HEADER DNA BINDING PROTEIN 28-APR-15 2N26 TITLE SOLUTION STRUCTURE OF MIZ-1 ZINC FINGERS 3 AND 4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC FINGER AND BTB DOMAIN-CONTAINING PROTEIN 17; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 304-414; COMPND 5 SYNONYM: MYC-INTERACTING ZINC FINGER PROTEIN 1, MIZ-1, ZINC FINGER COMPND 6 PROTEIN 151, ZINC FINGER PROTEIN 60; COMPND 7 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: MIZ1, ZBTB17, ZNF151, ZNF60; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET-3A KEYWDS MIZ-1, ZBTB17, C2H2 ZINC FINGER, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.BEDARD,P.LAVIGNE REVDAT 3 01-MAY-24 2N26 1 REMARK SEQADV LINK REVDAT 2 10-AUG-16 2N26 1 JRNL REVDAT 1 17-JUN-15 2N26 0 JRNL AUTH C.TREMBLAY,M.BEDARD,M.A.BONIN,P.LAVIGNE JRNL TITL SOLUTION STRUCTURE OF THE 13TH C2H2 ZINC FINGER OF MIZ-1. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 473 471 2016 JRNL REFN ISSN 0006-291X JRNL PMID 26972249 JRNL DOI 10.1016/J.BBRC.2016.03.034 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 2.2, ARIA 2.2, CNS 1.21 REMARK 3 AUTHORS : NILGES, RIEPING, HABECK, BARDIAUX, BERNARD AND REMARK 3 MALLIAVIN (ARIA), NILGES, RIEPING, HABECK, REMARK 3 BARDIAUX, BERNARD AND MALLIAVIN (ARIA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N26 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000104327. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7 - 1.0 MM [U-13C; U-15N] REMARK 210 MIZ1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : CBCACONH (H[N[CO[{CA|CA[C]}]]]); REMARK 210 3D HNCO; HNHA (H{[N]+[HA]}); 3D REMARK 210 1H-15N NOESY; 2D 1H-15N HSQC/ REMARK 210 HMQC; 3D HNCACB; CCCONH (HNCO); REMARK 210 3D 1H-13C NOESY; 3D HCCH-TOCSY; REMARK 210 2D 1H-13C HSQC/HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITYINOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.21, CCPNMR ANALYSIS 2.1, REMARK 210 DANGLE 1.1, NMRPIPE 7.4 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY AND RESTRAINT REMARK 210 VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 ILE A 3 REMARK 465 HIS A 4 REMARK 465 LYS A 5 REMARK 465 CYS A 6 REMARK 465 GLU A 7 REMARK 465 ASP A 8 REMARK 465 CYS A 9 REMARK 465 GLY A 10 REMARK 465 LYS A 11 REMARK 465 GLU A 12 REMARK 465 PHE A 13 REMARK 465 THR A 14 REMARK 465 HIS A 15 REMARK 465 THR A 16 REMARK 465 GLY A 17 REMARK 465 ASN A 18 REMARK 465 PHE A 19 REMARK 465 LYS A 20 REMARK 465 ARG A 21 REMARK 465 HIS A 22 REMARK 465 ILE A 23 REMARK 465 ARG A 24 REMARK 465 ILE A 25 REMARK 465 HIS A 26 REMARK 465 THR A 27 REMARK 465 GLY A 28 REMARK 465 GLU A 29 REMARK 465 LYS A 30 REMARK 465 PRO A 31 REMARK 465 PHE A 32 REMARK 465 SER A 33 REMARK 465 CYS A 34 REMARK 465 ARG A 35 REMARK 465 GLU A 36 REMARK 465 CYS A 37 REMARK 465 SER A 38 REMARK 465 LYS A 39 REMARK 465 ALA A 40 REMARK 465 PHE A 41 REMARK 465 SER A 42 REMARK 465 ASP A 43 REMARK 465 PRO A 44 REMARK 465 ALA A 45 REMARK 465 ALA A 46 REMARK 465 CYS A 47 REMARK 465 LYS A 48 REMARK 465 ALA A 49 REMARK 465 HIS A 50 REMARK 465 GLU A 51 REMARK 465 LYS A 52 REMARK 465 THR A 53 REMARK 465 HIS A 54 REMARK 465 SER A 55 REMARK 465 PRO A 56 REMARK 465 LEU A 57 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 HH TYR A 69 HD1 HIS A 78 1.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 9 TYR A 60 CE1 TYR A 60 CZ 0.102 REMARK 500 9 TYR A 60 CZ TYR A 60 CE2 -0.099 REMARK 500 16 TYR A 60 CE1 TYR A 60 CZ 0.111 REMARK 500 16 TYR A 60 CZ TYR A 60 CE2 -0.114 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 1 ARG A 87 -81.67 -95.99 REMARK 500 1 SER A 111 46.66 -153.85 REMARK 500 2 ARG A 87 -74.88 -100.77 REMARK 500 2 SER A 111 -38.49 -168.73 REMARK 500 3 ARG A 87 -78.23 -101.08 REMARK 500 3 GLU A 91 -5.25 -59.04 REMARK 500 3 SER A 111 36.57 -143.49 REMARK 500 4 ARG A 87 -81.57 -101.03 REMARK 500 4 SER A 111 37.14 -151.85 REMARK 500 5 ARG A 87 -91.61 -82.85 REMARK 500 5 SER A 111 34.09 -141.41 REMARK 500 6 ARG A 87 -77.28 -93.03 REMARK 500 6 GLU A 91 13.25 -69.60 REMARK 500 6 SER A 111 40.04 -162.91 REMARK 500 7 ARG A 87 -80.32 -96.37 REMARK 500 7 SER A 111 41.54 -158.55 REMARK 500 8 ARG A 87 -90.69 -84.63 REMARK 500 8 GLU A 91 6.34 -67.51 REMARK 500 8 SER A 111 27.85 -157.71 REMARK 500 9 ARG A 87 -84.35 -86.18 REMARK 500 9 SER A 111 51.76 -163.02 REMARK 500 10 ARG A 87 -91.60 -83.65 REMARK 500 10 GLU A 91 1.41 -65.52 REMARK 500 10 SER A 111 43.08 -153.29 REMARK 500 11 ARG A 87 -86.39 -93.27 REMARK 500 11 GLU A 91 0.03 -60.23 REMARK 500 11 SER A 111 57.51 -153.13 REMARK 500 12 ARG A 87 -82.01 -92.07 REMARK 500 12 GLU A 91 9.34 -66.81 REMARK 500 12 SER A 111 53.45 -156.24 REMARK 500 13 ARG A 87 -92.43 -88.02 REMARK 500 13 GLU A 91 12.95 -68.87 REMARK 500 13 SER A 111 40.24 -150.49 REMARK 500 14 GLU A 63 3.41 -69.93 REMARK 500 14 ARG A 87 -96.76 -89.26 REMARK 500 14 SER A 111 47.61 -153.18 REMARK 500 15 ARG A 87 -80.71 -90.16 REMARK 500 15 GLU A 91 0.94 -62.59 REMARK 500 15 SER A 111 38.15 -155.73 REMARK 500 16 ARG A 87 -81.13 -87.51 REMARK 500 16 GLU A 91 6.58 -65.95 REMARK 500 16 SER A 111 55.14 -160.54 REMARK 500 17 ARG A 87 -86.33 -85.44 REMARK 500 17 GLU A 91 1.22 -60.30 REMARK 500 17 SER A 111 44.86 -152.29 REMARK 500 18 ARG A 87 -90.91 -82.55 REMARK 500 18 GLU A 91 14.38 -63.98 REMARK 500 18 SER A 111 33.34 -158.18 REMARK 500 19 ARG A 87 -82.35 -91.44 REMARK 500 19 SER A 111 46.59 -174.37 REMARK 500 REMARK 500 THIS ENTRY HAS 53 RAMACHANDRAN OUTLIERS. 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 62 SG REMARK 620 2 CYS A 65 SG 90.4 REMARK 620 3 HIS A 78 NE2 94.8 85.6 REMARK 620 4 HIS A 82 NE2 164.5 105.0 85.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 90 SG REMARK 620 2 CYS A 93 SG 109.6 REMARK 620 3 HIS A 106 NE2 103.8 93.8 REMARK 620 4 HIS A 110 NE2 113.8 118.4 114.9 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25587 RELATED DB: BMRB REMARK 900 RELATED ID: 2N25 RELATED DB: PDB DBREF 2N26 A 2 112 UNP Q13105 ZBT17_HUMAN 304 414 SEQADV 2N26 MET A 1 UNP Q13105 INITIATING METHIONINE SEQRES 1 A 112 MET VAL ILE HIS LYS CYS GLU ASP CYS GLY LYS GLU PHE SEQRES 2 A 112 THR HIS THR GLY ASN PHE LYS ARG HIS ILE ARG ILE HIS SEQRES 3 A 112 THR GLY GLU LYS PRO PHE SER CYS ARG GLU CYS SER LYS SEQRES 4 A 112 ALA PHE SER ASP PRO ALA ALA CYS LYS ALA HIS GLU LYS SEQRES 5 A 112 THR HIS SER PRO LEU LYS PRO TYR GLY CYS GLU GLU CYS SEQRES 6 A 112 GLY LYS SER TYR ARG LEU ILE SER LEU LEU ASN LEU HIS SEQRES 7 A 112 LYS LYS ARG HIS SER GLY GLU ALA ARG TYR ARG CYS GLU SEQRES 8 A 112 ASP CYS GLY LYS LEU PHE THR THR SER GLY ASN LEU LYS SEQRES 9 A 112 ARG HIS GLN LEU VAL HIS SER GLY HET ZN A 201 1 HET ZN A 202 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 LEU A 71 SER A 83 1 13 HELIX 2 2 THR A 99 LEU A 108 1 10 SHEET 1 A 2 TYR A 60 GLY A 61 0 SHEET 2 A 2 SER A 68 TYR A 69 -1 O TYR A 69 N TYR A 60 SHEET 1 B 2 TYR A 88 ARG A 89 0 SHEET 2 B 2 LEU A 96 PHE A 97 -1 O PHE A 97 N TYR A 88 LINK SG CYS A 62 ZN ZN A 201 1555 1555 2.33 LINK SG CYS A 65 ZN ZN A 201 1555 1555 2.27 LINK NE2 HIS A 78 ZN ZN A 201 1555 1555 2.13 LINK NE2 HIS A 82 ZN ZN A 201 1555 1555 2.13 LINK SG CYS A 90 ZN ZN A 202 1555 1555 2.31 LINK SG CYS A 93 ZN ZN A 202 1555 1555 2.32 LINK NE2 HIS A 106 ZN ZN A 202 1555 1555 2.10 LINK NE2 HIS A 110 ZN ZN A 202 1555 1555 2.01 SITE 1 AC1 5 CYS A 62 GLU A 64 CYS A 65 HIS A 78 SITE 2 AC1 5 HIS A 82 SITE 1 AC2 5 CYS A 90 ASP A 92 CYS A 93 HIS A 106 SITE 2 AC2 5 HIS A 110 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 MODEL 1