10 20 30 40 50 60 70 80 2DNY - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA BINDING PROTEIN 27-APR-06 2DNY
TITLE SOLUTION STRUCTURE OF THE THIRD RNA BINDING DOMAIN OF FBP- TITLE 2 INTERACTING REPRESSOR, SIAHBP1
COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUSE-BINDING PROTEIN-INTERACTING REPRESSOR, COMPND 3 ISOFORM B; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RNA RECOGNITION MOTIF; 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: SIAHBP1; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050509-16; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS
KEYWDS RNA RECOGNITION MOTIF, RRM, RNA BINDING DOMAIN, RBD, RNP, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, RNA BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR S.SUZUKI,T.NAGATA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, AUTHOR 2 M.SHIROUZU,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 3 INITIATIVE (RSGI)
REVDAT 2 24-FEB-09 2DNY 1 VERSN REVDAT 1 17-APR-07 2DNY 0
JRNL AUTH S.SUZUKI,T.NAGATA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, JRNL AUTH 2 M.SHIROUZU,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE THIRD RNA BINDING DOMAIN JRNL TITL 2 OF FBP-INTERACTING REPRESSOR, SIAHBP1 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 2DNY COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-MAY-06. REMARK 100 THE RCSB ID CODE IS RCSB025636.
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 : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.14MM 13C/15N-PROTEIN; 20MM REMARK 210 D-TRIS-HCL(PH7.0); 100MM NACL; REMARK 210 1MM D-DTT; 0.02% NAN3; 90% REMARK 210 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 20031121, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9321, OLIVIA 1.10.5, REMARK 210 CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYANAMICS, REMARK 210 SIMULATED ANNEALING 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: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY.
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 LEU A 439 42.57 -81.84 REMARK 500 1 PRO A 455 2.01 -69.78 REMARK 500 1 ILE A 458 108.47 -47.57 REMARK 500 1 ALA A 492 -176.16 -51.73 REMARK 500 1 ALA A 514 -63.53 -94.73 REMARK 500 1 ALA A 521 84.82 -51.89 REMARK 500 1 SER A 538 44.53 -98.63 REMARK 500 1 PRO A 545 95.42 -69.78 REMARK 500 2 GLU A 443 138.12 -39.75 REMARK 500 2 ILE A 458 101.48 -55.19 REMARK 500 2 ALA A 521 85.30 -51.85 REMARK 500 2 SER A 538 41.62 -93.95 REMARK 500 3 LYS A 441 36.46 -86.84 REMARK 500 3 GLN A 442 92.06 -56.85 REMARK 500 3 ASN A 451 44.31 70.39 REMARK 500 3 ILE A 458 123.28 -36.52 REMARK 500 3 ALA A 492 -177.85 -50.63 REMARK 500 3 ALA A 521 83.78 -53.24 REMARK 500 3 SER A 538 44.87 -82.29 REMARK 500 3 ASP A 539 51.27 -118.15 REMARK 500 3 LEU A 540 33.84 -95.00 REMARK 500 3 ALA A 542 -71.13 -122.40 REMARK 500 3 SER A 543 -68.23 -101.55 REMARK 500 4 SER A 435 116.81 -37.52 REMARK 500 4 LYS A 437 146.69 -39.95 REMARK 500 4 LEU A 439 88.72 -69.28 REMARK 500 4 GLN A 442 91.25 -52.85 REMARK 500 4 PRO A 455 2.83 -69.78 REMARK 500 4 ILE A 458 100.24 -34.03 REMARK 500 4 ALA A 492 -178.29 -51.68 REMARK 500 4 ALA A 521 98.09 -48.95 REMARK 500 4 SER A 538 45.94 -83.18 REMARK 500 4 SER A 543 94.99 -56.82 REMARK 500 4 PRO A 545 2.87 -69.74 REMARK 500 5 SER A 432 78.13 -117.32 REMARK 500 5 ASN A 451 36.67 73.99 REMARK 500 5 ASP A 454 161.04 -48.62 REMARK 500 5 PRO A 455 1.84 -69.73 REMARK 500 5 ASN A 516 -19.92 -47.61 REMARK 500 5 ALA A 521 85.41 -52.60 REMARK 500 5 GLU A 533 -72.15 -34.59 REMARK 500 5 LEU A 540 30.57 -93.48 REMARK 500 5 SER A 541 -64.45 -121.96 REMARK 500 5 SER A 543 -66.09 -103.70 REMARK 500 6 GLU A 443 173.32 -56.22 REMARK 500 6 ALA A 492 170.68 -56.82 REMARK 500 6 ALA A 521 94.20 -52.95 REMARK 500 6 SER A 538 38.62 -84.08 REMARK 500 6 PRO A 545 96.59 -69.79 REMARK 500 7 LYS A 437 -62.23 -129.37 REMARK 500 7 PRO A 455 1.63 -69.70 REMARK 500 7 GLU A 488 -33.05 -39.30 REMARK 500 7 ALA A 521 86.91 -51.95 REMARK 500 7 PHE A 535 44.64 -78.93 REMARK 500 7 SER A 538 48.15 -79.80 REMARK 500 8 GLN A 442 50.28 -109.96 REMARK 500 8 GLU A 443 -178.30 -69.97 REMARK 500 8 ASN A 451 36.78 71.48 REMARK 500 8 ILE A 458 107.93 -58.53 REMARK 500 8 ALA A 492 161.68 -48.96 REMARK 500 8 ALA A 521 85.06 -52.37 REMARK 500 8 GLU A 533 -39.58 -35.47 REMARK 500 8 PHE A 535 48.86 -75.86 REMARK 500 8 SER A 543 156.50 -39.12 REMARK 500 9 LEU A 439 91.87 -51.69 REMARK 500 9 ILE A 458 118.11 -36.61 REMARK 500 9 ALA A 521 89.13 -51.72 REMARK 500 9 SER A 538 42.10 -81.98 REMARK 500 9 SER A 541 -175.02 -67.01 REMARK 500 10 LYS A 441 94.68 -49.65 REMARK 500 10 GLU A 443 -178.92 -61.17 REMARK 500 10 ASN A 451 43.18 37.38 REMARK 500 10 MET A 452 -65.33 -99.78 REMARK 500 10 ALA A 514 -61.84 -93.62 REMARK 500 10 ALA A 521 85.19 -51.91 REMARK 500 10 ASP A 531 162.65 -44.44 REMARK 500 11 LYS A 437 89.93 -65.61 REMARK 500 11 ARG A 440 155.02 -40.90 REMARK 500 11 PRO A 455 5.35 -69.75 REMARK 500 11 LYS A 472 -70.50 -50.07 REMARK 500 11 GLU A 489 162.22 -49.35 REMARK 500 11 ALA A 511 -36.63 -39.98 REMARK 500 11 ALA A 521 84.90 -52.06 REMARK 500 11 PHE A 535 36.88 -82.86 REMARK 500 11 SER A 538 42.16 -84.23 REMARK 500 11 ASP A 539 105.85 -164.02 REMARK 500 11 LEU A 540 43.96 -88.20 REMARK 500 12 GLU A 443 154.63 -40.38 REMARK 500 12 SER A 444 104.45 -53.74 REMARK 500 12 PRO A 455 2.36 -69.76 REMARK 500 12 ALA A 492 172.65 -53.17 REMARK 500 12 HIS A 509 -39.88 -39.74 REMARK 500 12 ALA A 521 83.85 -52.93 REMARK 500 12 ASP A 531 99.43 -69.54 REMARK 500 12 SER A 538 45.64 -79.35 REMARK 500 12 PRO A 545 -175.67 -69.81 REMARK 500 13 GLU A 443 134.66 -34.97 REMARK 500 13 PRO A 455 2.81 -69.76 REMARK 500 13 GLU A 489 137.17 -38.47 REMARK 500 13 ALA A 521 96.38 -48.89 REMARK 500 13 GLU A 533 -76.41 -31.90 REMARK 500 13 PHE A 535 48.38 -75.64 REMARK 500 13 SER A 538 43.21 -82.22 REMARK 500 13 LEU A 540 43.11 -81.21 REMARK 500 13 ALA A 542 47.13 -85.24 REMARK 500 13 PRO A 545 84.24 -69.73 REMARK 500 13 SER A 547 104.77 -51.28 REMARK 500 14 SER A 432 154.78 -42.20 REMARK 500 14 SER A 435 103.76 -56.08 REMARK 500 14 LEU A 439 40.83 -82.59 REMARK 500 14 LYS A 441 106.42 -43.92 REMARK 500 14 ASN A 451 45.95 37.36 REMARK 500 14 MET A 452 -64.16 -102.46 REMARK 500 14 ASN A 477 -60.67 -90.29 REMARK 500 14 GLU A 488 -28.63 -37.31 REMARK 500 14 ALA A 511 -30.33 -39.90 REMARK 500 14 ALA A 521 84.77 -52.23 REMARK 500 14 PHE A 535 -30.50 -36.14 REMARK 500 14 ASP A 539 78.13 -107.38 REMARK 500 14 SER A 547 -60.95 -93.62 REMARK 500 15 ASN A 451 46.42 71.88 REMARK 500 15 MET A 452 -61.85 -95.11 REMARK 500 15 PRO A 455 2.67 -69.79 REMARK 500 15 ALA A 492 -176.63 -51.03 REMARK 500 15 ALA A 521 89.91 -46.82 REMARK 500 15 ASP A 531 95.26 -33.90 REMARK 500 15 PHE A 535 39.64 -82.21 REMARK 500 15 ALA A 542 33.57 -83.86 REMARK 500 15 PRO A 545 99.20 -69.78 REMARK 500 16 ASN A 451 39.34 34.28 REMARK 500 16 PRO A 455 2.73 -69.78 REMARK 500 16 ILE A 458 99.55 -60.89 REMARK 500 16 GLU A 489 140.55 -34.84 REMARK 500 16 ALA A 492 176.53 -57.97 REMARK 500 16 ALA A 521 90.67 -51.46 REMARK 500 16 PHE A 535 42.62 -80.21 REMARK 500 16 LEU A 540 46.36 -87.39 REMARK 500 16 SER A 541 -60.20 -121.70 REMARK 500 16 ALA A 542 -60.60 -91.09 REMARK 500 17 SER A 435 108.47 -57.42 REMARK 500 17 LYS A 441 144.30 -37.37 REMARK 500 17 MET A 452 -63.93 -102.32 REMARK 500 17 ALA A 492 179.68 -51.85 REMARK 500 17 ALA A 521 87.39 -52.13 REMARK 500 17 PHE A 535 46.54 -77.83 REMARK 500 17 SER A 538 41.45 -81.54 REMARK 500 17 SER A 541 174.06 -58.15 REMARK 500 17 ALA A 542 44.31 -84.93 REMARK 500 17 PRO A 545 1.04 -69.77 REMARK 500 17 SER A 546 166.85 -47.45 REMARK 500 18 SER A 431 90.32 -57.96 REMARK 500 18 LEU A 439 94.68 -69.53 REMARK 500 18 MET A 452 -62.25 -98.17 REMARK 500 18 GLU A 488 -34.92 -34.85 REMARK 500 18 ALA A 521 99.22 -44.87 REMARK 500 18 ARG A 523 119.49 -163.30 REMARK 500 18 ASP A 531 143.42 -36.92 REMARK 500 18 PHE A 535 30.19 -82.40 REMARK 500 18 SER A 541 -70.12 -43.09 REMARK 500 18 PRO A 545 -176.70 -69.77 REMARK 500 19 SER A 435 143.13 -35.54 REMARK 500 19 LEU A 438 32.57 -89.62 REMARK 500 19 SER A 444 102.39 -54.46 REMARK 500 19 MET A 452 -60.93 -94.69 REMARK 500 19 ASP A 454 158.63 -49.68 REMARK 500 19 PRO A 455 1.53 -69.76 REMARK 500 19 ALA A 492 171.74 -59.11 REMARK 500 19 ALA A 521 85.56 -51.29 REMARK 500 19 GLU A 533 -75.07 -39.94 REMARK 500 19 PHE A 535 48.29 -76.04 REMARK 500 19 SER A 538 46.39 -79.01 REMARK 500 20 SER A 432 105.42 -43.96 REMARK 500 20 LEU A 438 100.69 -54.73 REMARK 500 20 PRO A 455 2.41 -69.71 REMARK 500 20 ILE A 458 113.62 -37.00 REMARK 500 20 ASN A 477 -62.00 -102.39 REMARK 500 20 LEU A 515 31.45 -98.54 REMARK 500 20 ALA A 521 89.46 -47.62 REMARK 500 20 SER A 538 42.64 -83.10 REMARK 500 20 LEU A 540 -62.40 -93.52 REMARK 500 REMARK 500 REMARK: NULL
REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002009842.1 RELATED DB: TARGETDB
DBREF 2DNY A 437 542 GB 14250810 AAH08875 437 542
SEQADV 2DNY GLY A 430 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 431 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 432 GB 14250810 CLONING ARTIFACT SEQADV 2DNY GLY A 433 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 434 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 435 GB 14250810 CLONING ARTIFACT SEQADV 2DNY GLY A 436 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 543 GB 14250810 CLONING ARTIFACT SEQADV 2DNY GLY A 544 GB 14250810 CLONING ARTIFACT SEQADV 2DNY PRO A 545 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 546 GB 14250810 CLONING ARTIFACT SEQADV 2DNY SER A 547 GB 14250810 CLONING ARTIFACT SEQADV 2DNY GLY A 548 GB 14250810 CLONING ARTIFACT
SEQRES 1 A 119 GLY SER SER GLY SER SER GLY LYS LEU LEU ARG LYS GLN SEQRES 2 A 119 GLU SER THR VAL MET VAL LEU ARG ASN MET VAL ASP PRO SEQRES 3 A 119 LYS ASP ILE ASP ASP ASP LEU GLU GLY GLU VAL THR GLU SEQRES 4 A 119 GLU CYS GLY LYS PHE GLY ALA VAL ASN ARG VAL ILE ILE SEQRES 5 A 119 TYR GLN GLU LYS GLN GLY GLU GLU GLU ASP ALA GLU ILE SEQRES 6 A 119 ILE VAL LYS ILE PHE VAL GLU PHE SER ILE ALA SER GLU SEQRES 7 A 119 THR HIS LYS ALA ILE GLN ALA LEU ASN GLY ARG TRP PHE SEQRES 8 A 119 ALA GLY ARG LYS VAL VAL ALA GLU VAL TYR ASP GLN GLU SEQRES 9 A 119 ARG PHE ASP ASN SER ASP LEU SER ALA SER GLY PRO SER SEQRES 10 A 119 SER GLY
HELIX 1 1 ASP A 461 CYS A 470 1 10 HELIX 2 2 ALA A 505 ALA A 514 1 10
SHEET 1 A 4 VAL A 476 LYS A 485 0 SHEET 2 A 4 ILE A 494 PHE A 502 -1 O PHE A 499 N ILE A 480 SHEET 3 A 4 VAL A 446 ARG A 450 -1 N MET A 447 O VAL A 500 SHEET 4 A 4 VAL A 526 VAL A 529 -1 O GLU A 528 N VAL A 448 SHEET 1 B 2 TRP A 519 PHE A 520 0 SHEET 2 B 2 ARG A 523 LYS A 524 -1 O ARG A 523 N PHE A 520
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