10 20 30 40 50 60 70 80 2DH8 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA BINDING PROTEIN 23-MAR-06 2DH8
TITLE SOLUTION STRUCTURE OF THE N-TERMINAL RNA BINDING DOMAIN IN TITLE 2 DAZ-ASSOCIATED PROTEIN 1
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DAZ-ASSOCIATED PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RNA RECOGNITION MOTIF; COMPND 5 SYNONYM: DELETED IN AZOOSPERMIA-ASSOCIATED PROTEIN 1; COMPND 6 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: DAZAP1; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050704-07; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS
KEYWDS RRM DOMAIN, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT KEYWDS 2 ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, RNA KEYWDS 4 BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR S.ARAI,K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 3 (RSGI)
REVDAT 2 24-FEB-09 2DH8 1 VERSN REVDAT 1 23-SEP-06 2DH8 0
JRNL AUTH S.ARAI,K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, JRNL AUTH 2 M.SHIROUZU,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE N-TERMINAL RNA BINDING JRNL TITL 2 DOMAIN IN DAZ-ASSOCIATED PROTEIN 1 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 REMARK 3 AUTHORS : GUNTERT,P REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2DH8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAR-06. REMARK 100 THE RCSB ID CODE IS RCSB025416.
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 : 100MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 20MM D-TRIS-HCL(PH 7.0), REMARK 210 100MM NACL, 1MM D-DTT, 0.02% REMARK 210 NAN3, 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 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINTED MOLECULAR 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 LOWEST ENERGY, REMARK 210 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 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 -4 -60.73 -95.77 REMARK 500 1 SER A 4 -60.73 -102.16 REMARK 500 1 ALA A 6 86.73 -64.12 REMARK 500 1 TRP A 19 -35.25 -37.15 REMARK 500 1 THR A 21 135.10 -39.42 REMARK 500 1 GLU A 35 101.28 -53.61 REMARK 500 1 SER A 50 99.64 -49.49 REMARK 500 1 PRO A 72 -177.85 -69.81 REMARK 500 1 THR A 74 105.01 -160.46 REMARK 500 1 PRO A 84 2.56 -69.78 REMARK 500 1 ARG A 88 165.43 -44.35 REMARK 500 1 SER A 96 100.54 -39.45 REMARK 500 2 SER A -5 42.81 -104.74 REMARK 500 2 SER A -1 107.55 -160.88 REMARK 500 2 ASN A 3 119.70 -163.08 REMARK 500 2 ASP A 7 -62.30 -129.67 REMARK 500 2 THR A 21 134.90 -39.86 REMARK 500 2 GLU A 35 99.22 -54.41 REMARK 500 2 SER A 50 97.39 -51.69 REMARK 500 2 PRO A 61 2.60 -69.82 REMARK 500 2 ARG A 71 155.53 -49.85 REMARK 500 2 PRO A 72 -177.86 -69.80 REMARK 500 2 THR A 74 106.06 -162.62 REMARK 500 2 SER A 93 137.50 -34.63 REMARK 500 3 SER A -2 42.15 -95.47 REMARK 500 3 ALA A 6 43.72 -99.80 REMARK 500 3 GLU A 8 35.73 -93.83 REMARK 500 3 THR A 21 140.78 -34.85 REMARK 500 3 GLU A 35 100.91 -52.38 REMARK 500 3 THR A 46 -70.90 -119.01 REMARK 500 3 SER A 50 99.53 -40.52 REMARK 500 3 PRO A 61 2.22 -69.79 REMARK 500 3 ARG A 71 153.51 -40.15 REMARK 500 3 PRO A 72 -176.48 -69.76 REMARK 500 3 PRO A 92 3.18 -69.72 REMARK 500 3 SER A 93 118.80 -33.30 REMARK 500 3 SER A 96 106.72 -171.69 REMARK 500 4 ASN A 3 176.67 -51.36 REMARK 500 4 LEU A 17 177.70 -50.54 REMARK 500 4 THR A 21 132.52 -34.91 REMARK 500 4 GLU A 35 99.67 -54.09 REMARK 500 4 SER A 50 97.60 -43.10 REMARK 500 4 PRO A 61 0.30 -69.71 REMARK 500 4 ARG A 71 154.53 -45.17 REMARK 500 4 PRO A 72 -177.34 -69.79 REMARK 500 4 THR A 74 109.46 -163.04 REMARK 500 5 SER A -4 42.12 -84.18 REMARK 500 5 SER A -2 -49.03 -134.52 REMARK 500 5 GLU A 8 37.20 -92.96 REMARK 500 5 THR A 21 140.02 -37.77 REMARK 500 5 GLU A 35 99.95 -52.90 REMARK 500 5 SER A 50 102.85 -45.94 REMARK 500 5 PRO A 72 -178.16 -69.77 REMARK 500 5 THR A 74 106.74 -161.98 REMARK 500 6 SER A -5 112.91 -166.26 REMARK 500 6 ALA A 6 -34.72 -133.96 REMARK 500 6 TRP A 19 -36.18 -39.44 REMARK 500 6 THR A 21 134.96 -34.64 REMARK 500 6 GLU A 35 99.32 -54.04 REMARK 500 6 ASN A 48 26.03 38.71 REMARK 500 6 SER A 50 123.96 -34.16 REMARK 500 6 PRO A 61 3.07 -69.70 REMARK 500 6 ARG A 71 155.65 -42.52 REMARK 500 6 PRO A 72 -177.22 -69.82 REMARK 500 6 THR A 74 113.19 -164.54 REMARK 500 6 ARG A 88 155.63 -40.84 REMARK 500 6 PRO A 92 88.76 -69.78 REMARK 500 6 SER A 93 89.73 -55.88 REMARK 500 7 SER A 4 114.57 -38.08 REMARK 500 7 ALA A 6 40.62 -87.63 REMARK 500 7 THR A 21 137.57 -38.80 REMARK 500 7 GLU A 35 100.48 -54.27 REMARK 500 7 SER A 50 101.10 -48.04 REMARK 500 7 ARG A 71 155.64 -42.01 REMARK 500 7 PRO A 72 -176.75 -69.81 REMARK 500 7 ARG A 88 151.26 -44.46 REMARK 500 8 SER A -2 40.85 -107.39 REMARK 500 8 GLU A 8 31.81 -97.79 REMARK 500 8 THR A 21 139.32 -39.90 REMARK 500 8 GLU A 35 100.83 -54.39 REMARK 500 8 THR A 46 -63.47 -93.30 REMARK 500 8 SER A 50 108.17 -50.68 REMARK 500 8 PRO A 72 -175.22 -69.81 REMARK 500 8 PRO A 92 99.57 -69.76 REMARK 500 8 SER A 96 109.33 -58.91 REMARK 500 9 SER A -5 44.92 35.18 REMARK 500 9 ASN A 2 112.26 -163.26 REMARK 500 9 THR A 21 134.52 -34.59 REMARK 500 9 GLU A 35 98.81 -55.52 REMARK 500 9 SER A 50 97.76 -35.30 REMARK 500 9 PRO A 61 2.30 -69.77 REMARK 500 9 ARG A 71 151.34 -36.07 REMARK 500 9 PRO A 72 -176.04 -69.70 REMARK 500 9 PRO A 84 3.02 -69.80 REMARK 500 9 ARG A 88 116.42 -34.55 REMARK 500 9 SER A 93 42.51 38.70 REMARK 500 9 SER A 96 42.10 37.42 REMARK 500 10 SER A 4 136.28 -174.30 REMARK 500 10 ALA A 6 33.76 -87.65 REMARK 500 10 THR A 21 136.90 -38.75 REMARK 500 10 GLU A 35 99.41 -52.51 REMARK 500 10 SER A 50 102.54 -48.82 REMARK 500 10 PRO A 61 2.15 -69.83 REMARK 500 10 ARG A 71 153.90 -42.46 REMARK 500 10 PRO A 72 -177.05 -69.75 REMARK 500 10 THR A 74 109.85 -161.04 REMARK 500 11 SER A -5 42.19 -108.38 REMARK 500 11 SER A 4 -70.14 -43.14 REMARK 500 11 ALA A 6 36.06 -86.51 REMARK 500 11 TYR A 29 -38.96 -37.08 REMARK 500 11 GLU A 35 99.56 -54.74 REMARK 500 11 SER A 50 94.47 -49.24 REMARK 500 11 LYS A 59 -39.70 -39.06 REMARK 500 11 PRO A 61 2.63 -69.77 REMARK 500 11 ARG A 71 156.00 -46.43 REMARK 500 11 PRO A 72 -177.18 -69.79 REMARK 500 11 CYS A 85 31.24 74.78 REMARK 500 11 PRO A 87 -179.09 -69.75 REMARK 500 12 ASN A 3 101.07 -52.76 REMARK 500 12 SER A 4 105.04 -161.17 REMARK 500 12 ALA A 6 95.32 -67.78 REMARK 500 12 THR A 21 131.62 -33.74 REMARK 500 12 GLU A 35 99.90 -53.82 REMARK 500 12 ASP A 44 170.21 -55.44 REMARK 500 12 SER A 50 97.06 -48.07 REMARK 500 12 ARG A 71 151.61 -43.95 REMARK 500 12 PRO A 72 -177.35 -69.80 REMARK 500 12 PRO A 92 88.01 -69.79 REMARK 500 12 SER A 96 41.36 -95.62 REMARK 500 13 ALA A 6 52.63 -112.83 REMARK 500 13 THR A 21 135.79 -36.54 REMARK 500 13 GLU A 35 100.34 -54.18 REMARK 500 13 ASP A 44 171.89 -53.68 REMARK 500 13 THR A 46 -60.31 -124.94 REMARK 500 13 SER A 50 107.24 -49.86 REMARK 500 13 PRO A 61 1.23 -69.78 REMARK 500 13 ARG A 71 156.61 -45.43 REMARK 500 13 PRO A 72 -178.35 -69.77 REMARK 500 13 THR A 74 107.73 -165.49 REMARK 500 13 PRO A 84 2.99 -69.75 REMARK 500 14 ALA A 6 47.86 -105.36 REMARK 500 14 GLU A 8 30.01 -93.94 REMARK 500 14 THR A 21 143.48 -34.02 REMARK 500 14 GLU A 35 106.89 -52.00 REMARK 500 14 SER A 50 105.37 -41.52 REMARK 500 14 ARG A 71 152.59 -49.11 REMARK 500 14 PRO A 72 -175.78 -69.80 REMARK 500 14 THR A 74 106.05 -165.07 REMARK 500 14 PRO A 84 3.19 -69.78 REMARK 500 15 ASN A 2 119.80 -36.85 REMARK 500 15 ALA A 6 55.37 -95.47 REMARK 500 15 GLU A 35 101.89 -51.97 REMARK 500 15 ASP A 44 172.00 -49.00 REMARK 500 15 ASN A 48 25.02 41.91 REMARK 500 15 ARG A 71 149.51 -35.95 REMARK 500 15 PRO A 72 -175.85 -69.75 REMARK 500 15 THR A 74 109.96 -161.99 REMARK 500 15 PRO A 84 2.97 -69.76 REMARK 500 15 PRO A 95 0.55 -69.72 REMARK 500 16 SER A -1 174.26 -49.82 REMARK 500 16 ASN A 2 -50.63 -128.16 REMARK 500 16 SER A 4 119.09 -160.07 REMARK 500 16 THR A 21 141.44 -36.74 REMARK 500 16 GLU A 35 100.75 -54.03 REMARK 500 16 ASP A 38 117.98 -172.25 REMARK 500 16 ASP A 44 168.79 -44.17 REMARK 500 16 THR A 46 -64.59 -98.18 REMARK 500 16 SER A 50 96.39 -42.01 REMARK 500 16 ARG A 71 156.42 -41.21 REMARK 500 16 PRO A 72 -178.22 -69.86 REMARK 500 16 ARG A 88 150.36 -43.17 REMARK 500 16 PRO A 92 3.26 -69.78 REMARK 500 16 SER A 97 -73.40 -67.71 REMARK 500 17 SER A -1 42.69 -85.68 REMARK 500 17 GLU A 35 102.70 -51.53 REMARK 500 17 ASN A 48 42.34 33.61 REMARK 500 17 GLN A 49 -69.83 -102.30 REMARK 500 17 SER A 50 111.37 -177.02 REMARK 500 17 PRO A 61 2.66 -69.82 REMARK 500 17 ARG A 71 150.25 -38.33 REMARK 500 17 PRO A 72 -175.30 -69.77 REMARK 500 17 THR A 74 113.13 -166.12 REMARK 500 17 MET A 90 97.45 -67.21 REMARK 500 18 SER A -1 43.53 35.75 REMARK 500 18 THR A 21 135.72 -33.94 REMARK 500 18 GLU A 35 100.47 -55.07 REMARK 500 18 SER A 50 102.21 -52.29 REMARK 500 18 PRO A 61 2.07 -69.71 REMARK 500 18 ARG A 71 153.33 -45.53 REMARK 500 18 SER A 97 173.04 -58.40 REMARK 500 19 SER A -4 41.10 71.05 REMARK 500 19 THR A 21 137.69 -36.87 REMARK 500 19 GLU A 35 99.95 -53.80 REMARK 500 19 THR A 46 -71.93 -109.72 REMARK 500 19 SER A 50 101.59 -35.85 REMARK 500 19 ARG A 71 157.97 -48.49 REMARK 500 19 PRO A 72 -177.86 -69.68 REMARK 500 19 MET A 90 81.58 -69.85 REMARK 500 20 SER A -1 116.23 -39.82 REMARK 500 20 SER A 4 41.90 -81.35 REMARK 500 20 ASP A 7 -74.85 -132.46 REMARK 500 20 THR A 21 132.40 -34.80 REMARK 500 20 GLU A 35 99.80 -55.10 REMARK 500 20 THR A 46 -65.08 -126.92 REMARK 500 20 SER A 50 98.07 -34.51 REMARK 500 20 ARG A 71 154.00 -35.83 REMARK 500 20 PRO A 72 -176.87 -69.76 REMARK 500 20 SER A 96 84.78 -69.09 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002012495.1 RELATED DB: TARGETDB
DBREF 2DH8 A 1 92 UNP Q96EP5 DAZP1_HUMAN 1 92
SEQADV 2DH8 GLY A -6 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A -5 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A -4 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 GLY A -3 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A -2 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A -1 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 GLY A 0 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A 93 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 GLY A 94 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 PRO A 95 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A 96 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 SER A 97 UNP Q96EP5 CLONING ARTIFACT SEQADV 2DH8 GLY A 98 UNP Q96EP5 CLONING ARTIFACT
SEQRES 1 A 105 GLY SER SER GLY SER SER GLY MET ASN ASN SER GLY ALA SEQRES 2 A 105 ASP GLU ILE GLY LYS LEU PHE VAL GLY GLY LEU ASP TRP SEQRES 3 A 105 SER THR THR GLN GLU THR LEU ARG SER TYR PHE SER GLN SEQRES 4 A 105 TYR GLY GLU VAL VAL ASP CYS VAL ILE MET LYS ASP LYS SEQRES 5 A 105 THR THR ASN GLN SER ARG GLY PHE GLY PHE VAL LYS PHE SEQRES 6 A 105 LYS ASP PRO ASN CYS VAL GLY THR VAL LEU ALA SER ARG SEQRES 7 A 105 PRO HIS THR LEU ASP GLY ARG ASN ILE ASP PRO LYS PRO SEQRES 8 A 105 CYS THR PRO ARG GLY MET GLN PRO SER GLY PRO SER SER SEQRES 9 A 105 GLY
HELIX 1 1 THR A 22 GLN A 32 1 11 HELIX 2 2 ASN A 62 ARG A 71 1 10
SHEET 1 A 3 LYS A 11 LEU A 12 0 SHEET 2 A 3 SER A 50 PHE A 58 -1 O VAL A 56 N LEU A 12 SHEET 3 A 3 VAL A 36 LYS A 43 -1 N ASP A 38 O LYS A 57 SHEET 1 B 2 HIS A 73 LEU A 75 0 SHEET 2 B 2 ARG A 78 ILE A 80 -1 O ARG A 78 N LEU A 75
CISPEP 1 ARG A 71 PRO A 72 1 0.05 CISPEP 2 ARG A 71 PRO A 72 2 0.05 CISPEP 3 ARG A 71 PRO A 72 3 0.02 CISPEP 4 ARG A 71 PRO A 72 4 0.00 CISPEP 5 ARG A 71 PRO A 72 5 0.00 CISPEP 6 ARG A 71 PRO A 72 6 0.09 CISPEP 7 ARG A 71 PRO A 72 7 0.06 CISPEP 8 ARG A 71 PRO A 72 8 0.02 CISPEP 9 ARG A 71 PRO A 72 9 -0.06 CISPEP 10 ARG A 71 PRO A 72 10 -0.04 CISPEP 11 ARG A 71 PRO A 72 11 0.02 CISPEP 12 ARG A 71 PRO A 72 12 0.08 CISPEP 13 ARG A 71 PRO A 72 13 -0.01 CISPEP 14 ARG A 71 PRO A 72 14 0.03 CISPEP 15 ARG A 71 PRO A 72 15 -0.06 CISPEP 16 ARG A 71 PRO A 72 16 0.08 CISPEP 17 ARG A 71 PRO A 72 17 0.05 CISPEP 18 ARG A 71 PRO A 72 18 0.03 CISPEP 19 ARG A 71 PRO A 72 19 -0.07 CISPEP 20 ARG A 71 PRO A 72 20 0.00
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