HEADER TRANSCRIPTION 16-JUL-10 3NZL TITLE CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF DNA-BINDING PROTEIN TITLE 2 SATB1 FROM HOMO SAPIENS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TITLE 3 TARGET HR4435B COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN SATB1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 179-250; 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+ MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET 14-15C KEYWDS ALPHA-HELICAL DOMAIN, STRUCTURAL GENOMICS, PSI-BIOLOGY, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 NESG, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR F.FOROUHAR,M.ABASHIDZE,J.SEETHARAMAN,A.P.KUZIN,P.PATEL,R.XIAO, AUTHOR 2 C.CICCOSANTI,R.SHASTRY,J.K.EVERETT,R.NAIR,T.B.ACTON,B.ROST, AUTHOR 3 G.T.MONTELIONE,J.F.HUNT,L.TONG,NORTHEAST STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (NESG) REVDAT 3 17-JUL-19 3NZL 1 REMARK LINK REVDAT 2 22-FEB-12 3NZL 1 VERSN KEYWDS REVDAT 1 22-SEP-10 3NZL 0 JRNL AUTH F.FOROUHAR,M.ABASHIDZE,J.SEETHARAMAN,A.P.KUZIN,P.PATEL, JRNL AUTH 2 R.XIAO,C.CICCOSANTI,R.SHASTRY,J.K.EVERETT,R.NAIR,T.B.ACTON, JRNL AUTH 3 B.ROST,G.T.MONTELIONE,J.F.HUNT,L.TONG JRNL TITL CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF DNA-BINDING JRNL TITL 2 PROTEIN SATB1 FROM HOMO SAPIENS, NORTHEAST STRUCTURAL JRNL TITL 3 GENOMICS CONSORTIUM TARGET HR4435B (CASP TARGET) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 19319 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.890 REMARK 3 FREE R VALUE TEST SET COUNT : 3552 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 22.6354 - 3.5024 0.75 1024 118 0.2091 0.1993 REMARK 3 2 3.5024 - 2.7816 0.92 1263 137 0.1607 0.1960 REMARK 3 3 2.7816 - 2.4304 0.95 1313 137 0.1582 0.1638 REMARK 3 4 2.4304 - 2.2084 0.94 1294 139 0.1582 0.2164 REMARK 3 5 2.2084 - 2.0503 0.97 1327 135 0.1331 0.1710 REMARK 3 6 2.0503 - 1.9294 0.96 1315 151 0.1358 0.1596 REMARK 3 7 1.9294 - 1.8329 0.98 1316 149 0.1479 0.1874 REMARK 3 8 1.8329 - 1.7531 0.98 1346 142 0.1401 0.1547 REMARK 3 9 1.7531 - 1.6856 0.98 1342 154 0.1342 0.1694 REMARK 3 10 1.6856 - 1.6275 0.98 1336 151 0.1270 0.1528 REMARK 3 11 1.6275 - 1.5766 0.98 1332 154 0.1233 0.1732 REMARK 3 12 1.5766 - 1.5316 0.97 1335 152 0.1155 0.1500 REMARK 3 13 1.5316 - 1.4912 0.97 1332 133 0.1313 0.1532 REMARK 3 14 1.4912 - 1.4549 0.96 1305 151 0.1289 0.1605 REMARK 3 15 1.4549 - 1.4218 0.96 1317 139 0.1189 0.1514 REMARK 3 16 1.4218 - 1.3915 0.97 1351 156 0.1293 0.1652 REMARK 3 17 1.3915 - 1.3637 0.96 1284 132 0.1251 0.1389 REMARK 3 18 1.3637 - 1.3380 0.95 1326 153 0.1280 0.1533 REMARK 3 19 1.3380 - 1.3141 0.97 1310 139 0.1299 0.1871 REMARK 3 20 1.3141 - 1.2918 0.92 1264 145 0.1455 0.1873 REMARK 3 21 1.2918 - 1.2710 0.93 1299 135 0.1383 0.1622 REMARK 3 22 1.2710 - 1.2514 0.92 1233 121 0.1438 0.2560 REMARK 3 23 1.2514 - 1.2330 0.94 1307 151 0.1437 0.1720 REMARK 3 24 1.2330 - 1.2157 0.90 1217 132 0.1525 0.2057 REMARK 3 25 1.2157 - 1.1992 0.92 1270 146 0.1383 0.1700 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.40 REMARK 3 SHRINKAGE RADIUS : 0.17 REMARK 3 K_SOL : 0.60 REMARK 3 B_SOL : 60.31 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.090 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.000 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.27350 REMARK 3 B22 (A**2) : 0.09910 REMARK 3 B33 (A**2) : -0.37270 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 607 REMARK 3 ANGLE : 1.219 819 REMARK 3 CHIRALITY : 0.070 87 REMARK 3 PLANARITY : 0.010 102 REMARK 3 DIHEDRAL : 11.258 223 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3NZL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060477. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97908 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23439 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.199 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 78.3 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : 0.03800 REMARK 200 FOR THE DATA SET : 35.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 59.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.07600 REMARK 200 R SYM FOR SHELL (I) : 0.09000 REMARK 200 FOR SHELL : 14.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX FOLLOWED BY SOLVE/RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 21.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION: 100MM NACL, 5MM DTT, REMARK 280 0.02% NAN3, 10MM TRIS-HCL (PH 7.5), RESERVOIR SOLUTION: 0.1M REMARK 280 TRIS (PH 7.5) AND 20% PEG 3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 16.96300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 21.23050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.74000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 21.23050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.96300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.74000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MSE A 1 REMARK 465 GLY A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 LYS A 80 REMARK 465 ASP A 81 REMARK 465 MSE A 82 REMARK 465 MSE A 83 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HR4435B RELATED DB: TARGETDB DBREF 3NZL A 12 83 UNP Q01826 SATB1_HUMAN 179 250 SEQADV 3NZL MSE A 1 UNP Q01826 EXPRESSION TAG SEQADV 3NZL GLY A 2 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 3 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 4 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 5 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 6 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 7 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 8 UNP Q01826 EXPRESSION TAG SEQADV 3NZL SER A 9 UNP Q01826 EXPRESSION TAG SEQADV 3NZL HIS A 10 UNP Q01826 EXPRESSION TAG SEQADV 3NZL MSE A 11 UNP Q01826 EXPRESSION TAG SEQRES 1 A 83 MSE GLY HIS HIS HIS HIS HIS HIS SER HIS MSE LEU PRO SEQRES 2 A 83 PRO GLU GLN TRP SER HIS THR THR VAL ARG ASN ALA LEU SEQRES 3 A 83 LYS ASP LEU LEU LYS ASP MSE ASN GLN SER SER LEU ALA SEQRES 4 A 83 LYS GLU CYS PRO LEU SER GLN SER MSE ILE SER SER ILE SEQRES 5 A 83 VAL ASN SER THR TYR TYR ALA ASN VAL SER ALA ALA LYS SEQRES 6 A 83 CYS GLN GLU PHE GLY ARG TRP TYR LYS HIS PHE LYS LYS SEQRES 7 A 83 THR LYS ASP MSE MSE MODRES 3NZL MSE A 11 MET SELENOMETHIONINE MODRES 3NZL MSE A 33 MET SELENOMETHIONINE MODRES 3NZL MSE A 48 MET SELENOMETHIONINE HET MSE A 11 12 HET MSE A 33 12 HET MSE A 48 12 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 2 HOH *146(H2 O) HELIX 1 1 HIS A 7 MSE A 11 5 5 HELIX 2 2 PRO A 13 TRP A 17 5 5 HELIX 3 3 SER A 18 LEU A 30 1 13 HELIX 4 4 ASN A 34 CYS A 42 1 9 HELIX 5 5 SER A 45 SER A 55 1 11 HELIX 6 6 SER A 62 THR A 79 1 18 LINK C HIS A 10 N MSE A 11 1555 1555 1.32 LINK C MSE A 11 N LEU A 12 1555 1555 1.32 LINK C ASP A 32 N MSE A 33 1555 1555 1.32 LINK C MSE A 33 N ASN A 34 1555 1555 1.32 LINK C SER A 47 N MSE A 48 1555 1555 1.33 LINK C MSE A 48 N ILE A 49 1555 1555 1.33 CRYST1 33.926 43.480 42.461 90.00 90.00 90.00 P 21 21 21 4 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 0.029476 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022999 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023551 0.00000