10 20 30 40 50 60 70 80 1YSE - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA BINDING PROTEIN 08-FEB-05 1YSE
TITLE SOLUTION STRUCTURE OF THE MAR-BINDING DOMAIN OF SATB1
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN SATB1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MAR-BINDING DOMAIN; COMPND 5 SYNONYM: SPECIAL AT-RICH SEQUENCE BINDING 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: SATB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B
KEYWDS ALL HELICAL, DNA-BINDING DOMAIN, T-CELL DEVELOPMENT, DNA KEYWDS 2 BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR K.YAMASAKI,H.YAMAGUCHI
REVDAT 4 24-FEB-09 1YSE 1 VERSN REVDAT 3 28-FEB-06 1YSE 1 JRNL REVDAT 2 17-JAN-06 1YSE 1 JRNL REVDAT 1 03-JAN-06 1YSE 0
JRNL AUTH H.YAMAGUCHI,M.TATENO,K.YAMASAKI JRNL TITL SOLUTION STRUCTURE AND DNA-BINDING MODE OF THE JRNL TITL 2 MATRIX ATTACHMENT REGION-BINDING DOMAIN OF THE JRNL TITL 3 TRANSCRIPTION FACTOR SATB1 THAT REGULATES THE JRNL TITL 4 T-CELL MATURATION JRNL REF J.BIOL.CHEM. V. 281 5319 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16371359 JRNL DOI 10.1074/JBC.M510933200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 1184 RESTRAINTS: 989 NOE-DERIVED DISTANCE CONSTRAINTS, 109 REMARK 3 DIHEDRAL ANGLE RESTRAINTS,AND 86 DISTANCE RESTRAINTS FROM REMARK 3 HYDROGEN BONDS.
REMARK 4 REMARK 4 1YSE COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-FEB-05. REMARK 100 THE RCSB ID CODE IS RCSB031876.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 50MM PHOSPHATE BUFFER REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1MM SATB1 MAR-BINDING DOMAIN, REMARK 210 50MM PHOSPHATE BUFFER NA; 95% REMARK 210 H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, 3D_13C- REMARK 210 SEPARATED_NOESY, 3D_15N- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ, 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, FELIX 2000, CNS REMARK 210 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 350 REMARK 465 SER A 351 REMARK 465 HIS A 352 REMARK 465 VAL A 353 REMARK 465 SER A 354 REMARK 465 ARG A 355 REMARK 465 SER A 356 REMARK 465 MET A 357 REMARK 465 ASN A 358 REMARK 465 LYS A 359 REMARK 465 PRO A 360 REMARK 465 LEU A 361 REMARK 465 GLU A 362 REMARK 465 GLN A 363 REMARK 465 GLN A 364 REMARK 465 VAL A 365 REMARK 465 SER A 366 REMARK 465 THR A 367 REMARK 465 SER A 456 REMARK 465 ALA A 457 REMARK 465 MET A 458 REMARK 465 GLY A 459 REMARK 465 PRO A 460 REMARK 465 ALA A 461 REMARK 465 PRO A 462 REMARK 465 LEU A 463 REMARK 465 ILE A 464 REMARK 465 SER A 465 REMARK 465 THR A 466 REMARK 465 PRO A 467 REMARK 465 PRO A 468 REMARK 465 SER A 469 REMARK 465 ARG A 470 REMARK 465 PRO A 471 REMARK 465 PRO A 472 REMARK 465 GLN A 473 REMARK 465 VAL A 474 REMARK 465 LYS A 475 REMARK 465 THR A 476 REMARK 465 ALA A 477 REMARK 465 THR A 478 REMARK 465 ILE A 479 REMARK 465 ALA A 480 REMARK 465 THR A 481 REMARK 465 GLU A 482 REMARK 465 ARG A 483 REMARK 465 ASN A 484 REMARK 465 GLY A 485 REMARK 465 LYS A 486 REMARK 465 PRO A 487 REMARK 465 GLU A 488 REMARK 465 ASN A 489 REMARK 465 ASN A 490
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 THR A 369 30.99 -145.97 REMARK 500 1 PHE A 398 89.26 -154.92 REMARK 500 1 ARG A 400 -72.14 -161.91 REMARK 500 1 ASP A 446 104.46 -59.23 REMARK 500 1 GLU A 447 -46.48 -131.14 REMARK 500 1 ARG A 450 52.70 -90.63 REMARK 500 1 SER A 451 106.01 -59.51 REMARK 500 2 THR A 369 -52.83 -151.10 REMARK 500 2 PHE A 398 111.38 -166.98 REMARK 500 2 GLU A 447 -46.87 -152.31 REMARK 500 3 ALA A 397 -72.24 -67.86 REMARK 500 3 ARG A 400 -74.62 -143.92 REMARK 500 3 GLU A 447 -43.46 -167.03 REMARK 500 4 THR A 369 31.04 -156.21 REMARK 500 4 ASN A 399 93.87 -59.60 REMARK 500 4 GLU A 413 98.63 -64.19 REMARK 500 4 ASP A 446 93.12 -59.58 REMARK 500 4 GLU A 447 -49.95 -153.16 REMARK 500 5 ALA A 397 -72.35 -66.13 REMARK 500 5 ARG A 400 -70.92 -154.24 REMARK 500 5 SER A 419 -178.17 -65.66 REMARK 500 5 ASP A 446 -174.32 -64.16 REMARK 500 6 ALA A 397 -76.11 -85.06 REMARK 500 6 ARG A 400 -70.22 -154.17 REMARK 500 6 ASN A 453 -59.08 -131.72 REMARK 500 7 ASN A 399 99.75 -56.33 REMARK 500 7 ARG A 400 -168.07 -169.39 REMARK 500 7 GLU A 449 -165.40 -60.91 REMARK 500 7 LEU A 452 36.76 -163.41 REMARK 500 8 THR A 369 160.27 59.75 REMARK 500 8 ASN A 399 109.08 -59.59 REMARK 500 8 THR A 417 32.17 -147.02 REMARK 500 8 GLU A 447 116.42 61.96 REMARK 500 9 ARG A 400 -71.37 -135.87 REMARK 500 9 SER A 451 -71.43 -54.43 REMARK 500 9 LEU A 452 90.17 -160.86 REMARK 500 10 ALA A 397 -70.29 -84.74 REMARK 500 10 ARG A 400 -172.45 -170.10 REMARK 500 10 ARG A 450 -74.51 -87.57 REMARK 500 10 ALA A 454 76.39 -100.09 REMARK 500 11 ARG A 400 -65.94 -159.59 REMARK 500 11 ARG A 450 30.76 -97.80 REMARK 500 11 LEU A 452 30.67 -143.20 REMARK 500 12 ARG A 400 -65.35 -146.21 REMARK 500 12 ASP A 446 30.67 -97.50 REMARK 500 12 ARG A 448 81.52 -64.41 REMARK 500 12 ALA A 454 -64.06 -90.97 REMARK 500 13 ARG A 400 -70.11 -141.92 REMARK 500 13 PRO A 415 46.49 -83.70 REMARK 500 13 ASN A 453 -73.62 -141.80 REMARK 500 14 ALA A 397 -76.48 -79.35 REMARK 500 14 ARG A 400 -65.32 -145.18 REMARK 500 14 ARG A 450 44.76 -100.12 REMARK 500 14 SER A 451 101.85 -58.48 REMARK 500 14 LEU A 452 -48.70 -143.06 REMARK 500 15 ASN A 399 97.49 -68.61 REMARK 500 15 ARG A 400 -70.67 -142.07 REMARK 500 15 ALA A 418 176.38 -55.58 REMARK 500 15 ASN A 453 -64.18 -100.27 REMARK 500 16 THR A 369 -63.32 -137.05 REMARK 500 16 ARG A 400 -69.38 -147.35 REMARK 500 16 ALA A 418 173.04 -53.78 REMARK 500 16 ARG A 448 30.84 -98.84 REMARK 500 16 GLU A 449 -62.49 -95.46 REMARK 500 16 ARG A 450 31.84 -99.88 REMARK 500 17 ALA A 397 -73.85 -77.40 REMARK 500 17 ARG A 400 -66.19 -132.77 REMARK 500 17 ASP A 446 71.05 -68.64 REMARK 500 17 SER A 451 -169.71 -65.56 REMARK 500 17 ALA A 454 37.89 -97.69 REMARK 500 18 ARG A 400 -67.00 -136.37 REMARK 500 18 ALA A 418 -169.34 -100.06 REMARK 500 18 ASP A 446 77.01 -66.28 REMARK 500 18 GLU A 447 148.05 -177.89 REMARK 500 18 ARG A 448 -76.42 -61.59 REMARK 500 18 ARG A 450 -64.74 -98.98 REMARK 500 18 SER A 451 -66.53 -99.97 REMARK 500 19 THR A 369 142.49 -173.04 REMARK 500 19 SER A 372 -177.63 -62.78 REMARK 500 19 ALA A 397 -70.80 -72.27 REMARK 500 19 ASN A 399 96.54 -60.34 REMARK 500 19 PRO A 415 47.36 -83.49 REMARK 500 19 ARG A 448 78.74 -65.53 REMARK 500 19 SER A 451 43.71 -95.52 REMARK 500 20 ARG A 400 -65.90 -151.29 REMARK 500 REMARK 500 REMARK: NULL
DBREF 1YSE A 353 490 UNP Q01826 SATB1_HUMAN 353 490
SEQADV 1YSE GLY A 350 UNP Q01826 CLONING ARTIFACT SEQADV 1YSE SER A 351 UNP Q01826 CLONING ARTIFACT SEQADV 1YSE HIS A 352 UNP Q01826 CLONING ARTIFACT
SEQRES 1 A 141 GLY SER HIS VAL SER ARG SER MET ASN LYS PRO LEU GLU SEQRES 2 A 141 GLN GLN VAL SER THR ASN THR GLU VAL SER SER GLU ILE SEQRES 3 A 141 TYR GLN TRP VAL ARG ASP GLU LEU LYS ARG ALA GLY ILE SEQRES 4 A 141 SER GLN ALA VAL PHE ALA ARG VAL ALA PHE ASN ARG THR SEQRES 5 A 141 GLN GLY LEU LEU SER GLU ILE LEU ARG LYS GLU GLU ASP SEQRES 6 A 141 PRO LYS THR ALA SER GLN SER LEU LEU VAL ASN LEU ARG SEQRES 7 A 141 ALA MET GLN ASN PHE LEU GLN LEU PRO GLU ALA GLU ARG SEQRES 8 A 141 ASP ARG ILE TYR GLN ASP GLU ARG GLU ARG SER LEU ASN SEQRES 9 A 141 ALA ALA SER ALA MET GLY PRO ALA PRO LEU ILE SER THR SEQRES 10 A 141 PRO PRO SER ARG PRO PRO GLN VAL LYS THR ALA THR ILE SEQRES 11 A 141 ALA THR GLU ARG ASN GLY LYS PRO GLU ASN ASN
HELIX 1 1 SER A 373 GLY A 387 1 15 HELIX 2 2 SER A 389 PHE A 398 1 10 HELIX 3 3 GLY A 403 GLU A 412 1 10 HELIX 4 4 ASP A 414 ALA A 418 5 5 HELIX 5 5 SER A 419 LEU A 435 1 17 HELIX 6 6 PRO A 436 ASP A 446 1 11
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