2DAR - Header Asymmetric Unit

HEADER METAL BINDING PROTEIN 14-DEC-05 2DAR

TITLE SOLUTION STRUCTURE OF FIRST LIM DOMAIN OF ENIGMA-LIKE PDZ TITLE 2 AND LIM DOMAINS PROTEIN

COMPND MOL_ID: 1; COMPND 2 MOLECULE: PDZ AND LIM DOMAIN PROTEIN 5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIM DOMAIN; COMPND 5 SYNONYM: ENIGMA HOMOLOG, ENIGMA-LIKE PDZ AND LIM DOMAINS COMPND 6 PROTEIN; 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: ENH; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050302-83; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS

KEYWDS LIM DOMAIN, ENIGMA HOMOLOG PROTEIN, STRUCTURAL GENOMICS, KEYWDS 2 NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND KEYWDS 3 FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, METAL BINDING PROTEIN

EXPDTA SOLUTION NMR

NUMMDL 20

AUTHOR T.N.NIRAULA,Y.MUTO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA, AUTHOR 2 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI)

REVDAT 2 24-FEB-09 2DAR 1 VERSN REVDAT 1 12-DEC-06 2DAR 0

JRNL AUTH T.N.NIRAULA,Y.MUTO,S.KOSHIBA,M.INOUE,T.KIGAWA, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF FIRST LIM DOMAIN OF JRNL TITL 2 ENIGMA-LIKE PDZ AND LIM DOMAINS PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 2DAR COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-DEC-05. REMARK 100 THE RCSB ID CODE IS RCSB025193.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.39MM LIM DOMAIN; U-15N, REMARK 210 13C; 20MM D-TRIS-HCL(PH 7.0); REMARK 210 100MM NACL; 1MM D-DTT; 0.02% REMARK 210 NAN3; 0.05MM ZNCL2 ; 1MM IDA; REMARK 210 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE REMARK 210 20030801, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.932, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION, STRUCTURES REMARK 210 WITH THE LEAST 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 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 VAL A 13 107.51 -33.56 REMARK 500 1 PRO A 26 -175.23 -69.73 REMARK 500 1 CYS A 28 170.12 -47.67 REMARK 500 1 PRO A 49 0.94 -69.68 REMARK 500 1 PHE A 52 94.90 -42.71 REMARK 500 1 CYS A 54 171.06 -59.77 REMARK 500 1 LYS A 58 50.96 34.39 REMARK 500 2 GLN A 9 173.66 -56.13 REMARK 500 2 VAL A 13 113.89 -34.57 REMARK 500 2 LYS A 23 -66.63 -126.42 REMARK 500 2 THR A 25 61.58 -116.63 REMARK 500 2 CYS A 28 166.47 -44.75 REMARK 500 2 PHE A 52 106.78 -45.24 REMARK 500 2 CYS A 54 174.62 -50.41 REMARK 500 2 HIS A 56 -63.98 -105.06 REMARK 500 2 MET A 61 41.63 -108.14 REMARK 500 2 ALA A 62 -64.01 -98.70 REMARK 500 2 TYR A 63 36.31 -83.78 REMARK 500 2 ALA A 84 82.59 -67.89 REMARK 500 2 PRO A 87 2.50 -69.77 REMARK 500 3 LEU A 12 -30.84 -36.88 REMARK 500 3 VAL A 13 120.86 -35.82 REMARK 500 3 PRO A 26 -173.02 -69.76 REMARK 500 3 PHE A 52 103.17 -45.25 REMARK 500 3 CYS A 54 171.89 -57.85 REMARK 500 3 HIS A 56 -63.28 -103.25 REMARK 500 3 MET A 61 45.80 -103.32 REMARK 500 3 LYS A 70 45.55 39.64 REMARK 500 3 SER A 85 44.81 -84.04 REMARK 500 4 VAL A 13 126.03 -38.05 REMARK 500 4 ALA A 42 -74.72 -129.67 REMARK 500 4 PHE A 52 99.60 -49.21 REMARK 500 4 CYS A 54 171.69 -58.69 REMARK 500 4 HIS A 56 -60.85 -120.17 REMARK 500 4 LYS A 58 52.86 38.60 REMARK 500 4 TYR A 63 -62.77 -94.26 REMARK 500 4 ILE A 64 177.63 -53.10 REMARK 500 4 PHE A 82 -60.14 -93.03 REMARK 500 5 VAL A 13 119.25 -34.73 REMARK 500 5 LYS A 23 -56.63 -130.60 REMARK 500 5 THR A 25 65.78 -111.19 REMARK 500 5 ALA A 42 -66.41 -130.50 REMARK 500 5 LEU A 43 40.05 -80.69 REMARK 500 5 PHE A 52 96.63 -42.55 REMARK 500 5 HIS A 56 -61.14 -101.45 REMARK 500 5 MET A 61 42.94 -106.85 REMARK 500 5 ILE A 64 170.95 -50.88 REMARK 500 5 LYS A 70 42.25 34.50 REMARK 500 6 VAL A 13 118.40 -34.03 REMARK 500 6 HIS A 18 105.76 -59.37 REMARK 500 6 LYS A 23 -55.19 -133.61 REMARK 500 6 THR A 25 65.97 -117.30 REMARK 500 6 PRO A 26 -165.59 -69.72 REMARK 500 6 HIS A 30 -53.48 -133.03 REMARK 500 6 PRO A 49 2.82 -69.78 REMARK 500 6 PHE A 52 95.34 -43.98 REMARK 500 6 LYS A 81 -63.53 -91.14 REMARK 500 6 PHE A 83 -73.73 -57.93 REMARK 500 6 PRO A 87 3.89 -69.76 REMARK 500 7 CYS A 28 171.12 -48.92 REMARK 500 7 ALA A 42 -75.15 -129.75 REMARK 500 7 PRO A 49 3.08 -69.76 REMARK 500 7 PHE A 52 92.21 -41.58 REMARK 500 7 HIS A 56 -61.41 -101.37 REMARK 500 7 TYR A 63 -63.42 -92.28 REMARK 500 7 ILE A 64 168.90 -48.37 REMARK 500 7 LYS A 70 41.08 37.41 REMARK 500 7 PHE A 82 -60.30 -92.82 REMARK 500 8 ASP A 10 34.84 -85.95 REMARK 500 8 LEU A 12 -37.85 -39.60 REMARK 500 8 VAL A 13 123.06 -33.30 REMARK 500 8 LYS A 23 -56.95 -132.70 REMARK 500 8 ASN A 32 51.74 73.20 REMARK 500 8 HIS A 56 -61.76 -104.67 REMARK 500 8 MET A 61 43.16 -106.74 REMARK 500 8 PHE A 82 -62.57 -96.51 REMARK 500 8 PRO A 87 86.34 -69.74 REMARK 500 9 LEU A 12 -31.25 -35.58 REMARK 500 9 VAL A 13 119.53 -35.12 REMARK 500 9 CYS A 28 160.33 -46.05 REMARK 500 9 HIS A 30 -62.78 -96.17 REMARK 500 9 ARG A 36 30.50 -87.75 REMARK 500 9 PHE A 52 93.67 -46.57 REMARK 500 9 CYS A 54 175.96 -48.35 REMARK 500 9 LYS A 58 36.64 39.87 REMARK 500 9 PRO A 87 90.70 -69.76 REMARK 500 10 VAL A 13 122.30 -37.41 REMARK 500 10 LYS A 23 -37.38 -37.29 REMARK 500 10 PRO A 26 -171.17 -69.77 REMARK 500 10 CYS A 28 165.80 -47.54 REMARK 500 10 PRO A 49 1.20 -69.76 REMARK 500 10 PHE A 52 105.76 -41.51 REMARK 500 10 CYS A 54 178.20 -58.95 REMARK 500 10 HIS A 56 -61.07 -106.77 REMARK 500 10 LYS A 58 47.72 36.86 REMARK 500 10 ILE A 64 170.35 -50.27 REMARK 500 10 ALA A 84 49.70 -75.87 REMARK 500 11 VAL A 13 138.24 -36.79 REMARK 500 11 LYS A 23 -39.84 -36.63 REMARK 500 11 CYS A 28 172.34 -46.09 REMARK 500 11 ARG A 36 51.69 -90.07 REMARK 500 11 LEU A 43 25.60 48.90 REMARK 500 11 PRO A 49 2.58 -69.80 REMARK 500 11 PHE A 52 99.91 -41.93 REMARK 500 11 HIS A 56 -60.39 -102.96 REMARK 500 11 MET A 61 43.79 -104.31 REMARK 500 11 ALA A 84 49.85 -81.49 REMARK 500 12 LEU A 12 -34.73 -37.03 REMARK 500 12 VAL A 13 117.66 -34.22 REMARK 500 12 CYS A 28 166.83 -49.15 REMARK 500 12 HIS A 30 -71.44 -84.42 REMARK 500 12 PRO A 49 5.09 -69.81 REMARK 500 12 PHE A 52 105.02 -41.95 REMARK 500 12 GLU A 76 -38.38 -34.12 REMARK 500 12 PHE A 82 -61.42 -98.13 REMARK 500 12 PHE A 83 -74.66 -59.11 REMARK 500 12 ALA A 84 -75.09 -53.95 REMARK 500 12 SER A 89 40.80 -85.73 REMARK 500 13 PRO A 26 -177.77 -69.78 REMARK 500 13 CYS A 28 171.57 -49.64 REMARK 500 13 ALA A 42 -69.37 -129.77 REMARK 500 13 PHE A 52 94.82 -44.17 REMARK 500 13 HIS A 56 -60.33 -101.84 REMARK 500 13 LYS A 58 48.66 38.50 REMARK 500 13 PHE A 82 -62.27 -92.80 REMARK 500 13 PRO A 87 88.45 -69.78 REMARK 500 14 VAL A 13 124.32 -34.71 REMARK 500 14 PRO A 26 -177.68 -69.82 REMARK 500 14 CYS A 28 171.37 -46.36 REMARK 500 14 ALA A 42 -62.21 -134.79 REMARK 500 14 PHE A 52 90.56 -44.58 REMARK 500 14 CYS A 54 168.29 -46.88 REMARK 500 14 ALA A 84 44.12 -88.26 REMARK 500 15 VAL A 13 117.14 -30.66 REMARK 500 15 ARG A 24 146.72 -171.67 REMARK 500 15 THR A 25 72.37 -118.92 REMARK 500 15 CYS A 28 168.72 -45.57 REMARK 500 15 ALA A 42 -66.22 -132.59 REMARK 500 15 PHE A 52 92.42 -47.48 REMARK 500 15 HIS A 56 -61.61 -100.65 REMARK 500 15 LYS A 58 49.70 39.24 REMARK 500 15 MET A 61 41.03 -102.84 REMARK 500 15 ILE A 64 171.06 -58.86 REMARK 500 15 GLU A 76 -37.64 -35.83 REMARK 500 15 PHE A 82 -63.52 -100.72 REMARK 500 15 PHE A 83 -75.36 -50.36 REMARK 500 16 GLN A 9 167.75 -46.00 REMARK 500 16 VAL A 13 122.48 -33.34 REMARK 500 16 THR A 25 68.49 -115.76 REMARK 500 16 PRO A 26 -174.55 -69.78 REMARK 500 16 CYS A 28 170.61 -45.10 REMARK 500 16 ALA A 42 -63.20 -129.95 REMARK 500 16 PRO A 49 1.15 -69.74 REMARK 500 16 PHE A 52 94.84 -42.84 REMARK 500 16 MET A 61 42.10 -104.30 REMARK 500 16 ILE A 64 171.76 -58.89 REMARK 500 16 GLU A 76 -39.53 -38.24 REMARK 500 16 PHE A 82 -63.30 -91.01 REMARK 500 17 VAL A 13 114.34 -33.72 REMARK 500 17 LYS A 23 -63.35 -126.10 REMARK 500 17 CYS A 28 168.12 -48.64 REMARK 500 17 PHE A 52 94.82 -51.23 REMARK 500 17 LYS A 58 50.65 22.17 REMARK 500 17 MET A 61 41.37 -109.74 REMARK 500 17 GLU A 80 -18.41 -49.59 REMARK 500 17 ALA A 84 -73.96 -50.70 REMARK 500 17 SER A 85 135.67 -37.56 REMARK 500 17 SER A 88 43.46 39.29 REMARK 500 18 VAL A 13 124.69 -34.19 REMARK 500 18 CYS A 28 165.89 -49.77 REMARK 500 18 PHE A 52 97.72 -44.66 REMARK 500 18 LYS A 58 53.45 21.47 REMARK 500 18 GLU A 76 -36.77 -39.32 REMARK 500 18 PHE A 82 -62.03 -91.42 REMARK 500 19 VAL A 13 115.89 -33.83 REMARK 500 19 LYS A 23 -57.41 -127.69 REMARK 500 19 CYS A 28 169.33 -45.63 REMARK 500 19 PHE A 52 93.08 -47.05 REMARK 500 19 CYS A 54 165.65 -45.08 REMARK 500 19 HIS A 56 -65.76 -108.84 REMARK 500 19 MET A 61 45.87 -106.90 REMARK 500 19 TYR A 63 43.61 -98.60 REMARK 500 19 LYS A 70 44.73 38.60 REMARK 500 19 GLU A 76 -36.02 -34.61 REMARK 500 19 PHE A 82 -60.15 -97.53 REMARK 500 19 PRO A 87 0.52 -69.76 REMARK 500 20 SER A 6 116.13 -173.21 REMARK 500 20 LEU A 12 -36.97 -35.94 REMARK 500 20 VAL A 13 125.77 -33.62 REMARK 500 20 PRO A 26 -164.91 -69.83 REMARK 500 20 CYS A 28 170.81 -49.12 REMARK 500 20 HIS A 30 -70.89 -83.40 REMARK 500 20 ARG A 36 37.37 -82.34 REMARK 500 20 PHE A 52 97.20 -45.49 REMARK 500 20 PHE A 82 -62.23 -100.05 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 28 SG REMARK 620 2 CYS A 31 SG 100.4 REMARK 620 3 HIS A 48 ND1 93.0 96.0 REMARK 620 4 GLU A 51 OE1 116.0 130.5 113.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 54 SG REMARK 620 2 CYS A 57 SG 95.4 REMARK 620 3 CYS A 75 SG 118.2 105.5 REMARK 620 4 CYS A 78 SG 117.0 116.0 104.6 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 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401

DBREF 2DAR A 8 84 UNP Q96HC4 PDLI5_HUMAN 399 475

SEQADV 2DAR GLY A 1 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 2 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 3 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR GLY A 4 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 5 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 6 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR GLY A 7 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 85 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR GLY A 86 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR PRO A 87 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 88 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR SER A 89 UNP Q96HC4 CLONING ARTIFACT SEQADV 2DAR GLY A 90 UNP Q96HC4 CLONING ARTIFACT

SEQRES 1 A 90 GLY SER SER GLY SER SER GLY ASP GLN ASP THR LEU VAL SEQRES 2 A 90 GLN ARG ALA GLU HIS ILE PRO ALA GLY LYS ARG THR PRO SEQRES 3 A 90 MET CYS ALA HIS CYS ASN GLN VAL ILE ARG GLY PRO PHE SEQRES 4 A 90 LEU VAL ALA LEU GLY LYS SER TRP HIS PRO GLU GLU PHE SEQRES 5 A 90 ASN CYS ALA HIS CYS LYS ASN THR MET ALA TYR ILE GLY SEQRES 6 A 90 PHE VAL GLU GLU LYS GLY ALA LEU TYR CYS GLU LEU CYS SEQRES 7 A 90 TYR GLU LYS PHE PHE ALA SER GLY PRO SER SER GLY

HET ZN A 201 1 HET ZN A 401 1

HETNAM ZN ZINC ION

FORMUL 2 ZN 2(ZN 2+)

HELIX 1 1 CYS A 75 PHE A 83 1 9

SHEET 1 A 3 GLU A 17 ILE A 19 0 SHEET 2 A 3 PHE A 39 ALA A 42 -1 O PHE A 39 N ILE A 19 SHEET 3 A 3 LYS A 45 TRP A 47 -1 O LYS A 45 N ALA A 42 SHEET 1 B 2 VAL A 67 GLU A 68 0 SHEET 2 B 2 LEU A 73 TYR A 74 -1 O TYR A 74 N VAL A 67

LINK ZN ZN A 201 SG CYS A 28 1555 1555 2.37 LINK ZN ZN A 201 SG CYS A 31 1555 1555 2.37 LINK ZN ZN A 201 ND1 HIS A 48 1555 1555 2.05 LINK ZN ZN A 201 OE1 GLU A 51 1555 1555 2.01 LINK ZN ZN A 401 SG CYS A 54 1555 1555 2.33 LINK ZN ZN A 401 SG CYS A 57 1555 1555 2.33 LINK ZN ZN A 401 SG CYS A 75 1555 1555 2.33 LINK ZN ZN A 401 SG CYS A 78 1555 1555 2.33

SITE 1 AC1 4 CYS A 28 CYS A 31 HIS A 48 GLU A 51 SITE 1 AC2 4 CYS A 54 CYS A 57 CYS A 75 CYS A 78

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