HEADER TRANSCRIPTION/DNA 17-JUL-03 1O4X TITLE TERNARY COMPLEX OF THE DNA BINDING DOMAINS OF THE OCT1 AND SOX2 TITLE 2 TRANSCRIPTION FACTORS WITH A 19MER OLIGONUCLEOTIDE FROM THE HOXB1 TITLE 3 REGULATORY ELEMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*GP*TP*CP*TP*TP*TP*GP*TP*CP*AP*TP*GP*CP*TP*AP*AP*TP COMPND 3 *G)-3'; COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*CP*AP*TP*TP*AP*GP*CP*AP*TP*GP*AP*CP*AP*AP*AP*GP*AP*CP COMPND 9 *A)-3'; COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: TRANSCRIPTION FACTOR OCT-1; COMPND 14 CHAIN: A; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: TRANSCRIPTION FACTOR SOX-2; COMPND 18 CHAIN: B; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 4; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: SOX2; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OCT1, POU, POUS, POUHD, SOX2, HMG-BOX, TRANSCRIPTION FACTORS, DNA, KEYWDS 2 PROTEIN-DNA COMPLEX, TRANSCRIPTION-DNA COMPLEX EXPDTA SOLUTION NMR AUTHOR G.M.CLORE,D.C.WILLIAMS REVDAT 4 27-DEC-23 1O4X 1 REMARK REVDAT 3 27-OCT-21 1O4X 1 REMARK SEQADV REVDAT 2 24-FEB-09 1O4X 1 VERSN REVDAT 1 27-JAN-04 1O4X 0 JRNL AUTH D.C.WILLIAMS,M.CAI,G.M.CLORE JRNL TITL MOLECULAR BASIS FOR SYNERGISTIC TRANSCRIPTIONAL ACTIVATION JRNL TITL 2 BY OCT1 AND SOX2 REVEALED FROM THE SOLUTION STRUCTURE OF THE JRNL TITL 3 42-KDA OCT1.SOX2.HOXB1-DNA TERNARY TRANSCRIPTION FACTOR JRNL TITL 4 COMPLEX. JRNL REF J.BIOL.CHEM. V. 279 1449 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 14559893 JRNL DOI 10.1074/JBC.M309790200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH (HTTP://NMR.CIT.NIH.GOV/XPLOR_NIH) REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA, CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES WERE CALCULATED BY CONJOINED RIGID BODY/TORSION REMARK 3 ANGLE DYNAMICS (SCHWIETERS & CLORE (2001) J.MAGN.RESON 152, 288- REMARK 3 302). THE TARGET FUNCTION COMPRISES TERMS FOR THE DIPOLAR COUPLING REMARK 3 RESTRAINTS (CLORE ET AL. J.MAGN.RESON. 131, 159-162 (1998); REMARK 3 J.MAGN.RESON. 133, 216- 221(1998)), INTERMOLECULAR NOE RESTRAINTS REMARK 3 AND TORSION ANGLE RESTRAINTS. THE NON-BONDED TERMS INCLUDE A REMARK 3 QUARTIC VAN DER WAALS REPULSION TERM (NILGES ET AL. (1988) FEBS REMARK 3 LETT. 229, 129-136), RADIUS OF GYRATION RESTRAINTS REMARK 3 (KUSZEWSKI ET AL. (1999) J.AM.CHEM.SOC 121, 2337-2338) AT THE REMARK 3 PROTEIN-PROTEIN AND PROTEIN-DNA INTERFACES, AND DATABASE TORSION REMARK 3 ANGLE AND BASE-BASE POSITIONAL POTENTIALS OF MEAN FORCE (KUSZEWSKI REMARK 3 ET AL. (2001) J.AM.CHEM.SOC 123, 3903-3918; CLORE & KUSZEWSKI REMARK 3 (2003) J.AM.CHEM.SOC. 125, 1518-1525). THE STARTING COORDINATES REMARK 3 FOR THE POUHD AND POUS DOMAINS OF OCT1 ARE TAKEN FROM THE 1.9 A REMARK 3 RESOLUTION CRYSTAL STRUCTURE OF THE OCT1/MORE-DNA COMPLEX (1E3O) REMARK 3 AND PLACED IN THE ORIENTATION OF THE 2.7 A RESOLUTION CRYSTAL REMARK 3 STRUCTURE OF THE OCT1/PORE-DNA COMPLEX (1HFO) (REMENYI ET AL. REMARK 3 (2001) MOL.CELL 8, 569-580). THE STARTING COORDINATES FOR SOX2 ARE REMARK 3 DERIVED FROM THE NMR STRUCTURE OF THE RELATED BINARY SRY-DNA REMARK 3 COMPLEX (1J46) (MURPHY ET AL. (2001) J.MOL.BIOL. 312, 481-499). REMARK 3 THE STARTING COORDINATES FOR THE 19MER DNA WERE BUILT AS FOLLOWS: REMARK 3 THE POUS AND POUHD HEMI-BINDING SITES (B.P. 11-14 AND 17-19, REMARK 3 RESPECTIVELY) WERE DERIVED FROM THE 1.9 A RESIOLUTION STRUCTURE OF REMARK 3 THE OCT1/MORE-DNA COMPLEX (1E3O); THE REMARK 3 SOX2 BINDING SITE (B.P. 1-10) WAS DERIVED FROM THE NMR STRUCTURE REMARK 3 OF THE BINARY SRY/DNA COMPLEX (1J46); AND THE INTERVENING REMARK 3 SEQUENCES (B.P. 15-16) AND REGIONS CONTAINING SUBSTITUTIONS (B.P. REMARK 3 1, 4 AND 10) WERE DERIVED FROM CLASSICAL DNA. THE RESULTING MODEL REMARK 3 WAS SUBJECTED TO REGULARIZATION. THE STRATEGY USED IN THE REMARK 3 CONJOINED RIGID BODY/TORSION ANGLE DYNAMICS CALCULATIONS IS AS REMARK 3 FOLLOWS: THERE ARE 4 RIGID BODIES: (1) BACKBONE AND NON- REMARK 3 INTERFACIAL SIDE CHAINS OF POUHD + B.P. 17-19 OF THE DNA (2) REMARK 3 BACKBONE AND NON-INTERFACIAL SIDE CHAINS OF POUS; (3) BACKBONE AND REMARK 3 NON-INTERFACIAL SIDE CHAINS OF SOX2 + B.P. 1-4 OF THE DNA; (4) THE REMARK 3 AXIS OF THE DIPOLAR COUPLING ALIGNMENT TENSOR. RIGID BODIES 1-3 REMARK 3 HAVE ROTATIONAL AND TRANSLATIONAL DEGREES OF FREEDOM, WHILE RIGID REMARK 3 BODY 4 IS GIVEN ONLY ROTATIONAL DEGREES OF FREEDOM. THE FOLLOWING REMARK 3 SIDE CHAINS WERE GIVEN TORSIONAL DEGREES OF FREEDOM: (1) POUHD: 10 REMARK 3 RESIDUES AT POUHD-DNA INTERFACE (RESIDUES 107, 108, 113, 144, 147, REMARK 3 148, 151, 154, 155 AND 158) WITH 24 SIDE C REMARK 3 AIN TORSION ANGLES RESTRAINED TO WITHIN A RANGE OF +/-20 DEGREES REMARK 3 OF VALUES IN BINARY OCT1/DNA COMPLEXES (2) POUS: (A) 6 RESIDUES AT REMARK 3 POUS/SOX2 INTERFACE (RESIDUES 14, 17, 18, 21, 26 AND 52); (B) 14 REMARK 3 RESIDUES AT POUS/DNA INTERFACE (RESIDUES 20, 27, 41, 42, 44, 45, REMARK 3 46, 48, 49, 54, 58, 59, 62 AND 63) WITH 35 SIDE CHAIN TORSION REMARK 3 ANGLES RESTRAINED TO WITHIN A RANGE OF +/-20 DEGREES OF VALUES IN REMARK 3 BINARY OCT1/DNA COMPLEXES (3) SOX2: (A) 7 RESIDUES AT POUS/SOX2 REMARK 3 INTERFACE (RESIDUES 59, 62, 63, 66, 67, 71, REMARK 3 73); (B) 18 RESIDUES AT SOX2/DNA INTERFACE (RESIDUES 4, 6, 7, 8, 9, REMARK 3 10, 12, 13 17, 31, 35, 43, 44, 51, 55, 76, 78, 79) WITH 35 SIDE REMARK 3 CHAIN TORSION ANGLES RESTRAINED TO WITHIN A RANGE OF +/-20 DEGREES REMARK 3 OF VALUES IN BINARY SRY/DNA COMPLEXES. BASE PAIRS 5-16 OF THE DNA REMARK 3 WERE GIVEN TORSIONAL DEGREES OF FREEDOM WITH 220 LOOSE BACKBONE REMARK 3 PHOSPHODIESTER TORSION ANGLE RESTRAINTS TO PREVENT LOCAL MIRROR REMARK 3 IMAGES (MURPHY ET AL. (2001) J.MOL.BIOL. 312, 481-499). REMARK 3 THE NUMBERING SYSTEM IS AS FOLLOWS: REMARK 3 OCT1 POUS DOMAIN: 5-79 REMARK 3 OCT1 POUHD DOMAIN: 110-163 REMARK 3 SOX-2 HMG-BOX: 206-282 REMARK 3 RESIDUES 1-4, 80-109, 201-205 AND 283-288 ARE DISORDERED REMARK 3 IN SOLUTION AND THUS NOT INCLUDED IN THE COORDINATES. REMARK 3 REMARK 3 IN THIS ENTRY THE LAST COLUMN REPRESENTS THE AVERAGE RMS REMARK 3 DIFFERENCE BETWEEN THE INDIVIDUAL SIMULATED ANNEALING REMARK 3 STRUCTURES AND THE MEAN COORDINATE POSITIONS. IT IS REMARK 3 IMPORTANT TO NOTE THAT SINCE THE BACKBONE AND NON- REMARK 3 INTERFACIAL SIECHAINS OF THE THREE PROTEIN DOMAINS ARE REMARK 3 TREATED AS RIGID BODIES, THESE NUMBERS DO NOT TAKE INTO REMARK 3 ACCOUNT THE ERRORS IN THE X-RAY COORDINATES OF OCT1 OR REMARK 3 THE NMR COORDINATES OF THE HOMOLOGOUS SRY. REMARK 3 REMARK 3 RESIDUE NUMBERING: THIS FOLLOWS THE NUMBERING USED REMARK 3 PREVIOUS STRUCTURAL WORK ON THE BINARY OCT1/DNA REMARK 3 COMPLEX (KLEMM ET AL. (1994) CELL 77, 21-32; REMARK 3 REMENYI ET AL. MOL.CELL (2001) 8, 569-580); REMARK 3 AND THE BINARY SRY/DNA COMPLEX (MURPHY ET AL. REMARK 3 (2001) J.MOL.BIOL. 312, 481-499). REMARK 3 REMARK 3 THE SIDECHAINS OF K18, Q22, K262, R265 AND K276 ARE IN REMARK 3 MULTIPLE CONFORMATIONS. REMARK 3 REMARK 3 EXPERIMENTAL NMR RESTRAINTS: REMARK 3 RESIDUAL DIPOLAR COUPLINGS: 345 REMARK 3 (1) SOX2: 51 NH, 39 NC', 49 CAC' REMARK 3 (2) POUS: 39 NH, 33 NC', 34 CAC' REMARK 3 (3) POUHD: 39 NH, 34 NC', 27 CAC' REMARK 3 INTERMOLECULAR NOE-DERIVED INTERPROTON DISTANCE REMARK 3 RESTRAINTS: REMARK 3 67 (16, 48 AND 3 AT POUS/SOX2, SOX2/DNA REMARK 3 AND POUHD/DNA INTERFACES) REMARK 3 TORSION ANGLE RESTRAINTS: 21 REMARK 3 (18 AT POUS/SOX2 INTERFACE AND 3 AT SOX2/DNA REMARK 3 INTERFACE). REMARK 3 NH DIPOLAR COUPLING R-FACTORS REMARK 3 TERNARY COMPLEX INDIVIDUAL DOMAINS REMARK 3 SOX2 17.7% 16.5% REMARK 3 POUS 16.7% 16.2% REMARK 3 POUHD 17.7% 17.5% REMARK 3 (THE VALUES GIVEN FOR THE INDIVIDUAL DOMAINS REMARK 3 ARE CALCULATED USING A SEPARATED ALIGNMENT REMARK 3 TENSOR FOR EACH DOMAIN AND ARE SIMPLY LISTED REMARK 3 FOR REFERENCE. THE VALUES FOR THE TERNARY REMARK 3 COMPLEX (USING THE RESTRAINED REGULARIZED MEAN REMARK 3 COORDINATES) MAKE USE OF A SINGLE ALIGNMENT REMARK 3 TENSOR FOR THE ENTIRE COMPLEX). REMARK 3 NON-EXPERIMENTAL RESTRAINTS: REMARK 3 (1) 220 LOOSE TORSION ANGLE RESTRAINTS FOR THE REMARK 3 SUGAR-PHOSPHATE BACKBONE REMARK 3 (2) 106 LOOSE TORSION ANGLE RESTRAINTS FOR SIDE CHAINS REMARK 3 AT PROTEIN-DNA INTERFACES REMARK 3 (3) 35 LOOSE DISTANCE RESTRAINTS AT THE POUS/DNA AND REMARK 3 POUHD/DNA INTERFACES TO PRESERVE HYDROGEN BONDING REMARK 3 INTERCATIONS AND SALT BRIDGES TO BASES AND PHOSPHATES REMARK 3 (4) WEAK NCS RESTRAINT TO PROVIDE A TRANSLATIONAL RESTRANT REMARK 3 BETWEEN POUS AND POUHD. REMARK 4 REMARK 4 1O4X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-03. REMARK 100 THE DEPOSITION ID IS D_1000001808. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303.00 REMARK 210 PH : 6.50 REMARK 210 IONIC STRENGTH : 10 MM SODIUM PHOSPHATE REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 1) TRIPLE RESONANCE FOR REMARK 210 ASSIGNMENT OF PROTEIN; (2) REMARK 210 QUANTITATIVE J CORRELATION FOR REMARK 210 COUPLING CONSTANTS; (3) 3D REMARK 210 HETERONUCLEAR SEPARATED; REMARK 210 FILTERED NOE EXPTS; (4) IPAP REMARK 210 EXPERIMENTS; TRIPLE RESONANC FOR REMARK 210 DIPOLAR COUPLINGS. DIPOLAR REMARK 210 COUPLINGS WERE MEASURED IN PHAGE REMARK 210 PF1 REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ; 800 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : DMX500; DMX600; DRX600; DRX750; REMARK 210 DRX800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : CONJOINED RIGID BODY/TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : REGULARIZED MEAN STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, A, B 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 SER A 2 REMARK 465 HIS A 3 REMARK 465 MET A 4 REMARK 465 ASN A 80 REMARK 465 LEU A 81 REMARK 465 SER A 82 REMARK 465 SER A 83 REMARK 465 ASP A 84 REMARK 465 SER A 85 REMARK 465 SER A 86 REMARK 465 LEU A 87 REMARK 465 SER A 88 REMARK 465 SER A 89 REMARK 465 PRO A 90 REMARK 465 SER A 91 REMARK 465 ALA A 92 REMARK 465 LEU A 93 REMARK 465 ASN A 94 REMARK 465 SER A 95 REMARK 465 PRO A 96 REMARK 465 GLY A 97 REMARK 465 ILE A 98 REMARK 465 GLU A 99 REMARK 465 GLY A 100 REMARK 465 LEU A 101 REMARK 465 SER A 102 REMARK 465 GLU A 103 REMARK 465 ARG A 104 REMARK 465 ARG A 105 REMARK 465 LYS A 106 REMARK 465 LYS A 107 REMARK 465 ARG A 108 REMARK 465 THR A 109 REMARK 465 PRO A 164 REMARK 465 PRO A 165 REMARK 465 SER A 166 REMARK 465 SER A 167 REMARK 465 GLY B 201 REMARK 465 SER B 202 REMARK 465 HIS B 203 REMARK 465 MET B 204 REMARK 465 PRO B 205 REMARK 465 THR B 283 REMARK 465 LYS B 284 REMARK 465 THR B 285 REMARK 465 LEU B 286 REMARK 465 MET B 287 REMARK 465 LYS B 288 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 RES CSSEQI ATOMS REMARK 470 GLU A 5 CG CD OE1 OE2 REMARK 470 GLU A 79 O REMARK 470 LYS A 121 CG CD CE NZ REMARK 470 LYS A 128 CG CD CE NZ REMARK 470 GLU A 132 CG CD OE1 OE2 REMARK 470 LYS A 145 CG CD CE NZ REMARK 470 ASN A 163 O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU B 251 HH12 ARG B 255 0.84 REMARK 500 HD12 LEU A 13 HD2 LYS A 68 1.24 REMARK 500 HE21 GLN A 31 O GLN A 48 1.28 REMARK 500 HE2 MET B 233 HH22 ARG B 241 1.32 REMARK 500 HH12 ARG A 24 HB2 GLN A 31 1.33 REMARK 500 OD1 ASN B 213 H MET B 216 1.44 REMARK 500 O SER B 219 H ARG B 223 1.50 REMARK 500 OE2 GLU B 251 NH1 ARG B 255 1.54 REMARK 500 O GLY A 28 HZ3 LYS B 262 1.56 REMARK 500 NE2 GLN A 31 O GLN A 48 1.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DA C 311 N1 - C2 - N3 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA D 321 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 DT D 322 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DA D 324 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA D 330 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA D 332 N1 - C2 - N3 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA D 333 N1 - C2 - N3 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA D 334 N1 - C2 - N3 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA D 336 N1 - C2 - N3 ANGL. DEV. = -3.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 155 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1O4X A 5 167 UNP P14859 PO2F1_HUMAN 303 465 DBREF 1O4X B 206 288 UNP P48431 SOX2_HUMAN 39 121 DBREF 1O4X C 301 319 PDB 1O4X 1O4X 301 319 DBREF 1O4X D 320 338 PDB 1O4X 1O4X 320 338 SEQADV 1O4X GLY A 1 UNP P14859 CLONING ARTIFACT SEQADV 1O4X SER A 2 UNP P14859 CLONING ARTIFACT SEQADV 1O4X HIS A 3 UNP P14859 CLONING ARTIFACT SEQADV 1O4X MET A 4 UNP P14859 CLONING ARTIFACT SEQADV 1O4X ALA A 65 UNP P14859 CYS 363 ENGINEERED MUTATION SEQADV 1O4X GLY B 201 UNP P48431 CLONING ARTIFACT SEQADV 1O4X SER B 202 UNP P48431 CLONING ARTIFACT SEQADV 1O4X HIS B 203 UNP P48431 CLONING ARTIFACT SEQADV 1O4X MET B 204 UNP P48431 CLONING ARTIFACT SEQADV 1O4X PRO B 205 UNP P48431 CLONING ARTIFACT SEQRES 1 C 19 DT DG DT DC DT DT DT DG DT DC DA DT DG SEQRES 2 C 19 DC DT DA DA DT DG SEQRES 1 D 19 DC DA DT DT DA DG DC DA DT DG DA DC DA SEQRES 2 D 19 DA DA DG DA DC DA SEQRES 1 A 167 GLY SER HIS MET GLU GLU PRO SER ASP LEU GLU GLU LEU SEQRES 2 A 167 GLU GLN PHE ALA LYS THR PHE LYS GLN ARG ARG ILE LYS SEQRES 3 A 167 LEU GLY PHE THR GLN GLY ASP VAL GLY LEU ALA MET GLY SEQRES 4 A 167 LYS LEU TYR GLY ASN ASP PHE SER GLN THR THR ILE SER SEQRES 5 A 167 ARG PHE GLU ALA LEU ASN LEU SER PHE LYS ASN MET ALA SEQRES 6 A 167 LYS LEU LYS PRO LEU LEU GLU LYS TRP LEU ASN ASP ALA SEQRES 7 A 167 GLU ASN LEU SER SER ASP SER SER LEU SER SER PRO SER SEQRES 8 A 167 ALA LEU ASN SER PRO GLY ILE GLU GLY LEU SER GLU ARG SEQRES 9 A 167 ARG LYS LYS ARG THR SER ILE GLU THR ASN ILE ARG VAL SEQRES 10 A 167 ALA LEU GLU LYS SER PHE LEU GLU ASN GLN LYS PRO THR SEQRES 11 A 167 SER GLU GLU ILE THR MET ILE ALA ASP GLN LEU ASN MET SEQRES 12 A 167 GLU LYS GLU VAL ILE ARG VAL TRP PHE CYS ASN ARG ARG SEQRES 13 A 167 GLN LYS GLU LYS ARG ILE ASN PRO PRO SER SER SEQRES 1 B 88 GLY SER HIS MET PRO ASP ARG VAL LYS ARG PRO MET ASN SEQRES 2 B 88 ALA PHE MET VAL TRP SER ARG GLY GLN ARG ARG LYS MET SEQRES 3 B 88 ALA GLN GLU ASN PRO LYS MET HIS ASN SER GLU ILE SER SEQRES 4 B 88 LYS ARG LEU GLY ALA GLU TRP LYS LEU LEU SER GLU THR SEQRES 5 B 88 GLU LYS ARG PRO PHE ILE ASP GLU ALA LYS ARG LEU ARG SEQRES 6 B 88 ALA LEU HIS MET LYS GLU HIS PRO ASP TYR LYS TYR ARG SEQRES 7 B 88 PRO ARG ARG LYS THR LYS THR LEU MET LYS HELIX 1 1 ASP A 9 LEU A 27 1 19 HELIX 2 2 THR A 30 GLY A 43 1 14 HELIX 3 3 SER A 47 LEU A 57 1 11 HELIX 4 4 SER A 60 GLU A 79 1 20 HELIX 5 5 GLU A 112 ASN A 126 1 15 HELIX 6 6 THR A 130 ASN A 142 1 13 HELIX 7 7 GLU A 144 LYS A 160 1 17 HELIX 8 8 ASN B 213 ASN B 230 1 18 HELIX 9 9 HIS B 234 LYS B 247 1 14 HELIX 10 10 SER B 250 HIS B 272 1 23 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