0.3103 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6254 -21.9181 20.9918 REMARK 3 T TENSOR REMARK 3 T11: 1.1139 T22: 1.0927 REMARK 3 T33: 0.4203 T12: -0.0090 REMARK 3 T13: -0.0048 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 6.8909 L22: 4.6761 REMARK 3 L33: 8.3110 L12: 1.3969 REMARK 3 L13: 5.5714 L23: 4.3714 REMARK 3 S TENSOR REMARK 3 S11: 1.0196 S12: -1.2318 S13: -0.4157 REMARK 3 S21: 1.2046 S22: -0.1672 S23: -0.1241 REMARK 3 S31: 1.6683 S32: -0.1704 S33: -0.7148 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 11 THROUGH 19 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.3452 -18.5928 50.5344 REMARK 3 T TENSOR REMARK 3 T11: 1.3237 T22: 1.0028 REMARK 3 T33: 0.4404 T12: 0.0761 REMARK 3 T13: -0.0623 T23: 0.0552 REMARK 3 L TENSOR REMARK 3 L11: 5.8754 L22: 8.3492 REMARK 3 L33: 7.1085 L12: -1.6896 REMARK 3 L13: 3.9512 L23: -5.3364 REMARK 3 S TENSOR REMARK 3 S11: 0.1927 S12: -0.7965 S13: -0.5910 REMARK 3 S21: -0.4350 S22: 0.8703 S23: 0.5139 REMARK 3 S31: 1.1774 S32: -1.0875 S33: -0.9918 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.8920 -17.4995 40.6803 REMARK 3 T TENSOR REMARK 3 T11: 1.3732 T22: 0.9218 REMARK 3 T33: 0.4289 T12: 0.0713 REMARK 3 T13: -0.0876 T23: -0.0009 REMARK 3 L TENSOR REMARK 3 L11: 2.2245 L22: 1.4439 REMARK 3 L33: 1.1284 L12: -0.0395 REMARK 3 L13: -0.8910 L23: 0.7982 REMARK 3 S TENSOR REMARK 3 S11: 0.0052 S12: 0.0042 S13: -0.1685 REMARK 3 S21: 0.2003 S22: 0.2372 S23: 0.0432 REMARK 3 S31: 0.3169 S32: 0.2734 S33: -0.1766 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 16 THROUGH 19 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.9896 -28.0388 10.9086 REMARK 3 T TENSOR REMARK 3 T11: 1.1460 T22: 0.8341 REMARK 3 T33: 0.4283 T12: -0.1629 REMARK 3 T13: 0.0613 T23: -0.0867 REMARK 3 L TENSOR REMARK 3 L11: 4.3696 L22: 8.0409 REMARK 3 L33: 6.7267 L12: 5.0646 REMARK 3 L13: 5.2707 L23: 5.2314 REMARK 3 S TENSOR REMARK 3 S11: -1.5016 S12: 0.7965 S13: -0.1114 REMARK 3 S21: -1.2854 S22: 0.4925 S23: 0.1665 REMARK 3 S31: -0.9395 S32: 0.6685 S33: 0.9902 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 8SSU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1000274348. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-20 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 : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30234 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.890 REMARK 200 RESOLUTION RANGE LOW (A) : 39.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.99 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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: 0.04 M CITRIC ACID, REMARK 200 0.06 M BIS-TRIS PROPANE)/PH 6.4, REMARK 200 20% W/V POLYETHYLENE GLYCOL 3,350 REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04 M CITRIC ACID, 0.06 M BIS-TRIS REMARK 280 PROPANE/PH 6.4, 20% W/V POLYETHYLENE GLYCOL 3,350, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 125.06533 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 62.53267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 62.53267 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 125.06533 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: 6780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ALA A 553 REMARK 465 ALA A 554 REMARK 465 PHE A 555 REMARK 465 VAL A 556 REMARK 465 CYS A 557 REMARK 465 SER A 558 REMARK 465 LYS A 559 REMARK 465 CYS A 560 REMARK 465 GLY A 561 REMARK 465 LYS A 562 REMARK 465 THR A 563 REMARK 465 PHE A 564 REMARK 465 THR A 565 REMARK 465 ARG A 566 REMARK 465 ARG A 567 REMARK 465 ASN A 568 REMARK 465 THR A 569 REMARK 465 MET A 570 REMARK 465 ALA A 571 REMARK 465 ARG A 572 REMARK 465 HIS A 573 REMARK 465 ALA A 574 REMARK 465 ASP A 575 REMARK 465 ASN A 576 REMARK 465 CYS A 577 REMARK 465 ALA A 578 REMARK 465 GLY A 579 REMARK 465 PRO A 580 REMARK 465 ASP A 581 REMARK 465 GLY A 582 REMARK 465 GLY A 583 REMARK 465 SER A 584 REMARK 465 GLY A 585 REMARK 465 GLY A 586 REMARK 465 HIS A 587 REMARK 465 MET A 588 REMARK 465 GLY A 589 REMARK 465 SER A 590 REMARK 465 GLY A 591 REMARK 465 GLY A 592 REMARK 465 LEU A 593 REMARK 465 VAL A 594 REMARK 465 PRO A 595 REMARK 465 ARG A 596 REMARK 465 GLY A 597 REMARK 465 SER A 598 REMARK 465 GLY A 599 REMARK 465 GLY A 600 REMARK 465 THR A 601 REMARK 465 ARG A 602 REMARK 465 CYS A 603 REMARK 465 GLY A 604 REMARK 465 LEU A 605 REMARK 465 SER A 606 REMARK 465 ASN A 607 REMARK 465 SER A 608 REMARK 465 THR A 609 REMARK 465 LEU A 610 REMARK 465 ASN A 611 REMARK 465 TYR A 612 REMARK 465 LEU A 613 REMARK 465 ARG A 614 REMARK 465 LEU A 615 REMARK 465 CYS A 616 REMARK 465 VAL A 617 REMARK 465 ILE A 618 REMARK 465 LEU A 619 REMARK 465 GLU A 620 REMARK 465 PRO A 621 REMARK 465 MET A 622 REMARK 465 GLN A 623 REMARK 465 GLU A 624 REMARK 465 LEU A 625 REMARK 465 MET A 626 REMARK 465 SER A 627 REMARK 465 ARG A 628 REMARK 465 HIS A 629 REMARK 465 LYS A 630 REMARK 465 THR A 631 REMARK 465 TYR A 632 REMARK 465 SER A 633 REMARK 465 LEU A 634 REMARK 465 SER A 635 REMARK 465 PRO A 636 REMARK 465 ARG A 637 REMARK 465 ASP A 638 REMARK 465 CYS A 639 REMARK 465 LEU A 640 REMARK 465 LYS A 641 REMARK 465 THR A 642 REMARK 465 CYS A 643 REMARK 465 LEU A 644 REMARK 465 PHE A 645 REMARK 465 GLN A 646 REMARK 465 LYS A 647 REMARK 465 TRP A 648 REMARK 465 GLN A 649 REMARK 465 ARG A 650 REMARK 465 MET A 651 REMARK 465 VAL A 652 REMARK 465 ALA A 653 REMARK 465 PRO A 654 REMARK 465 PRO A 655 REMARK 465 ALA A 656 REMARK 465 GLU A 657 REMARK 465 PRO A 658 REMARK 465 THR A 659 REMARK 465 ARG A 660 REMARK 465 GLN A 661 REMARK 465 GLN A 662 REMARK 465 PRO A 663 REMARK 465 SER A 664 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 GLU A 376 CG CD OE1 OE2 REMARK 470 GLU A 408 CG CD OE1 OE2 REMARK 470 ASP A 443 CG OD1 OD2 REMARK 470 GLU A 464 CG CD OE1 OE2 REMARK 470 LYS A 467 CG CD CE NZ REMARK 470 LYS A 468 CG CD CE NZ REMARK 470 ARG A 470 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 487 CG CD CE NZ REMARK 470 LYS A 490 CG CD CE NZ REMARK 470 GLU A 492 CG CD OE1 OE2 REMARK 470 ARG A 494 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 496 CG CD CE NZ REMARK 470 GLU A 507 CG CD OE1 OE2 REMARK 470 LYS A 514 CG CD CE NZ REMARK 470 GLU A 520 CG CD OE1 OE2 REMARK 470 LYS A 543 CG CD CE NZ REMARK 470 DT B 1 O5' 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 CYS A 384 -169.85 -126.40 REMARK 500 ILE A 411 -60.67 -122.72 REMARK 500 GLU A 507 -7.41 70.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 324 SG REMARK 620 2 CYS A 327 SG 94.6 REMARK 620 3 HIS A 340 NE2 116.0 101.8 REMARK 620 4 HIS A 345 NE2 91.4 106.7 138.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 703 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 353 SG REMARK 620 2 CYS A 356 SG 114.7 REMARK 620 3 HIS A 369 NE2 114.8 82.6 REMARK 620 4 HIS A 373 NE2 121.0 107.7 109.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 704 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 381 SG REMARK 620 2 CYS A 384 SG 114.6 REMARK 620 3 HIS A 397 NE2 111.6 99.7 REMARK 620 4 HIS A 401 NE2 122.5 109.8 94.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 705 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 409 SG REMARK 620 2 CYS A 412 SG 96.7 REMARK 620 3 HIS A 425 NE2 117.8 88.4 REMARK 620 4 HIS A 430 NE2 122.2 127.8 100.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 706 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 439 SG REMARK 620 2 CYS A 442 SG 102.8 REMARK 620 3 HIS A 455 NE2 121.6 97.8 REMARK 620 4 HIS A 460 NE2 96.9 120.5 118.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 707 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 469 SG REMARK 620 2 CYS A 472 SG 86.1 REMARK 620 3 HIS A 485 NE2 134.8 91.5 REMARK 620 4 HIS A 489 NE2 129.3 119.4 90.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 708 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 497 SG REMARK 620 2 CYS A 500 SG 108.9 REMARK 620 3 HIS A 513 NE2 77.8 90.1 REMARK 620 4 HIS A 517 NE2 143.8 104.3 88.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 709 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 525 SG REMARK 620 2 CYS A 528 SG 121.8 REMARK 620 3 HIS A 541 NE2 116.8 90.9 REMARK 620 4 HIS A 546 NE2 98.3 111.8 118.8 REMARK 620 N 1 2 3 DBREF 8SSU A 320 582 UNP P49711 CTCF_HUMAN 320 582 DBREF 8SSU A 601 664 UNP Q86U70 LDB1_HUMAN 195 258 DBREF 8SSU B 1 19 PDB 8SSU 8SSU 1 19 DBREF 8SSU C 1 19 PDB 8SSU 8SSU 1 19 SEQADV 8SSU GLY A 583 UNP P49711 LINKER SEQADV 8SSU SER A 584 UNP P49711 LINKER SEQADV 8SSU GLY A 585 UNP P49711 LINKER SEQADV 8SSU GLY A 586 UNP P49711 LINKER SEQADV 8SSU HIS A 587 UNP P49711 LINKER SEQADV 8SSU MET A 588 UNP P49711 LINKER SEQADV 8SSU GLY A 589 UNP P49711 LINKER SEQADV 8SSU SER A 590 UNP P49711 LINKER SEQADV 8SSU GLY A 591 UNP P49711 LINKER SEQADV 8SSU GLY A 592 UNP P49711 LINKER SEQADV 8SSU LEU A 593 UNP P49711 LINKER SEQADV 8SSU VAL A 594 UNP P49711 LINKER SEQADV 8SSU PRO A 595 UNP P49711 LINKER SEQADV 8SSU ARG A 596 UNP P49711 LINKER SEQADV 8SSU GLY A 597 UNP P49711 LINKER SEQADV 8SSU SER A 598 UNP P49711 LINKER SEQADV 8SSU GLY A 599 UNP P49711 LINKER SEQADV 8SSU GLY A 600 UNP P49711 LINKER SEQRES 1 A 345 ARG PRO HIS LYS CYS PRO ASP CYS ASP MET ALA PHE VAL SEQRES 2 A 345 THR SER GLY GLU LEU VAL ARG HIS ARG ARG TYR LYS HIS SEQRES 3 A 345 THR HIS GLU LYS PRO PHE LYS CYS SER MET CYS ASP TYR SEQRES 4 A 345 ALA SER VAL GLU VAL SER LYS LEU LYS ARG HIS ILE ARG SEQRES 5 A 345 SER HIS THR GLY GLU ARG PRO PHE GLN CYS SER LEU CYS SEQRES 6 A 345 SER TYR ALA SER ARG ASP THR TYR LYS LEU LYS ARG HIS SEQRES 7 A 345 MET ARG THR HIS SER GLY GLU LYS PRO TYR GLU CYS TYR SEQRES 8 A 345 ILE CYS HIS ALA ARG PHE THR GLN SER GLY THR MET LYS SEQRES 9 A 345 MET HIS ILE LEU GLN LYS HIS THR GLU ASN VAL ALA LYS SEQRES 10 A 345 PHE HIS CYS PRO HIS CYS ASP THR VAL ILE ALA ARG LYS SEQRES 11 A 345 SER ASP LEU GLY VAL HIS LEU ARG LYS GLN HIS SER TYR SEQRES 12 A 345 ILE GLU GLN GLY LYS LYS CYS ARG TYR CYS ASP ALA VAL SEQRES 13 A 345 PHE HIS GLU ARG TYR ALA LEU ILE GLN HIS GLN LYS SER SEQRES 14 A 345 HIS LYS ASN GLU LYS ARG PHE LYS CYS ASP GLN CYS ASP SEQRES 15 A 345 TYR ALA CYS ARG GLN GLU ARG HIS MET ILE MET HIS LYS SEQRES 16 A 345 ARG THR HIS THR GLY GLU LYS PRO TYR ALA CYS SER HIS SEQRES 17 A 345 CYS ASP LYS THR PHE ARG GLN LYS GLN LEU LEU ASP MET SEQRES 18 A 345 HIS PHE LYS ARG TYR HIS ASP PRO ASN PHE VAL PRO ALA SEQRES 19 A 345 ALA PHE VAL CYS SER LYS CYS GLY LYS THR PHE THR ARG SEQRES 20 A 345 ARG ASN THR MET ALA ARG HIS ALA ASP ASN CYS ALA GLY SEQRES 21 A 345 PRO ASP GLY GLY SER GLY GLY HIS MET GLY SER GLY GLY SEQRES 22 A 345 LEU VAL PRO ARG GLY SER GLY GLY THR ARG CYS GLY LEU SEQRES 23 A 345 SER ASN SER THR LEU ASN TYR LEU ARG LEU CYS VAL ILE SEQRES 24 A 345 LEU GLU PRO MET GLN GLU LEU MET SER ARG HIS LYS THR SEQRES 25 A 345 TYR SER LEU SER PRO ARG ASP CYS LEU LYS THR CYS LEU SEQRES 26 A 345 PHE GLN LYS TRP GLN ARG MET VAL ALA PRO PRO ALA GLU SEQRES 27 A 345 PRO THR ARG GLN GLN PRO SER SEQRES 1 B 19 DT DG DC DG DC DC DC DC DC DT DG DC DT SEQRES 2 B 19 DG DG DT DC DC DT SEQRES 1 C 19 DA DG DG DA DC DC DA DG DC DA DG DG DG SEQRES 2 C 19 DG DG DC DG DC DA HET EDO A 701 4 HET ZN A 702 1 HET ZN A 703 1 HET ZN A 704 1 HET ZN A 705 1 HET ZN A 706 1 HET ZN A 707 1 HET ZN A 708 1 HET ZN A 709 1 HET EDO C 101 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETSYN EDO ETHYLENE GLYCOL FORMUL 4 EDO 2(C2 H6 O2) FORMUL 5 ZN 8(ZN 2+) FORMUL 14 HOH *6(H2 O) HELIX 1 AA1 THR A 333 HIS A 345 1 13 HELIX 2 AA2 GLU A 362 GLY A 375 1 14 HELIX 3 AA3 ASP A 390 GLY A 403 1 14 HELIX 4 AA4 GLN A 418 THR A 431 1 14 HELIX 5 AA5 ARG A 448 HIS A 460 1 13 HELIX 6 AA6 GLU A 478 SER A 488 1 11 HELIX 7 AA7 ARG A 508 HIS A 517 1 10 HELIX 8 AA8 GLN A 534 HIS A 546 1 13 SHEET 1 AA1 2 HIS A 322 LYS A 323 0 SHEET 2 AA1 2 ALA A 330 PHE A 331 -1 O PHE A 331 N HIS A 322 SHEET 1 AA2 2 PHE A 351 LYS A 352 0 SHEET 2 AA2 2 ALA A 359 SER A 360 -1 O SER A 360 N PHE A 351 SHEET 1 AA3 2 PHE A 379 GLN A 380 0 SHEET 2 AA3 2 ALA A 387 SER A 388 -1 O SER A 388 N PHE A 379 SHEET 1 AA4 2 TYR A 407 GLU A 408 0 SHEET 2 AA4 2 ARG A 415 PHE A 416 -1 O PHE A 416 N TYR A 407 SHEET 1 AA5 2 PHE A 437 HIS A 438 0 SHEET 2 AA5 2 VAL A 445 ILE A 446 -1 O ILE A 446 N PHE A 437 SHEET 1 AA6 2 LYS A 467 LYS A 468 0 SHEET 2 AA6 2 VAL A 475 PHE A 476 -1 O PHE A 476 N LYS A 467 SHEET 1 AA7 2 TYR A 523 ALA A 524 0 SHEET 2 AA7 2 THR A 531 PHE A 532 -1 O PHE A 532 N TYR A 523 LINK SG CYS A 324 ZN ZN A 702 1555 1555 2.26 LINK SG CYS A 327 ZN ZN A 702 1555 1555 2.23 LINK NE2 HIS A 340 ZN ZN A 702 1555 1555 2.03 LINK NE2 HIS A 345 ZN ZN A 702 1555 1555 2.04 LINK SG CYS A 353 ZN ZN A 703 1555 1555 2.34 LINK SG CYS A 356 ZN ZN A 703 1555 1555 2.22 LINK NE2 HIS A 369 ZN ZN A 703 1555 1555 2.04 LINK NE2 HIS A 373 ZN ZN A 703 1555 1555 2.02 LINK SG CYS A 381 ZN ZN A 704 1555 1555 2.32 LINK SG CYS A 384 ZN ZN A 704 1555 1555 2.25 LINK NE2 HIS A 397 ZN ZN A 704 1555 1555 2.03 LINK NE2 HIS A 401 ZN ZN A 704 1555 1555 2.02 LINK SG CYS A 409 ZN ZN A 705 1555 1555 2.35 LINK SG CYS A 412 ZN ZN A 705 1555 1555 2.30 LINK NE2 HIS A 425 ZN ZN A 705 1555 1555 2.03 LINK NE2 HIS A 430 ZN ZN A 705 1555 1555 2.03 LINK SG CYS A 439 ZN ZN A 706 1555 1555 2.26 LINK SG CYS A 442 ZN ZN A 706 1555 1555 2.25 LINK NE2 HIS A 455 ZN ZN A 706 1555 1555 2.01 LINK NE2 HIS A 460 ZN ZN A 706 1555 1555 2.02 LINK SG CYS A 469 ZN ZN A 707 1555 1555 2.36 LINK SG CYS A 472 ZN ZN A 707 1555 1555 2.07 LINK NE2 HIS A 485 ZN ZN A 707 1555 1555 2.04 LINK NE2 HIS A 489 ZN ZN A 707 1555 1555 2.04 LINK SG CYS A 497 ZN ZN A 708 1555 1555 2.33 LINK SG CYS A 500 ZN ZN A 708 1555 1555 2.27 LINK NE2 HIS A 513 ZN ZN A 708 1555 1555 2.03 LINK NE2 HIS A 517 ZN ZN A 708 1555 1555 2.04 LINK SG CYS A 525 ZN ZN A 709 1555 1555 2.26 LINK SG CYS A 528 ZN ZN A 709 1555 1555 2.23 LINK NE2 HIS A 541 ZN ZN A 709 1555 1555 2.04 LINK NE2 HIS A 546 ZN ZN A 709 1555 1555 2.03 CRYST1 80.464 80.464 187.598 90.00 90.00 120.00 P 32 2 1 6 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012428 0.007175 0.000000 0.00000 SCALE2 0.000000 0.014351 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005331 0.00000