HEADER SIGNALING PROTEIN 12-FEB-10 2KU3 TITLE SOLUTION STRUCTURE OF BRD1 PHD1 FINGER COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PHD ZINC FINGER DOMAIN, RESIDUES 208-269; COMPND 5 SYNONYM: BR140-LIKE PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BRD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: P28 KEYWDS PHD FINGER, BROMODOMAIN, CHROMATIN REGULATOR, METAL-BINDING, ZINC- KEYWDS 2 FINGER, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.QIN,J.ZHANG,J.WU,Y.SHI REVDAT 2 01-MAY-24 2KU3 1 REMARK SEQADV LINK REVDAT 1 16-FEB-11 2KU3 0 JRNL AUTH S.QIN,J.ZHANG,J.WU,Y.SHI JRNL TITL SOLUTION STRUCTURE OF BRD1 PHD1 FINGER JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.2, CNS 1.2 REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KU3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000101573. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293; 293 REMARK 210 PH : 6.7; NULL REMARK 210 IONIC STRENGTH : 0.15; 0.15 REMARK 210 PRESSURE : AMBIENT; NULL REMARK 210 SAMPLE CONTENTS : 2MM ZINC ION; 1MM [U-100% 13C; U REMARK 210 -100% 15N] PROTEIN; 150MM SODIUM REMARK 210 CHLORIDE; 20MM BIS-TRIS; 90% H2O/ REMARK 210 10% D2O; 2MM ZINC ION; 1MM [U- REMARK 210 100% 13C; U-100% 15N] PROTEIN; REMARK 210 20MM BIS-TRIS; 150MM SODIUM REMARK 210 CHLORIDE; 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HNCO; 3D HBHA(CO) REMARK 210 NH; 3D C(CO)NH; 3D H(CCO)NH; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3, CNS 1.2, TALOS, MOLMOL REMARK 210 2K.2 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 -8 REMARK 465 GLY A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 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 SER A 2 -71.08 -123.39 REMARK 500 1 ASP A 5 -50.57 -167.24 REMARK 500 1 ALA A 8 37.84 -95.39 REMARK 500 1 CYS A 27 -170.34 -67.43 REMARK 500 1 ASN A 31 25.49 82.18 REMARK 500 1 TYR A 43 -169.80 -164.65 REMARK 500 1 GLN A 48 -155.86 -100.81 REMARK 500 2 SER A 2 -67.62 -151.93 REMARK 500 2 ILE A 4 -44.49 -134.74 REMARK 500 2 ALA A 8 48.11 -90.75 REMARK 500 2 MET A 14 74.32 60.16 REMARK 500 2 ASN A 22 85.48 -153.30 REMARK 500 2 MET A 29 -64.49 -132.15 REMARK 500 2 ASN A 31 25.81 84.11 REMARK 500 2 GLN A 48 -156.53 -92.07 REMARK 500 3 ASP A 5 48.13 -95.47 REMARK 500 3 ALA A 8 33.47 -95.20 REMARK 500 3 MET A 14 78.48 67.19 REMARK 500 3 ASP A 15 116.47 -160.42 REMARK 500 3 ASN A 22 87.00 -151.61 REMARK 500 3 CYS A 27 -169.67 -73.39 REMARK 500 3 MET A 29 -64.73 -121.54 REMARK 500 3 ASN A 31 25.14 81.98 REMARK 500 3 GLN A 48 -155.57 -104.67 REMARK 500 4 SER A 2 38.51 -99.29 REMARK 500 4 GLU A 6 -70.81 72.50 REMARK 500 4 ASP A 7 27.72 -151.81 REMARK 500 4 MET A 14 70.61 63.39 REMARK 500 4 MET A 29 -64.43 -128.40 REMARK 500 4 ASN A 31 26.34 81.28 REMARK 500 4 GLN A 48 -155.67 -104.45 REMARK 500 5 MET A 14 70.69 54.74 REMARK 500 5 ASP A 15 117.06 -160.61 REMARK 500 5 CYS A 27 -169.91 -71.35 REMARK 500 5 ASN A 31 23.83 83.24 REMARK 500 5 GLN A 48 -156.00 -120.71 REMARK 500 5 ALA A 59 -76.68 -95.83 REMARK 500 6 LEU A 3 -72.71 -95.76 REMARK 500 6 ASP A 5 57.03 -96.41 REMARK 500 6 ASP A 7 45.52 -102.02 REMARK 500 6 MET A 14 83.61 64.49 REMARK 500 6 CYS A 27 -171.01 -66.17 REMARK 500 6 MET A 29 -48.66 -138.50 REMARK 500 6 TYR A 43 -174.19 -170.74 REMARK 500 6 GLN A 48 -155.73 -93.66 REMARK 500 6 CYS A 51 170.07 -55.35 REMARK 500 7 ILE A 4 43.35 -158.05 REMARK 500 7 ASP A 5 -47.92 -133.00 REMARK 500 7 MET A 14 76.84 56.77 REMARK 500 7 CYS A 27 -170.89 -69.23 REMARK 500 REMARK 500 THIS ENTRY HAS 148 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 64 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 10 SG REMARK 620 2 CYS A 13 SG 109.1 REMARK 620 3 HIS A 35 ND1 101.3 111.6 REMARK 620 4 CYS A 38 SG 108.3 110.3 115.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 63 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 27 SG REMARK 620 2 CYS A 30 SG 105.4 REMARK 620 3 CYS A 51 SG 109.6 109.4 REMARK 620 4 CYS A 54 SG 106.8 118.1 107.4 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 63 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 64 DBREF 2KU3 A 1 62 UNP O95696 BRD1_HUMAN 208 269 SEQADV 2KU3 MET A -8 UNP O95696 EXPRESSION TAG SEQADV 2KU3 GLY A -7 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -6 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -5 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -4 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -3 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -2 UNP O95696 EXPRESSION TAG SEQADV 2KU3 HIS A -1 UNP O95696 EXPRESSION TAG SEQADV 2KU3 MET A 0 UNP O95696 EXPRESSION TAG SEQADV 2KU3 SER A 11 UNP O95696 CYS 218 ENGINEERED MUTATION SEQADV 2KU3 SER A 18 UNP O95696 CYS 225 ENGINEERED MUTATION SEQRES 1 A 71 MET GLY HIS HIS HIS HIS HIS HIS MET GLN SER LEU ILE SEQRES 2 A 71 ASP GLU ASP ALA VAL CYS SER ILE CYS MET ASP GLY GLU SEQRES 3 A 71 SER GLN ASN SER ASN VAL ILE LEU PHE CYS ASP MET CYS SEQRES 4 A 71 ASN LEU ALA VAL HIS GLN GLU CYS TYR GLY VAL PRO TYR SEQRES 5 A 71 ILE PRO GLU GLY GLN TRP LEU CYS ARG HIS CYS LEU GLN SEQRES 6 A 71 SER ARG ALA ARG PRO ALA HET ZN A 63 1 HET ZN A 64 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 GLN A 36 GLY A 40 1 5 HELIX 2 2 CYS A 51 ARG A 60 1 10 SHEET 1 A 2 ILE A 24 PHE A 26 0 SHEET 2 A 2 ALA A 33 HIS A 35 -1 O VAL A 34 N LEU A 25 LINK SG CYS A 10 ZN ZN A 64 1555 1555 2.29 LINK SG CYS A 13 ZN ZN A 64 1555 1555 2.29 LINK SG CYS A 27 ZN ZN A 63 1555 1555 2.30 LINK SG CYS A 30 ZN ZN A 63 1555 1555 2.30 LINK ND1 HIS A 35 ZN ZN A 64 1555 1555 2.01 LINK SG CYS A 38 ZN ZN A 64 1555 1555 2.30 LINK SG CYS A 51 ZN ZN A 63 1555 1555 2.30 LINK SG CYS A 54 ZN ZN A 63 1555 1555 2.30 SITE 1 AC1 4 CYS A 27 CYS A 30 CYS A 51 CYS A 54 SITE 1 AC2 4 CYS A 10 CYS A 13 HIS A 35 CYS A 38 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