HEADER TRANSCRIPTION 06-AUG-13 2MBV TITLE LMO4-LIM2 IN COMPLEX WITH DEAF1 (404-418) COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUSION PROTEIN OF LIM DOMAIN TRANSCRIPTION FACTOR LMO4 (77- COMPND 3 147) AND DEAF1 (404-418); COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: LMO4 (UNP RESIDUES 77-147), DEAF1 (UNP RESIDUES 404-418); COMPND 6 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: LMO4; 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 LMO4, DEAF1, TRANSCRIPTION, EMBRYONIC DEVELOPMENT, CANCER EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.JOSEPH,J.M.MATTHEWS,A.H.-Y.KWAN,J.P.MACKAY,L.CUBEDDU,P.FOO REVDAT 2 01-MAY-24 2MBV 1 REMARK SEQADV LINK REVDAT 1 20-AUG-14 2MBV 0 JRNL AUTH S.JOSEPH,A.H.KWAN,P.FOO,L.CUBEDDU,J.P.MACKAY,J.M.MATTHEWS JRNL TITL STRUCTURAL CHARACTERISATION OF LIM-ONLY PROTEIN 4 (LMO4) IN JRNL TITL 2 COMPLEX WITH DEFORMED EPIDERMAL AUTOREGULATORY FACTOR-1 JRNL TITL 3 (DEAF1) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 1.2, ARIA 0.2 REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), LINGE, REMARK 3 O'DONOGHUE AND NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000103453. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : 0.13 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3-0.7 MM [U-99% 13C; U-99% REMARK 210 15N] DIC4, 20 MM ACETIC ACID, 35 REMARK 210 MM SODIUM CHLORIDE, 1 MM DTT, REMARK 210 0.067 MM DSS, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D DQF-COSY; 2D 1H-1H TOCSY; 2D REMARK 210 1H-1H NOESY; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D H(CCO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HNCO; 3D HNCACO; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC 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 : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING, MOLECULAR REMARK 210 DYNAMICS, MATRIX RELAXATION, REMARK 210 TORSION ANGLE DYNAMICS, DISTANCE REMARK 210 GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 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 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 HD12 LEU A 80 HA ASN A 83 1.33 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 LEU A 80 46.73 -94.50 REMARK 500 1 SER A 93 128.67 62.43 REMARK 500 1 ALA A 103 -122.59 -113.67 REMARK 500 1 ARG A 141 72.29 55.27 REMARK 500 1 PRO A 142 99.51 -55.00 REMARK 500 1 SER A 203 -101.98 -95.50 REMARK 500 1 ALA A 411 -84.29 -105.75 REMARK 500 2 TYR A 77 26.75 -143.22 REMARK 500 2 ASN A 83 22.56 -147.01 REMARK 500 2 ALA A 103 -165.11 -119.78 REMARK 500 2 HIS A 109 -157.67 -103.91 REMARK 500 2 PHE A 113 85.35 -69.87 REMARK 500 2 ASP A 126 -145.12 -105.42 REMARK 500 2 PRO A 142 92.67 -62.55 REMARK 500 2 ASN A 147 93.05 -68.66 REMARK 500 2 ILE A 404 -76.03 -84.42 REMARK 500 2 ALA A 405 151.67 179.34 REMARK 500 2 PHE A 407 145.80 74.15 REMARK 500 2 ALA A 411 -102.99 -85.97 REMARK 500 3 ARG A 79 -26.57 -176.25 REMARK 500 3 ASN A 83 35.33 -152.29 REMARK 500 3 SER A 84 -113.69 -106.62 REMARK 500 3 ALA A 103 -162.28 -122.40 REMARK 500 3 HIS A 109 -157.42 -110.58 REMARK 500 3 PRO A 124 109.95 -55.82 REMARK 500 3 ARG A 141 99.22 -22.64 REMARK 500 3 ALA A 144 -84.21 65.66 REMARK 500 3 ASN A 147 113.12 -173.13 REMARK 500 3 ALA A 411 -145.23 -136.32 REMARK 500 3 SER A 415 -102.69 59.98 REMARK 500 4 ARG A 79 -42.55 -131.58 REMARK 500 4 ASN A 83 167.48 170.24 REMARK 500 4 SER A 84 -60.94 71.03 REMARK 500 4 ALA A 103 -83.34 -104.71 REMARK 500 4 ASP A 126 -152.82 -101.93 REMARK 500 4 THR A 143 121.83 75.26 REMARK 500 4 ALA A 144 39.95 -75.50 REMARK 500 4 LEU A 145 27.06 -162.69 REMARK 500 4 ASN A 147 159.98 72.47 REMARK 500 4 PRO A 406 -164.35 -74.68 REMARK 500 4 ALA A 411 -135.52 -93.85 REMARK 500 5 ASN A 83 94.49 61.01 REMARK 500 5 SER A 84 -146.15 -146.82 REMARK 500 5 CYS A 90 -74.65 -110.18 REMARK 500 5 GLN A 104 -127.45 -152.63 REMARK 500 5 PHE A 113 82.75 -67.50 REMARK 500 5 ARG A 119 50.97 81.02 REMARK 500 5 ALA A 144 -74.14 -97.55 REMARK 500 5 ASN A 147 45.77 -87.55 REMARK 500 5 SER A 203 31.37 -87.43 REMARK 500 REMARK 500 THIS ENTRY HAS 196 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 A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 87 SG REMARK 620 2 CYS A 90 SG 110.4 REMARK 620 3 HIS A 109 ND1 108.2 106.5 REMARK 620 4 CYS A 112 SG 112.8 111.1 107.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 115 SG REMARK 620 2 CYS A 118 SG 113.3 REMARK 620 3 CYS A 137 SG 114.8 115.5 REMARK 620 4 ASP A 140 OD2 103.7 103.8 103.9 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1RUT RELATED DB: PDB REMARK 900 LMO4 LIM1+LIM2 IN COMPLEX WITH LDB1 REMARK 900 RELATED ID: 2L4Z RELATED DB: PDB REMARK 900 LMO4 LIM1 IN COMPLEX WITH CTIP REMARK 900 RELATED ID: 19415 RELATED DB: BMRB DBREF 2MBV A 77 147 UNP P61969 LMO4_MOUSE 77 147 DBREF 2MBV A 404 418 UNP Q9Z1T5 DEAF1_MOUSE 404 418 SEQADV 2MBV GLY A 1 UNP P61969 EXPRESSION TAG SEQADV 2MBV SER A 2 UNP P61969 EXPRESSION TAG SEQADV 2MBV GLY A 201 UNP P61969 LINKER SEQADV 2MBV GLY A 202 UNP P61969 LINKER SEQADV 2MBV SER A 203 UNP P61969 LINKER SEQADV 2MBV GLY A 204 UNP P61969 LINKER SEQADV 2MBV GLY A 205 UNP P61969 LINKER SEQADV 2MBV SER A 206 UNP P61969 LINKER SEQADV 2MBV GLY A 207 UNP P61969 LINKER SEQADV 2MBV SER A 208 UNP P61969 LINKER SEQRES 1 A 96 GLY SER TYR ILE ARG LEU PHE GLY ASN SER GLY ALA CYS SEQRES 2 A 96 SER ALA CYS GLY GLN SER ILE PRO ALA SER GLU LEU VAL SEQRES 3 A 96 MET ARG ALA GLN GLY ASN VAL TYR HIS LEU LYS CYS PHE SEQRES 4 A 96 THR CYS SER THR CYS ARG ASN ARG LEU VAL PRO GLY ASP SEQRES 5 A 96 ARG PHE HIS TYR ILE ASN GLY SER LEU PHE CYS GLU HIS SEQRES 6 A 96 ASP ARG PRO THR ALA LEU ILE ASN GLY GLY SER GLY GLY SEQRES 7 A 96 SER GLY SER ILE ALA PRO PHE PRO GLU ALA ALA LEU PRO SEQRES 8 A 96 THR SER HIS PRO LYS HET ZN A1001 1 HET ZN A1002 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) SHEET 1 A 3 VAL A 107 HIS A 109 0 SHEET 2 A 3 VAL A 100 ARG A 102 -1 N MET A 101 O TYR A 108 SHEET 3 A 3 PRO A 408 GLU A 409 -1 O GLU A 409 N VAL A 100 SHEET 1 B 2 PHE A 128 ILE A 131 0 SHEET 2 B 2 SER A 134 CYS A 137 -1 O PHE A 136 N HIS A 129 LINK SG CYS A 87 ZN ZN A1001 1555 1555 2.31 LINK SG CYS A 90 ZN ZN A1001 1555 1555 2.28 LINK ND1 HIS A 109 ZN ZN A1001 1555 1555 1.99 LINK SG CYS A 112 ZN ZN A1001 1555 1555 2.30 LINK SG CYS A 115 ZN ZN A1002 1555 1555 2.29 LINK SG CYS A 118 ZN ZN A1002 1555 1555 2.28 LINK SG CYS A 137 ZN ZN A1002 1555 1555 2.29 LINK OD2 ASP A 140 ZN ZN A1002 1555 1555 2.01 SITE 1 AC1 4 CYS A 87 CYS A 90 HIS A 109 CYS A 112 SITE 1 AC2 4 CYS A 115 CYS A 118 CYS A 137 ASP A 140 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