PDB Short entry for 2OD1 HEADER METAL BINDING PROTEIN 21-DEC-06 2OD1 TITLE SOLUTION STRUCTURE OF THE MYND DOMAIN FROM HUMAN AML1-ETO COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN CBFA2T1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MYND DOMAIN; COMPND 5 SYNONYM: PROTEIN MTG8, PROTEIN ETO, EIGHT TWENTY ONE PROTEIN, CYCLIN- COMPND 6 D-RELATED PROTEIN, ZINC FINGER MYND DOMAIN- CONTAINING PROTEIN 2; 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: AML1-ETO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL-21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX4T3 KEYWDS ZINC FINGER, CROSS-BRACED TOPOLOGY, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 31 AUTHOR Y.Z.LIU,W.CHEN,J.GAUDET,M.D.CHENEY,L.ROUDAIA,T.CIERPICKI,R.C.KLET, AUTHOR 2 K.HARTMAN,T.M.LAUE,N.A.SPECK,J.H.BUSHWELLER REVDAT 5 27-DEC-23 2OD1 1 REMARK REVDAT 4 16-MAR-22 2OD1 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2OD1 1 VERSN REVDAT 2 17-JUL-07 2OD1 1 JRNL REVDAT 1 19-JUN-07 2OD1 0 JRNL AUTH Y.LIU,W.CHEN,J.GAUDET,M.D.CHENEY,L.ROUDAIA,T.CIERPICKI, JRNL AUTH 2 R.C.KLET,K.HARTMAN,T.M.LAUE,N.A.SPECK,J.H.BUSHWELLER JRNL TITL STRUCTURAL BASIS FOR RECOGNITION OF SMRT/N-COR BY THE MYND JRNL TITL 2 DOMAIN AND ITS CONTRIBUTION TO AML1/ETO'S ACTIVITY. JRNL REF CANCER CELL V. 11 483 2007 JRNL REFN ISSN 1535-6108 JRNL PMID 17560331 JRNL DOI 10.1016/J.CCR.2007.04.010 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS, CNS REMARK 3 AUTHORS : BRUNGER, A.T. ET AL. (CNS), BRUNGER, A.T. ET AL. REMARK 3 (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2OD1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1000040981. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1-2MM PROTEIN, 25MM BIS-TRIS, REMARK 210 5MM DTT, 50UM ZNCL2, 95% H20, 5% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 31 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT 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 1-31 REMARK 465 RES C SSSEQI REMARK 465 GLY A 648 REMARK 465 SER A 649 REMARK 465 PRO A 650 REMARK 465 ASN A 651 REMARK 465 SER A 652 REMARK 465 GLY A 653 REMARK 465 SER A 654 REMARK 465 PRO A 655 REMARK 465 ASN A 656 REMARK 465 SER A 657 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 GLU A 661 62.60 61.83 REMARK 500 1 ARG A 668 -67.63 -97.18 REMARK 500 1 GLN A 704 80.18 59.58 REMARK 500 2 ARG A 668 -75.29 -98.05 REMARK 500 3 GLU A 661 48.71 -95.00 REMARK 500 3 ARG A 668 -71.58 -98.99 REMARK 500 3 GLN A 701 -41.49 -173.76 REMARK 500 3 GLN A 706 90.45 -63.84 REMARK 500 4 ARG A 668 -70.03 -103.02 REMARK 500 4 ALA A 670 -151.32 -101.90 REMARK 500 4 SER A 671 -57.50 172.45 REMARK 500 4 ALA A 705 -167.55 -109.24 REMARK 500 4 GLN A 706 36.78 -97.57 REMARK 500 5 SER A 660 106.22 -161.42 REMARK 500 5 GLU A 661 47.61 -107.12 REMARK 500 5 ARG A 668 -70.73 -97.43 REMARK 500 5 GLN A 701 100.54 -59.61 REMARK 500 5 GLN A 706 -45.91 -157.94 REMARK 500 6 SER A 660 -44.88 -161.99 REMARK 500 6 GLU A 661 47.24 -97.48 REMARK 500 6 ARG A 668 -69.14 -102.29 REMARK 500 6 ALA A 670 -151.59 -101.98 REMARK 500 6 SER A 671 -57.26 172.42 REMARK 500 6 GLN A 701 30.61 -98.77 REMARK 500 6 GLN A 706 -67.94 -137.80 REMARK 500 7 ARG A 668 -68.59 -98.77 REMARK 500 7 LEU A 703 -51.88 -159.31 REMARK 500 7 GLN A 706 163.37 60.77 REMARK 500 8 SER A 659 -176.92 60.13 REMARK 500 8 SER A 660 79.53 -113.91 REMARK 500 8 ARG A 668 -69.98 -101.29 REMARK 500 8 ALA A 670 -149.53 -103.91 REMARK 500 8 SER A 671 -53.92 169.35 REMARK 500 8 GLN A 706 104.79 59.80 REMARK 500 9 GLU A 661 51.10 -90.86 REMARK 500 9 ARG A 668 -69.50 -99.28 REMARK 500 9 ALA A 670 -151.08 -102.33 REMARK 500 9 SER A 671 -55.57 170.47 REMARK 500 9 THR A 702 -69.37 -141.31 REMARK 500 9 LEU A 703 -69.89 67.64 REMARK 500 9 ALA A 705 42.91 -105.79 REMARK 500 9 GLN A 706 -67.23 -157.02 REMARK 500 10 ARG A 668 -69.78 -99.36 REMARK 500 10 ALA A 670 -151.24 -101.96 REMARK 500 10 SER A 671 -56.69 171.62 REMARK 500 10 LEU A 703 -179.95 -66.23 REMARK 500 10 ALA A 705 68.03 -165.58 REMARK 500 10 GLN A 706 81.75 -156.94 REMARK 500 11 ARG A 668 -75.47 -100.73 REMARK 500 11 ALA A 670 -151.79 -102.07 REMARK 500 REMARK 500 THIS ENTRY HAS 134 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 901 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 663 SG REMARK 620 2 CYS A 666 SG 120.4 REMARK 620 3 CYS A 683 SG 120.6 99.7 REMARK 620 4 CYS A 687 SG 110.7 99.2 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 902 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 674 SG REMARK 620 2 CYS A 677 SG 95.7 REMARK 620 3 HIS A 695 NE2 102.6 106.2 REMARK 620 4 CYS A 699 SG 124.4 117.0 108.8 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 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 902 DBREF 2OD1 A 658 707 UNP Q06455 MTG8_HUMAN 510 559 SEQADV 2OD1 GLY A 648 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 SER A 649 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 PRO A 650 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 ASN A 651 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 SER A 652 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 GLY A 653 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 SER A 654 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 PRO A 655 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 ASN A 656 UNP Q06455 CLONING ARTIFACT SEQADV 2OD1 SER A 657 UNP Q06455 CLONING ARTIFACT SEQRES 1 A 60 GLY SER PRO ASN SER GLY SER PRO ASN SER ASP SER SER SEQRES 2 A 60 GLU SER CYS TRP ASN CYS GLY ARG LYS ALA SER GLU THR SEQRES 3 A 60 CYS SER GLY CYS ASN THR ALA ARG TYR CYS GLY SER PHE SEQRES 4 A 60 CYS GLN HIS LYS ASP TRP GLU LYS HIS HIS HIS ILE CYS SEQRES 5 A 60 GLY GLN THR LEU GLN ALA GLN GLN HET ZN A 901 1 HET ZN A 902 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 GLY A 684 HIS A 696 1 13 SHEET 1 A 2 GLU A 672 THR A 673 0 SHEET 2 A 2 ARG A 681 TYR A 682 -1 O TYR A 682 N GLU A 672 LINK SG CYS A 663 ZN ZN A 901 1555 1555 2.29 LINK SG CYS A 666 ZN ZN A 901 1555 1555 2.31 LINK SG CYS A 674 ZN ZN A 902 1555 1555 2.30 LINK SG CYS A 677 ZN ZN A 902 1555 1555 2.33 LINK SG CYS A 683 ZN ZN A 901 1555 1555 2.29 LINK SG CYS A 687 ZN ZN A 901 1555 1555 2.33 LINK NE2 HIS A 695 ZN ZN A 902 1555 1555 2.04 LINK SG CYS A 699 ZN ZN A 902 1555 1555 2.31 SITE 1 AC1 4 CYS A 663 CYS A 666 CYS A 683 CYS A 687 SITE 1 AC2 4 CYS A 674 CYS A 677 HIS A 695 CYS A 699 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