HEADER ONCOPROTEIN 14-SEP-10 2L3K OBSLTE 12-SEP-12 2L3K 2LXD TITLE SOLUTION STRUCTURE OF LMO2(LIM2)-LDB1(LID) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHOMBOTIN-2, LINKER, LIM DOMAIN-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PROTEIN RHOMBOTIN-2 (UNP RESIDUES 84-156), LIM DOMAIN- COMPND 5 BINDING PROTEIN 1 (UNP RESIDUES 336-375); COMPND 6 SYNONYM: LIM DOMAIN ONLY PROTEIN 2, LMO-2, CYSTEINE-RICH PROTEIN TTG- COMPND 7 2, T-CELL TRANSLOCATION PROTEIN 2; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: LMO2, RBTN-2, RBTN2, RHOM-2, LDB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS LMO2(LIM2)-LDB1(LID), CHIMERA, FUSION PROTEIN, ONCOPROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.DASTMALCHI,L.WILKINSON-WHITE,J.P.MACKAY,J.MATTHEWS REVDAT 3 12-SEP-12 2L3K 1 OBSLTE VERSN REVDAT 2 19-JAN-11 2L3K 1 JRNL REVDAT 1 10-NOV-10 2L3K 0 JRNL AUTH L.E.WILKINSON-WHITE,S.DASTMALCHI,A.H.KWAN,D.P.RYAN, JRNL AUTH 2 J.P.MACKAY,J.M.MATTHEWS JRNL TITL 1H, 15N AND 13C ASSIGNMENTS OF AN INTRAMOLECULAR JRNL TITL 2 LMO2-LIM2/LDB1-LID COMPLEX. JRNL REF BIOMOL.NMR ASSIGN. V. 4 203 2010 JRNL REFN ISSN 1874-2718 JRNL PMID 20563763 JRNL DOI 10.1007/S12104-010-9240-Y REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.0 REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: For structure calculations, NOE peaks REMARK 3 from 2D and 3D NOESY spectra were picked manually and integrated REMARK 3 using SPARKY and unambiguous peaks were assigned manually. All REMARK 3 assigned and unassigned peaks were calibrated and used for REMARK 3 structure calculation by CYANA2.1. Backbone angle restraints were REMARK 3 obtained from TALOS and HNHA-derived three-bond J-coupling REMARK 3 constants were used to derive additional PHI angle dihedral REMARK 3 restraints. Structures were calculated using a simulated REMARK 3 annealing approach with 10,000 torsion angle dynamic steps per REMARK 3 conformer. The 20 conformers with the lowest cyana target REMARK 3 function (from a total of 100 calculated structures) were used to REMARK 3 represent the solution structure of FLIC. REMARK 4 REMARK 4 2L3K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-SEP-10. REMARK 100 THE RCSB ID CODE IS RCSB101912. 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 : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 865 UM [U-100% 13C; U-100% 15N] REMARK 210 FLIC, 17 UM DSS, 5 % D2O, 20 MM REMARK 210 MES, 1 MM DTT, 95 % H2O, 150 MM REMARK 210 NACL, 90% H2O/10% D2O; 630 UM REMARK 210 FLIC, 17 UM DSS, 1 MM DTT, 5 % REMARK 210 D2O, 20 MM MES, 95 % H2O, 150 MM REMARK 210 NACL, 90% H2O/10% D2O; 865 UM [U- REMARK 210 100% 13C; U-100% 15N] FLIC, 17 UM REMARK 210 DSS, 100 % D2O, 20 MM MES, 1 MM REMARK 210 DTT, 150 MM NACL, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D C(CO)NH; 3D HNCO; REMARK 210 3D HN(CO)CA; 3D HNHA; 3D HBHA(CO) REMARK 210 NH; 3D HCCH-TOCSY; 2D 1H-13C REMARK 210 HSQC; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 2D 1H-1H TOCSY; 2D 1H-1H REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.113, TOPSPIN 2.1.B9, REMARK 210 TALOS 2009.215.15.29 REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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 CYS A 14 -165.68 -103.60 REMARK 500 1 GLU A 22 -70.23 -49.66 REMARK 500 1 MET A 23 40.97 38.01 REMARK 500 1 LYS A 28 -78.05 -45.70 REMARK 500 1 ASP A 29 -51.76 -120.21 REMARK 500 1 ALA A 41 -53.89 -124.86 REMARK 500 1 SER A 57 -91.17 -77.77 REMARK 500 1 SER A 81 -72.13 -86.04 REMARK 500 1 PHE A 98 -74.19 -54.85 REMARK 500 1 LEU A 105 -74.34 -94.08 REMARK 500 2 ARG A 3 102.33 -54.34 REMARK 500 2 ASP A 15 48.18 -98.61 REMARK 500 2 LYS A 28 -78.88 -44.56 REMARK 500 2 ASP A 29 -51.78 -120.45 REMARK 500 2 ALA A 41 -54.04 -124.98 REMARK 500 2 SER A 57 -91.33 -77.79 REMARK 500 2 ASP A 100 104.32 -175.91 REMARK 500 2 LEU A 105 -73.21 -51.58 REMARK 500 3 GLN A 7 179.38 -58.56 REMARK 500 3 ASP A 15 46.66 -93.90 REMARK 500 3 TYR A 21 -32.97 -165.72 REMARK 500 3 MET A 23 43.26 36.01 REMARK 500 3 MET A 25 -173.87 -66.71 REMARK 500 3 LYS A 28 -78.46 -43.84 REMARK 500 3 ALA A 41 -53.89 -124.11 REMARK 500 3 SER A 57 -91.75 -77.08 REMARK 500 3 SER A 81 -72.41 -66.55 REMARK 500 3 PHE A 114 131.95 -172.92 REMARK 500 3 ASP A 115 149.54 -174.13 REMARK 500 3 ALA A 116 130.64 -171.63 REMARK 500 4 ARG A 3 103.19 -54.79 REMARK 500 4 CYS A 14 -158.78 -110.73 REMARK 500 4 ILE A 18 108.74 -50.86 REMARK 500 4 TYR A 21 -34.24 -130.03 REMARK 500 4 GLU A 22 -79.88 -37.20 REMARK 500 4 LYS A 28 -75.00 -31.09 REMARK 500 4 ASP A 29 -50.83 -122.07 REMARK 500 4 HIS A 33 161.87 -47.04 REMARK 500 4 ALA A 41 -54.37 -125.40 REMARK 500 4 SER A 57 -90.85 -78.44 REMARK 500 4 LEU A 105 -74.63 -53.16 REMARK 500 4 ILE A 106 44.66 36.71 REMARK 500 4 GLN A 113 110.44 -172.10 REMARK 500 5 ARG A 3 94.35 -64.72 REMARK 500 5 CYS A 11 100.57 -58.30 REMARK 500 5 MET A 25 174.99 -53.71 REMARK 500 5 LYS A 28 -77.79 -41.64 REMARK 500 5 ASP A 29 -53.04 -120.35 REMARK 500 5 HIS A 33 165.00 -49.83 REMARK 500 5 ALA A 41 -54.18 -125.41 REMARK 500 REMARK 500 THIS ENTRY HAS 203 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 1 ZN A 125 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 64 OD2 REMARK 620 2 CYS A 39 SG 114.5 REMARK 620 3 CYS A 42 SG 90.3 114.4 REMARK 620 4 CYS A 61 SG 108.0 114.0 113.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 124 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 33 ND1 REMARK 620 2 CYS A 11 SG 105.8 REMARK 620 3 CYS A 14 SG 109.6 101.0 REMARK 620 4 CYS A 36 SG 115.1 112.8 111.5 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 124 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 125 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16779 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE STRUCTURE IS REPRESENTATIVE OF A CHIMERIC PROTEIN BETWEEN REMARK 999 RHOMBOTIN-2 AND LIM DOMAIN-BINDING PROTEIN 1 DBREF 2L3K A 1 73 UNP P25801 RBTN2_MOUSE 84 156 DBREF 2L3K A 84 123 UNP P70662 LDB1_MOUSE 336 375 SEQADV 2L3K SER A 47 UNP P25801 CYS 130 ENGINEERED MUTATION SEQADV 2L3K GLY A 74 UNP P25801 EXPRESSION TAG SEQADV 2L3K SER A 75 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 76 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 77 UNP P25801 EXPRESSION TAG SEQADV 2L3K SER A 78 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 79 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 80 UNP P25801 EXPRESSION TAG SEQADV 2L3K SER A 81 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 82 UNP P25801 EXPRESSION TAG SEQADV 2L3K GLY A 83 UNP P25801 EXPRESSION TAG SEQRES 1 A 123 TYR LEU ARG LEU PHE GLY GLN ASP GLY LEU CYS ALA SER SEQRES 2 A 123 CYS ASP LYS ARG ILE ARG ALA TYR GLU MET THR MET ARG SEQRES 3 A 123 VAL LYS ASP LYS VAL TYR HIS LEU GLU CYS PHE LYS CYS SEQRES 4 A 123 ALA ALA CYS GLN LYS HIS PHE SER VAL GLY ASP ARG TYR SEQRES 5 A 123 LEU LEU ILE ASN SER ASP ILE VAL CYS GLU GLN ASP ILE SEQRES 6 A 123 TYR GLU TRP THR LYS ILE ASN GLY GLY SER GLY GLY SER SEQRES 7 A 123 GLY GLY SER GLY GLY ASP VAL MET VAL VAL GLY GLU PRO SEQRES 8 A 123 THR LEU MET GLY GLY GLU PHE GLY ASP GLU ASP GLU ARG SEQRES 9 A 123 LEU ILE THR ARG LEU GLU ASN THR GLN PHE ASP ALA ALA SEQRES 10 A 123 ASN GLY ILE ASP ASP GLU HET ZN A 124 1 HET ZN A 125 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 ASP A 64 GLY A 73 1 10 HELIX 2 2 GLU A 101 LEU A 105 5 5 SHEET 1 A 3 ILE A 59 CYS A 61 0 SHEET 2 A 3 ARG A 51 LEU A 54 -1 N LEU A 53 O VAL A 60 SHEET 3 A 3 MET A 86 VAL A 87 -1 O MET A 86 N TYR A 52 LINK OD2 ASP A 64 ZN ZN A 125 1555 1555 2.04 LINK ND1 HIS A 33 ZN ZN A 124 1555 1555 2.25 LINK SG CYS A 39 ZN ZN A 125 1555 1555 2.30 LINK SG CYS A 11 ZN ZN A 124 1555 1555 2.30 LINK SG CYS A 42 ZN ZN A 125 1555 1555 2.31 LINK SG CYS A 61 ZN ZN A 125 1555 1555 2.31 LINK SG CYS A 14 ZN ZN A 124 1555 1555 2.33 LINK SG CYS A 36 ZN ZN A 124 1555 1555 2.33 SITE 1 AC1 4 CYS A 11 CYS A 14 HIS A 33 CYS A 36 SITE 1 AC2 4 CYS A 39 CYS A 42 CYS A 61 ASP A 64 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