PDB Short entry for 5EMC HEADER TRANSCRIPTION/DNA 06-NOV-15 5EMC TITLE TRANSCRIPTION FACTOR GRDBD AND SMGRE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*CP*AP*GP*AP*AP*(5CM) COMPND 3 P*AP*TP*CP*AP*TP*GP*TP*TP*(5CM)P*TP*G)-3'); COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: GLUCOCORTICOID RECEPTOR; COMPND 8 CHAIN: A, B; COMPND 9 FRAGMENT: UNP RESIDUES 411-500; COMPND 10 SYNONYM: GR,NUCLEAR RECEPTOR SUBFAMILY 3 GROUP C MEMBER 1; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*CP*CP*AP*GP*AP*AP*(5CM) COMPND 14 P*AP*TP*GP*AP*TP*GP*TP*TP*(5CM)P*TP*G)-3'); COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: NR3C1, GRL; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI-PICHIA PASTORIS SHUTTLE VECTOR SOURCE 11 PPPHIS4; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 1182038; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630 KEYWDS TRANSCRIPTION FACTOR, COMPLEX, DNA, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.D.SU,T.LIAN,J.JIN REVDAT 2 19-FEB-20 5EMC 1 REMARK REVDAT 1 29-JUN-16 5EMC 0 JRNL AUTH J.JIN,T.LIAN,X.D.SU JRNL TITL THE EFFECTS OF CYTOSINE METHYLATION ON GENERAL TRANSCRIPTION JRNL TITL 2 FACTORS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.26 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 19398 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1005 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 37.2611 - 4.3978 0.96 2808 136 0.2146 0.2483 REMARK 3 2 4.3978 - 3.4915 0.97 2672 140 0.1966 0.2073 REMARK 3 3 3.4915 - 3.0504 0.97 2648 141 0.2238 0.2939 REMARK 3 4 3.0504 - 2.7716 0.99 2651 145 0.2426 0.2621 REMARK 3 5 2.7716 - 2.5730 0.99 2674 156 0.2429 0.3227 REMARK 3 6 2.5730 - 2.4213 0.99 2660 132 0.2632 0.2929 REMARK 3 7 2.4213 - 2.3001 1.00 2662 155 0.2788 0.3230 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) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.620 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.56 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 : 0.006 1887 REMARK 3 ANGLE : 0.892 2692 REMARK 3 CHIRALITY : 0.035 295 REMARK 3 PLANARITY : 0.004 220 REMARK 3 DIHEDRAL : 23.482 718 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 11.1622 -11.7974 -6.8315 REMARK 3 T TENSOR REMARK 3 T11: 0.3075 T22: 0.2618 REMARK 3 T33: 0.2856 T12: -0.0136 REMARK 3 T13: -0.0109 T23: 0.0346 REMARK 3 L TENSOR REMARK 3 L11: 0.8173 L22: 0.9677 REMARK 3 L33: 1.4678 L12: -0.1957 REMARK 3 L13: -0.2918 L23: -0.2531 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: 0.0580 S13: 0.1798 REMARK 3 S21: -0.1856 S22: 0.0914 S23: -0.0094 REMARK 3 S31: -0.4316 S32: 0.0873 S33: -0.0617 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 5EMC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215056. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19780 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 37.256 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.4500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.51900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM HEPES, 100MM KCL, 10MM MGCL2, 5% REMARK 280 PEG 400, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 19.47100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.11450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.82150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.11450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.47100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.82150 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, A, B, D 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 GLY A 426 REMARK 465 SER A 427 REMARK 465 HIS A 428 REMARK 465 MET A 429 REMARK 465 THR A 430 REMARK 465 ALA A 431 REMARK 465 THR A 432 REMARK 465 THR A 433 REMARK 465 GLY A 434 REMARK 465 PRO A 435 REMARK 465 PRO A 436 REMARK 465 PRO A 437 REMARK 465 GLU A 508 REMARK 465 ALA A 509 REMARK 465 ARG A 510 REMARK 465 LYS A 511 REMARK 465 THR A 512 REMARK 465 LYS A 513 REMARK 465 LYS A 514 REMARK 465 LYS A 515 REMARK 465 ILE A 516 REMARK 465 LYS A 517 REMARK 465 GLY A 518 REMARK 465 ILE A 519 REMARK 465 GLY B 426 REMARK 465 SER B 427 REMARK 465 HIS B 428 REMARK 465 MET B 429 REMARK 465 THR B 430 REMARK 465 ALA B 431 REMARK 465 THR B 432 REMARK 465 THR B 433 REMARK 465 GLY B 434 REMARK 465 PRO B 435 REMARK 465 PRO B 436 REMARK 465 ALA B 509 REMARK 465 ARG B 510 REMARK 465 LYS B 511 REMARK 465 THR B 512 REMARK 465 LYS B 513 REMARK 465 LYS B 514 REMARK 465 LYS B 515 REMARK 465 ILE B 516 REMARK 465 LYS B 517 REMARK 465 GLY B 518 REMARK 465 ILE B 519 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 DC C 1 O5' REMARK 470 LEU A 441 CG CD1 CD2 REMARK 470 LYS A 465 CG CD CE NZ REMARK 470 GLU A 469 CG CD OE1 OE2 REMARK 470 GLN A 471 CG CD OE1 NE2 REMARK 470 ASN A 473 CG OD1 ND2 REMARK 470 LYS A 486 CG CD CE NZ REMARK 470 LYS A 490 CG CD CE NZ REMARK 470 GLN A 502 CG CD OE1 NE2 REMARK 470 GLU B 446 CG CD OE1 OE2 REMARK 470 GLN B 471 CG CD OE1 NE2 REMARK 470 ASN B 473 OD1 ND2 REMARK 470 DC D 27 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 ASP A 481 37.05 -144.20 REMARK 500 ASN A 506 -161.70 -164.05 REMARK 500 ASN B 473 129.50 -35.95 REMARK 500 ASP B 481 37.67 -142.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS B 472 ASN B 473 -123.45 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 747 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH A 748 DISTANCE = 6.56 ANGSTROMS REMARK 525 HOH A 749 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH A 750 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH A 751 DISTANCE = 7.43 ANGSTROMS REMARK 525 HOH A 752 DISTANCE = 9.10 ANGSTROMS REMARK 525 HOH B 758 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH B 759 DISTANCE = 6.51 ANGSTROMS 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 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 440 SG REMARK 620 2 CYS A 443 SG 109.6 REMARK 620 3 CYS A 457 SG 113.7 104.3 REMARK 620 4 CYS A 460 SG 108.8 117.9 102.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 476 SG REMARK 620 2 CYS A 482 SG 106.2 REMARK 620 3 CYS A 492 SG 110.8 110.4 REMARK 620 4 CYS A 495 SG 114.6 109.9 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 440 SG REMARK 620 2 CYS B 443 SG 114.8 REMARK 620 3 CYS B 457 SG 117.2 105.3 REMARK 620 4 CYS B 460 SG 110.9 109.3 97.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 476 SG REMARK 620 2 CYS B 482 SG 100.8 REMARK 620 3 CYS B 492 SG 117.2 112.1 REMARK 620 4 CYS B 495 SG 107.1 110.9 108.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-nucleotide DA D 32 and 5CM D REMARK 800 33 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-nucleotide 5CM D 33 and DA D REMARK 800 34 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-nucleotide DT D 41 and 5CM D REMARK 800 42 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-nucleotide 5CM D 42 and DT D REMARK 800 43 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5EMP RELATED DB: PDB REMARK 900 RELATED ID: 5EMQ RELATED DB: PDB DBREF 5EMC C 1 18 PDB 5EMC 5EMC 1 18 DBREF 5EMC A 430 519 UNP P04150 GCR_HUMAN 411 500 DBREF 5EMC B 430 519 UNP P04150 GCR_HUMAN 411 500 DBREF 5EMC D 27 44 PDB 5EMC 5EMC 27 44 SEQADV 5EMC GLY A 426 UNP P04150 EXPRESSION TAG SEQADV 5EMC SER A 427 UNP P04150 EXPRESSION TAG SEQADV 5EMC HIS A 428 UNP P04150 EXPRESSION TAG SEQADV 5EMC MET A 429 UNP P04150 EXPRESSION TAG SEQADV 5EMC GLY B 426 UNP P04150 EXPRESSION TAG SEQADV 5EMC SER B 427 UNP P04150 EXPRESSION TAG SEQADV 5EMC HIS B 428 UNP P04150 EXPRESSION TAG SEQADV 5EMC MET B 429 UNP P04150 EXPRESSION TAG SEQRES 1 C 18 DC DC DA DG DA DA 5CM DA DT DC DA DT DG SEQRES 2 C 18 DT DT 5CM DT DG SEQRES 1 A 94 GLY SER HIS MET THR ALA THR THR GLY PRO PRO PRO LYS SEQRES 2 A 94 LEU CYS LEU VAL CYS SER ASP GLU ALA SER GLY CYS HIS SEQRES 3 A 94 TYR GLY VAL LEU THR CYS GLY SER CYS LYS VAL PHE PHE SEQRES 4 A 94 LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR LEU CYS ALA SEQRES 5 A 94 GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE ARG ARG LYS SEQRES 6 A 94 ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS LEU GLN ALA SEQRES 7 A 94 GLY MET ASN LEU GLU ALA ARG LYS THR LYS LYS LYS ILE SEQRES 8 A 94 LYS GLY ILE SEQRES 1 B 94 GLY SER HIS MET THR ALA THR THR GLY PRO PRO PRO LYS SEQRES 2 B 94 LEU CYS LEU VAL CYS SER ASP GLU ALA SER GLY CYS HIS SEQRES 3 B 94 TYR GLY VAL LEU THR CYS GLY SER CYS LYS VAL PHE PHE SEQRES 4 B 94 LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR LEU CYS ALA SEQRES 5 B 94 GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE ARG ARG LYS SEQRES 6 B 94 ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS LEU GLN ALA SEQRES 7 B 94 GLY MET ASN LEU GLU ALA ARG LYS THR LYS LYS LYS ILE SEQRES 8 B 94 LYS GLY ILE SEQRES 1 D 18 DC DC DA DG DA DA 5CM DA DT DG DA DT DG SEQRES 2 D 18 DT DT 5CM DT DG HET 5CM C 7 20 HET 5CM C 16 20 HET 5CM D 33 20 HET 5CM D 42 20 HET ZN A 601 1 HET ZN A 602 1 HET ZN B 601 1 HET ZN B 602 1 HETNAM 5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION FORMUL 1 5CM 4(C10 H16 N3 O7 P) FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *184(H2 O) HELIX 1 AA1 CYS A 457 GLU A 469 1 13 HELIX 2 AA2 ILE A 487 ASN A 491 5 5 HELIX 3 AA3 CYS A 492 GLY A 504 1 13 HELIX 4 AA4 CYS B 457 GLY B 470 1 14 HELIX 5 AA5 CYS B 492 GLY B 504 1 13 SHEET 1 AA1 2 GLY A 449 HIS A 451 0 SHEET 2 AA1 2 VAL A 454 THR A 456 -1 O VAL A 454 N HIS A 451 SHEET 1 AA2 2 GLY B 449 HIS B 451 0 SHEET 2 AA2 2 VAL B 454 THR B 456 -1 O VAL B 454 N HIS B 451 LINK O3' DA C 6 P 5CM C 7 1555 1555 1.60 LINK O3' 5CM C 7 P DA C 8 1555 1555 1.61 LINK O3' DT C 15 P 5CM C 16 1555 1555 1.60 LINK O3' 5CM C 16 P DT C 17 1555 1555 1.61 LINK SG CYS A 440 ZN ZN A 601 1555 1555 2.30 LINK SG CYS A 443 ZN ZN A 601 1555 1555 2.33 LINK SG CYS A 457 ZN ZN A 601 1555 1555 2.37 LINK SG CYS A 460 ZN ZN A 601 1555 1555 2.36 LINK SG CYS A 476 ZN ZN A 602 1555 1555 2.37 LINK SG CYS A 482 ZN ZN A 602 1555 1555 2.28 LINK SG CYS A 492 ZN ZN A 602 1555 1555 2.28 LINK SG CYS A 495 ZN ZN A 602 1555 1555 2.38 LINK SG CYS B 440 ZN ZN B 601 1555 1555 2.44 LINK SG CYS B 443 ZN ZN B 601 1555 1555 2.26 LINK SG CYS B 457 ZN ZN B 601 1555 1555 2.45 LINK SG CYS B 460 ZN ZN B 601 1555 1555 2.32 LINK SG CYS B 476 ZN ZN B 602 1555 1555 2.29 LINK SG CYS B 482 ZN ZN B 602 1555 1555 2.28 LINK SG CYS B 492 ZN ZN B 602 1555 1555 2.22 LINK SG CYS B 495 ZN ZN B 602 1555 1555 2.54 LINK O3' DA D 32 P 5CM D 33 1555 1555 1.61 LINK O3' 5CM D 33 P DA D 34 1555 1555 1.60 LINK O3' DT D 41 P 5CM D 42 1555 1555 1.60 LINK O3' 5CM D 42 P DT D 43 1555 1555 1.61 SITE 1 AC1 4 CYS A 440 CYS A 443 CYS A 457 CYS A 460 SITE 1 AC2 4 CYS A 476 CYS A 482 CYS A 492 CYS A 495 SITE 1 AC3 4 CYS B 440 CYS B 443 CYS B 457 CYS B 460 SITE 1 AC4 4 CYS B 476 CYS B 482 CYS B 492 CYS B 495 SITE 1 AC5 11 ARG B 466 DG C 13 DT C 14 DT C 15 SITE 2 AC5 11 HOH C 109 HOH C 116 DA D 31 DA D 34 SITE 3 AC5 11 HOH D 106 HOH D 109 HOH D 110 SITE 1 AC6 9 DA C 11 DT C 12 DG C 13 HOH C 109 SITE 2 AC6 9 DA D 32 DT D 35 HOH D 103 HOH D 106 SITE 3 AC6 9 HOH D 109 SITE 1 AC7 9 DA C 3 DG C 4 DA C 5 DA C 6 SITE 2 AC7 9 DT D 40 DT D 43 HOH D 104 HOH D 111 SITE 3 AC7 9 HOH D 114 SITE 1 AC8 11 DC C 2 DA C 3 DG C 4 DA C 5 SITE 2 AC8 11 DC D 27 DT D 41 DG D 44 HOH D 104 SITE 3 AC8 11 HOH D 107 HOH D 111 HOH D 114 CRYST1 38.942 99.643 112.229 90.00 90.00 90.00 P 21 21 21 8 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 0.025679 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010036 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008910 0.00000