HEADER DNA BINDING PROTEIN 30-OCT-25 9YZR TITLE ISORETICULAR CO-CRYSTAL 1 WITH ASYMMETRICAL EXPANDED DUPLEX (31MER) TITLE 2 CONTAINING INSERT SEQUENCE TAATTAGGCCG AND LOADED WITH ULTRABITHORAX TITLE 3 HOMEODOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (31-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (31-MER); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: REPLICATION INITIATION PROTEIN; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: PROTEIN E,PROTEIN REP,PROTEIN F4, REPLICATION INITIATOR COMPND 13 PROTEIN REPE54; COMPND 14 ENGINEERED: YES; COMPND 15 OTHER_DETAILS: REPLICATION INITIATOR PROTEIN REPE54 WITH N-TERMINAL COMPND 16 SOLUBILITY TAG AND N-TERMINAL 6XHIS TAG; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: HOMEOTIC PROTEIN ULTRABITHORAX; COMPND 19 CHAIN: D, E; COMPND 20 ENGINEERED: YES; COMPND 21 OTHER_DETAILS: ULTRABITHORAX HOMEODOMAIN SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 4 ORGANISM_TAXID: 562; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 8 ORGANISM_TAXID: 562; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 11 ORGANISM_TAXID: 562; SOURCE 12 GENE: REPE, E, REP, ECOK12F045; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 MOL_ID: 4; SOURCE 16 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 17 ORGANISM_COMMON: FRUIT FLY; SOURCE 18 ORGANISM_TAXID: 7227; SOURCE 19 GENE: UBX, CG10388; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS PROTEIN-DNA COMPLEX, DNA BINDING PROTEIN, TRANSCRIPTION FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR E.T.SHIELDS,C.K.SLAUGHTER,E.N.MAGNA,C.D.SNOW REVDAT 1 18-FEB-26 9YZR 0 JRNL AUTH E.T.SHIELDS,C.K.SLAUGHTER,F.MEKKAOUI,E.N.MAGNA,C.SHEPHERD, JRNL AUTH 2 P.S.LUKEMAN,D.E.SPRATT,C.D.SNOW JRNL TITL MODULAR SCAFFOLD CRYSTALS FOR PROGRAMMABLE INSTALLATION AND JRNL TITL 2 STRUCTURAL OBSERVATION OF DNA-BINDING PROTEINS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.LIEBSCHNER,P.V.AFONINE,M.L.BAKER,G.BUNKOCZI,V.B.CHEN, REMARK 1 AUTH 2 T.I.CROLL,B.HINTZE,L.W.HUNG,S.JAIN,A.J.MCCOY,N.W.MORIARTY, REMARK 1 AUTH 3 R.D.OEFFNER,B.K.POON,M.G.PRISANT,R.J.READ,J.S.RICHARDSON, REMARK 1 AUTH 4 D.C.RICHARDSON,M.D.SAMMITO,O.V.SOBOLEV,D.H.STOCKWELL, REMARK 1 AUTH 5 T.C.TERWILLIGER,A.G.URZHUMTSEV,L.L.VIDEAU,C.J.WILLIAMS, REMARK 1 AUTH 6 P.D.ADAMS REMARK 1 TITL MACROMOLECULAR STRUCTURE DETERMINATION USING X-RAYS, REMARK 1 TITL 2 NEUTRONS AND ELECTRONS: RECENT DEVELOPMENTS IN PHENIX REMARK 1 REF ACTA CRYSTALLOGR D STRUCT 2019 REMARK 1 REF 2 BIOL REMARK 1 REFN REMARK 1 PMID 31588918 REMARK 1 DOI 10.1107/S2059798319011471 REMARK 2 REMARK 2 RESOLUTION. 3.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21.2_5419 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 17764 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.268 REMARK 3 R VALUE (WORKING SET) : 0.265 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.950 REMARK 3 FREE R VALUE TEST SET COUNT : 1767 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 45.2900 - 7.9600 0.96 1251 135 0.1867 0.2163 REMARK 3 2 7.9600 - 6.3200 0.98 1216 141 0.2544 0.2976 REMARK 3 3 6.3200 - 5.5200 0.99 1253 145 0.2561 0.2669 REMARK 3 4 5.5200 - 5.0200 0.99 1248 126 0.2552 0.3122 REMARK 3 5 5.0200 - 4.6600 1.00 1244 141 0.2602 0.2540 REMARK 3 6 4.6600 - 4.3900 0.99 1241 142 0.2677 0.3226 REMARK 3 7 4.3900 - 4.1700 0.97 1200 133 0.2846 0.3307 REMARK 3 8 4.1700 - 3.9900 0.99 1248 127 0.2950 0.3203 REMARK 3 9 3.9900 - 3.8300 0.98 1216 140 0.3479 0.3709 REMARK 3 10 3.8300 - 3.7000 0.99 1251 138 0.3744 0.4308 REMARK 3 11 3.7000 - 3.5800 0.99 1218 138 0.3919 0.4235 REMARK 3 12 3.5800 - 3.4800 0.98 1211 134 0.4145 0.4563 REMARK 3 13 3.4800 - 3.3900 0.98 1200 127 0.4375 0.4531 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.632 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 38.161 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 92.55 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 146.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.003 3594 REMARK 3 ANGLE : 0.533 5073 REMARK 3 CHIRALITY : 0.037 589 REMARK 3 PLANARITY : 0.005 444 REMARK 3 DIHEDRAL : 25.207 1391 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 9YZR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-NOV-25. REMARK 100 THE DEPOSITION ID IS D_1000299477. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAY-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21916 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.120 REMARK 200 RESOLUTION RANGE LOW (A) : 47.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.13400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 1.33200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: PARALLELEPIPED REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30MM MAGNESIUM ACETATE, 900MM LITHIUM REMARK 280 SULFATE, 50MM MES PH 6.5. THE CRYSTAL WAS CROSSLINKED WITH 48MG/ REMARK 280 ML EDC OVERNIGHT, AND THEN LOOPED INTO A SOLUTION OF 35MM REMARK 280 POTASSIUM CHLORIDE, 4MM CALCIUM CHLORIDE, 10% GLYCEROL, AND 10MM REMARK 280 TRIS HYDROCHLORIDE FOR 1 HOUR. THE DROP WAS THEN SUPPLEMENTED REMARK 280 WITH 80 MICROMOLAR ULTRABITHORAX HOMEODOMAIN., VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 35.77568 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 62.42750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 69.51041 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.77568 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 62.42750 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 69.51041 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: PENTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 MET C -11 REMARK 465 ARG C -10 REMARK 465 GLY C -9 REMARK 465 SER C -8 REMARK 465 HIS C -7 REMARK 465 HIS C -6 REMARK 465 HIS C -5 REMARK 465 HIS C -4 REMARK 465 HIS C -3 REMARK 465 HIS C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 GLU C 3 REMARK 465 THR C 4 REMARK 465 ALA C 5 REMARK 465 VAL C 6 REMARK 465 ILE C 7 REMARK 465 ASN C 8 REMARK 465 HIS C 9 REMARK 465 LYS C 10 REMARK 465 LYS C 11 REMARK 465 ARG C 12 REMARK 465 LYS C 13 REMARK 465 ASP C 50 REMARK 465 GLY C 51 REMARK 465 THR C 52 REMARK 465 LEU C 53 REMARK 465 GLN C 54 REMARK 465 GLU C 55 REMARK 465 HIS C 56 REMARK 465 PRO C 99 REMARK 465 GLU C 100 REMARK 465 GLU C 101 REMARK 465 ASP C 102 REMARK 465 ALA C 103 REMARK 465 GLY C 104 REMARK 465 ASP C 105 REMARK 465 GLU C 106 REMARK 465 LYS C 107 REMARK 465 GLY C 108 REMARK 465 GLY C 141 REMARK 465 MET C 248 REMARK 465 THR C 249 REMARK 465 THR C 250 REMARK 465 GLY C 251 REMARK 465 GLY D 1 REMARK 465 THR D 2 REMARK 465 ARG D 3 REMARK 465 ARG D 4 REMARK 465 GLN D 8 REMARK 465 THR D 9 REMARK 465 HIS D 23 REMARK 465 THR D 24 REMARK 465 ASN D 25 REMARK 465 HIS D 26 REMARK 465 LEU D 42 REMARK 465 THR D 43 REMARK 465 GLU D 44 REMARK 465 LYS D 59 REMARK 465 LYS D 60 REMARK 465 GLU D 61 REMARK 465 ILE D 62 REMARK 465 GLY E 1 REMARK 465 THR E 2 REMARK 465 ARG E 3 REMARK 465 ARG E 4 REMARK 465 ARG E 5 REMARK 465 GLY E 6 REMARK 465 THR E 11 REMARK 465 ARG E 12 REMARK 465 GLU E 17 REMARK 465 LEU E 18 REMARK 465 GLU E 19 REMARK 465 PHE E 22 REMARK 465 HIS E 23 REMARK 465 THR E 24 REMARK 465 ASN E 25 REMARK 465 LEU E 27A REMARK 465 THR E 27B REMARK 465 ARG E 27C REMARK 465 ARG E 27D REMARK 465 ILE E 34 REMARK 465 ALA E 39 REMARK 465 LEU E 40 REMARK 465 LYS E 60 REMARK 465 GLU E 61 REMARK 465 ILE E 62 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN C 14 CG OD1 ND2 REMARK 470 ARG C 17 CG CD NE CZ NH1 NH2 REMARK 470 ILE C 18 CG1 CG2 CD1 REMARK 470 LEU C 39 CG CD1 CD2 REMARK 470 LEU C 41 CG CD1 CD2 REMARK 470 LYS C 48 CG CD CE NZ REMARK 470 ILE C 62 CG1 CG2 CD1 REMARK 470 GLU C 69 CG CD OE1 OE2 REMARK 470 LEU C 73 CG CD1 CD2 REMARK 470 GLU C 77 CG CD OE1 OE2 REMARK 470 LYS C 80 CG CD CE NZ REMARK 470 LYS C 87 CG CD CE NZ REMARK 470 ARG C 98 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 117 CG CD CE NZ REMARK 470 LEU C 126 CG CD1 CD2 REMARK 470 ILE C 136 CG1 CG2 CD1 REMARK 470 LEU C 142 CG CD1 CD2 REMARK 470 GLN C 143 CG CD OE1 NE2 REMARK 470 ASN C 144 CG OD1 ND2 REMARK 470 ARG C 145 CG CD NE CZ NH1 NH2 REMARK 470 PHE C 146 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN C 148 CG CD OE1 NE2 REMARK 470 ARG C 150 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 155 CG CD CE NZ REMARK 470 LYS C 174 CG CD CE NZ REMARK 470 GLU C 190 CG CD OE1 OE2 REMARK 470 ARG C 243 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 5 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 7 CG CD NE CZ NH1 NH2 REMARK 470 TYR D 10 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG D 12 CG CD NE CZ NH1 NH2 REMARK 470 TYR D 13 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN D 14 CG CD OE1 NE2 REMARK 470 LEU D 16 CG CD1 CD2 REMARK 470 GLU D 17 CG CD OE1 OE2 REMARK 470 LEU D 18 CG CD1 CD2 REMARK 470 GLU D 19 CG CD OE1 OE2 REMARK 470 LYS D 20 CG CD CE NZ REMARK 470 GLU D 21 CG CD OE1 OE2 REMARK 470 PHE D 22 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU D 28 CG CD1 CD2 REMARK 470 ARG D 30 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 32 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 33 CG CD NE CZ NH1 NH2 REMARK 470 ILE D 34 CG1 CG2 CD1 REMARK 470 GLU D 35 CG CD OE1 OE2 REMARK 470 MET D 36 CG SD CE REMARK 470 HIS D 38 CG ND1 CD2 CE1 NE2 REMARK 470 LEU D 40 CG CD1 CD2 REMARK 470 CYS D 41 SG REMARK 470 ARG D 45 CG CD NE CZ NH1 NH2 REMARK 470 ILE D 47 CG1 CG2 CD1 REMARK 470 LYS D 48 CG CD CE NZ REMARK 470 ILE D 49 CG1 CG2 CD1 REMARK 470 TRP D 50 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP D 50 CZ3 CH2 REMARK 470 PHE D 51 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN D 52 CG CD OE1 NE2 REMARK 470 ARG D 54 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 55 CG CD NE CZ NH1 NH2 REMARK 470 MET D 56 CG SD CE REMARK 470 LYS D 57 CG CD CE NZ REMARK 470 LEU D 58 CG CD1 CD2 REMARK 470 ARG E 7 CG CD NE CZ NH1 NH2 REMARK 470 GLN E 8 CG CD OE1 NE2 REMARK 470 THR E 9 OG1 CG2 REMARK 470 TYR E 10 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR E 13 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN E 14 CG CD OE1 NE2 REMARK 470 THR E 15 OG1 CG2 REMARK 470 LEU E 16 CG CD1 CD2 REMARK 470 LYS E 20 CG CD CE NZ REMARK 470 GLU E 21 CG CD OE1 OE2 REMARK 470 HIS E 26 CG ND1 CD2 CE1 NE2 REMARK 470 TYR E 27 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG E 30 CG CD NE CZ NH1 NH2 REMARK 470 ARG E 31 CG CD NE CZ NH1 NH2 REMARK 470 GLU E 35 CG CD OE1 OE2 REMARK 470 MET E 36 CG SD CE REMARK 470 HIS E 38 CG ND1 CD2 CE1 NE2 REMARK 470 CYS E 41 SG REMARK 470 LEU E 42 CG CD1 CD2 REMARK 470 THR E 43 OG1 CG2 REMARK 470 GLU E 44 CG CD OE1 OE2 REMARK 470 ARG E 45 CG CD NE CZ NH1 NH2 REMARK 470 GLN E 46 CG CD OE1 NE2 REMARK 470 ILE E 47 CG1 CG2 CD1 REMARK 470 LYS E 48 CG CD CE NZ REMARK 470 ILE E 49 CG1 CG2 CD1 REMARK 470 TRP E 50 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP E 50 CZ3 CH2 REMARK 470 PHE E 51 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN E 52 CG CD OE1 NE2 REMARK 470 ARG E 54 CG CD NE CZ NH1 NH2 REMARK 470 ARG E 55 CG CD NE CZ NH1 NH2 REMARK 470 MET E 56 CG SD CE REMARK 470 LYS E 57 CG CD CE NZ REMARK 470 LEU E 58 CG CD1 CD2 REMARK 470 LYS E 59 CG CD CE NZ 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 TYR C 97 -100.74 -118.95 REMARK 500 GLN C 143 -101.29 -74.75 REMARK 500 ARG C 145 75.72 -114.45 REMARK 500 PHE C 208 -67.07 -106.93 REMARK 500 THR C 246 0.06 -66.68 REMARK 500 GLN E 8 -145.66 -116.32 REMARK 500 THR E 9 -95.60 -143.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9YZA RELATED DB: PDB REMARK 900 RELATED ID: 9YZB RELATED DB: PDB REMARK 900 RELATED ID: 9YZC RELATED DB: PDB REMARK 900 RELATED ID: 9YZD RELATED DB: PDB REMARK 900 RELATED ID: 9YZE RELATED DB: PDB REMARK 900 RELATED ID: 9YZF RELATED DB: PDB REMARK 900 RELATED ID: 9YZG RELATED DB: PDB REMARK 900 RELATED ID: 9YZI RELATED DB: PDB REMARK 900 RELATED ID: 9YZJ RELATED DB: PDB REMARK 900 RELATED ID: 9YZK RELATED DB: PDB REMARK 900 RELATED ID: 9YZL RELATED DB: PDB REMARK 900 RELATED ID: 9YZM RELATED DB: PDB REMARK 900 RELATED ID: 9YZN RELATED DB: PDB REMARK 900 RELATED ID: 9YZO RELATED DB: PDB REMARK 900 RELATED ID: 9YZP RELATED DB: PDB REMARK 900 RELATED ID: 9YZQ RELATED DB: PDB DBREF 9YZR A 1 31 PDB 9YZR 9YZR 1 31 DBREF 9YZR B 12 42 PDB 9YZR 9YZR 12 42 DBREF 9YZR C 1 251 UNP P03856 REPE1_ECOLI 1 251 DBREF 9YZR D 3 62 UNP P83949 UBX_DROME 295 354 DBREF 9YZR E 3 62 UNP P83949 UBX_DROME 295 354 SEQADV 9YZR MET C -11 UNP P03856 INITIATING METHIONINE SEQADV 9YZR ARG C -10 UNP P03856 EXPRESSION TAG SEQADV 9YZR GLY C -9 UNP P03856 EXPRESSION TAG SEQADV 9YZR SER C -8 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -7 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -6 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -5 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -4 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -3 UNP P03856 EXPRESSION TAG SEQADV 9YZR HIS C -2 UNP P03856 EXPRESSION TAG SEQADV 9YZR GLY C -1 UNP P03856 EXPRESSION TAG SEQADV 9YZR SER C 0 UNP P03856 EXPRESSION TAG SEQADV 9YZR PRO C 118 UNP P03856 ARG 118 CONFLICT SEQADV 9YZR GLY D 1 UNP P83949 EXPRESSION TAG SEQADV 9YZR THR D 2 UNP P83949 EXPRESSION TAG SEQADV 9YZR GLY E 1 UNP P83949 EXPRESSION TAG SEQADV 9YZR THR E 2 UNP P83949 EXPRESSION TAG SEQRES 1 A 31 DC DC DT DG DT DG DA DC DA DA DA DT DT SEQRES 2 A 31 DG DC DC DC DT DC DA DT DA DA DT DT DA SEQRES 3 A 31 DG DG DC DC DG SEQRES 1 B 31 DG DC DG DG DC DC DT DA DA DT DT DA DT SEQRES 2 B 31 DG DA DG DG DG DC DA DA DT DT DT DG DT SEQRES 3 B 31 DC DA DC DA DG SEQRES 1 C 263 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 C 263 ALA GLU THR ALA VAL ILE ASN HIS LYS LYS ARG LYS ASN SEQRES 3 C 263 SER PRO ARG ILE VAL GLN SER ASN ASP LEU THR GLU ALA SEQRES 4 C 263 ALA TYR SER LEU SER ARG ASP GLN LYS ARG MET LEU TYR SEQRES 5 C 263 LEU PHE VAL ASP GLN ILE ARG LYS SER ASP GLY THR LEU SEQRES 6 C 263 GLN GLU HIS ASP GLY ILE CYS GLU ILE HIS VAL ALA LYS SEQRES 7 C 263 TYR ALA GLU ILE PHE GLY LEU THR SER ALA GLU ALA SER SEQRES 8 C 263 LYS ASP ILE ARG GLN ALA LEU LYS SER PHE ALA GLY LYS SEQRES 9 C 263 GLU VAL VAL PHE TYR ARG PRO GLU GLU ASP ALA GLY ASP SEQRES 10 C 263 GLU LYS GLY TYR GLU SER PHE PRO TRP PHE ILE LYS PRO SEQRES 11 C 263 ALA HIS SER PRO SER ARG GLY LEU TYR SER VAL HIS ILE SEQRES 12 C 263 ASN PRO TYR LEU ILE PRO PHE PHE ILE GLY LEU GLN ASN SEQRES 13 C 263 ARG PHE THR GLN PHE ARG LEU SER GLU THR LYS GLU ILE SEQRES 14 C 263 THR ASN PRO TYR ALA MET ARG LEU TYR GLU SER LEU CYS SEQRES 15 C 263 GLN TYR ARG LYS PRO ASP GLY SER GLY ILE VAL SER LEU SEQRES 16 C 263 LYS ILE ASP TRP ILE ILE GLU ARG TYR GLN LEU PRO GLN SEQRES 17 C 263 SER TYR GLN ARG MET PRO ASP PHE ARG ARG ARG PHE LEU SEQRES 18 C 263 GLN VAL CYS VAL ASN GLU ILE ASN SER ARG THR PRO MET SEQRES 19 C 263 ARG LEU SER TYR ILE GLU LYS LYS LYS GLY ARG GLN THR SEQRES 20 C 263 THR HIS ILE VAL PHE SER PHE ARG ASP ILE THR SER MET SEQRES 21 C 263 THR THR GLY SEQRES 1 D 62 GLY THR ARG ARG ARG GLY ARG GLN THR TYR THR ARG TYR SEQRES 2 D 62 GLN THR LEU GLU LEU GLU LYS GLU PHE HIS THR ASN HIS SEQRES 3 D 62 TYR LEU THR ARG ARG ARG ARG ILE GLU MET ALA HIS ALA SEQRES 4 D 62 LEU CYS LEU THR GLU ARG GLN ILE LYS ILE TRP PHE GLN SEQRES 5 D 62 ASN ARG ARG MET LYS LEU LYS LYS GLU ILE SEQRES 1 E 62 GLY THR ARG ARG ARG GLY ARG GLN THR TYR THR ARG TYR SEQRES 2 E 62 GLN THR LEU GLU LEU GLU LYS GLU PHE HIS THR ASN HIS SEQRES 3 E 62 TYR LEU THR ARG ARG ARG ARG ILE GLU MET ALA HIS ALA SEQRES 4 E 62 LEU CYS LEU THR GLU ARG GLN ILE LYS ILE TRP PHE GLN SEQRES 5 E 62 ASN ARG ARG MET LYS LEU LYS LYS GLU ILE HET MG C 301 1 HETNAM MG MAGNESIUM ION FORMUL 6 MG MG 2+ HELIX 1 AA1 ASN C 22 GLU C 26 1 5 HELIX 2 AA2 SER C 32 LYS C 48 1 17 HELIX 3 AA3 VAL C 64 GLY C 72 1 9 HELIX 4 AA4 THR C 74 PHE C 89 1 16 HELIX 5 AA5 ASN C 132 TYR C 134 5 3 HELIX 6 AA6 LEU C 135 ILE C 140 1 6 HELIX 7 AA7 LEU C 151 LYS C 155 1 5 HELIX 8 AA8 ASN C 159 TYR C 172 1 14 HELIX 9 AA9 ILE C 185 GLN C 193 1 9 HELIX 10 AB1 PRO C 195 GLN C 199 5 5 HELIX 11 AB2 ARG C 200 PHE C 208 1 9 HELIX 12 AB3 PHE C 208 THR C 220 1 13 HELIX 13 AB4 THR D 11 PHE D 22 1 12 HELIX 14 AB5 THR D 29 LEU D 40 1 12 HELIX 15 AB6 GLN D 46 LEU D 58 1 13 HELIX 16 AB7 THR E 43 LYS E 59 1 17 SHEET 1 AA1 2 ARG C 17 SER C 21 0 SHEET 2 AA1 2 PHE C 146 ARG C 150 -1 O THR C 147 N GLN C 20 SHEET 1 AA2 3 ILE C 59 HIS C 63 0 SHEET 2 AA2 3 LEU C 126 HIS C 130 -1 O VAL C 129 N CYS C 60 SHEET 3 AA2 3 HIS C 120 SER C 123 -1 N SER C 123 O LEU C 126 SHEET 1 AA3 2 GLU C 93 PHE C 96 0 SHEET 2 AA3 2 GLU C 110 PRO C 113 -1 O PHE C 112 N VAL C 94 SHEET 1 AA4 3 GLY C 179 LYS C 184 0 SHEET 2 AA4 3 GLN C 234 ASP C 244 -1 O ILE C 238 N LEU C 183 SHEET 3 AA4 3 MET C 222 LYS C 231 -1 N ARG C 223 O ARG C 243 LINK OD1 ASP C 81 MG MG C 301 1555 1555 2.48 CRYST1 76.032 124.855 139.093 90.00 91.85 90.00 I 1 2 1 8 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 0.013152 0.000000 0.000424 0.00000 SCALE2 0.000000 0.008009 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007193 0.00000 CONECT 1721 3414 CONECT 3414 1721 MASTER 463 0 1 16 10 0 0 6 3397 5 2 37 END