HEADER TRANSCRIPTION/DNA 09-JUN-94 1MDY TITLE CRYSTAL STRUCTURE OF MYOD BHLH DOMAIN BOUND TO DNA: PERSPECTIVES ON TITLE 2 DNA RECOGNITION AND IMPLICATIONS FOR TRANSCRIPTIONAL ACTIVATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*CP*AP*AP*CP*AP*GP*CP*TP*GP*TP*TP*GP*A)-3'); COMPND 3 CHAIN: E, F, G, H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PROTEIN (MYOD BHLH DOMAIN); COMPND 7 CHAIN: A; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: PROTEIN (MYOD BHLH DOMAIN); COMPND 10 CHAIN: B, C, D SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 5 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 6 ORGANISM_TAXID: 10090; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 10 ORGANISM_TAXID: 10090 KEYWDS PROTEIN-DNA COMPLEX, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.C.M.MA,M.A.ROULD,H.WEINTRAUB,C.O.PABO REVDAT 4 14-FEB-24 1MDY 1 REMARK REVDAT 3 24-FEB-09 1MDY 1 VERSN REVDAT 2 01-APR-03 1MDY 1 JRNL REVDAT 1 31-AUG-94 1MDY 0 JRNL AUTH P.C.MA,M.A.ROULD,H.WEINTRAUB,C.O.PABO JRNL TITL CRYSTAL STRUCTURE OF MYOD BHLH DOMAIN-DNA COMPLEX: JRNL TITL 2 PERSPECTIVES ON DNA RECOGNITION AND IMPLICATIONS FOR JRNL TITL 3 TRANSCRIPTIONAL ACTIVATION. JRNL REF CELL(CAMBRIDGE,MASS.) V. 77 451 1994 JRNL REFN ISSN 0092-8674 JRNL PMID 8181063 JRNL DOI 10.1016/0092-8674(94)90159-7 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.253 REMARK 3 FREE R VALUE : 0.330 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2086 REMARK 3 NUCLEIC ACID ATOMS : 1136 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 25 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1MDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000174968. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 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 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 111.40000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 111.40000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.40000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS FOUR MONOMERS OF MYOD TOGETHER REMARK 300 WITH TWO DOUBLE-STRANDED 14 BASE PAIR OLIGONUCLEOTIDES. REMARK 300 THERE ARE, THUS, TWO HOMODIMERS OF MYOD BOUND TO TWO DNA REMARK 300 SITES IN THE ASYMMETRIC UNIT. THE DEPOSITORS HAVE INCLUDED REMARK 300 RESIDUES 105 - 166 OF ALL FOUR OF THE MYOD MONOMERS IN REMARK 300 THEIR MODEL. RESIDUES 1 - 3 AND 102 - 104 ARE ALSO REMARK 300 INCLUDED IN ONE OUT OF THE FOUR MONOMERS, WHERE THESE REMARK 300 RESIDUES ARE INVOLVED IN CRYSTAL PACKING CONTACTS. REMARK 300 REMARK 300 THE TRANSFORMATION PRESENTED ON *MTRIX 1* RECORDS BELOW REMARK 300 WILL YIELD APPROXIMATE COORDINATES FOR CHAIN *B* WHEN REMARK 300 APPLIED TO CHAIN *A*. THE TRANSFORMATION PRESENTED ON REMARK 300 *MTRIX 2* RECORDS BELOW WILL YIELD APPROXIMATE COORDINATES REMARK 300 FOR CHAIN *D* WHEN APPLIED TO CHAIN *C*. 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: E, F, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, H, C, D 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 400 REMARK 400 COMPOUND REMARK 400 DNA SYNTHETIC OLIGONUCLEOTIDE OF 14 BASE PAIRS, CONTAINING REMARK 400 THE OPTIMIZED DNA BINDING SITE FOR THE MYOD HOMODIMER: REMARK 400 5'-(TCAACAGCTGTTGA)-3'. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OP2 DC E 5 O HOH E 19 2.15 REMARK 500 O4 DT F 25 O HOH F 30 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DC E 2 O3' DC E 2 C3' -0.053 REMARK 500 DC F 16 O3' DC F 16 C3' -0.038 REMARK 500 DC H 44 O3' DC H 44 C3' -0.038 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 DT E 1 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC E 2 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC E 5 P - O5' - C5' ANGL. DEV. = -10.7 DEGREES REMARK 500 DC E 5 O4' - C4' - C3' ANGL. DEV. = -3.7 DEGREES REMARK 500 DA E 6 O4' - C1' - N9 ANGL. DEV. = 6.0 DEGREES REMARK 500 DC E 8 C1' - O4' - C4' ANGL. DEV. = -6.2 DEGREES REMARK 500 DT E 9 O4' - C4' - C3' ANGL. DEV. = -3.9 DEGREES REMARK 500 DT E 9 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT E 11 O4' - C1' - N1 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT E 12 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DA E 14 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DT F 15 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 DC F 16 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC F 19 O4' - C4' - C3' ANGL. DEV. = -3.5 DEGREES REMARK 500 DA F 20 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES REMARK 500 DG F 21 O5' - C5' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DG F 21 C3' - O3' - P ANGL. DEV. = 9.2 DEGREES REMARK 500 DT F 23 O4' - C4' - C3' ANGL. DEV. = -4.6 DEGREES REMARK 500 DT F 25 O4' - C1' - N1 ANGL. DEV. = -4.9 DEGREES REMARK 500 DT F 26 O4' - C1' - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 DA F 28 C3' - C2' - C1' ANGL. DEV. = -6.5 DEGREES REMARK 500 DT G 29 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC G 30 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA G 31 O4' - C1' - N9 ANGL. DEV. = -4.6 DEGREES REMARK 500 DA G 32 P - O5' - C5' ANGL. DEV. = -12.1 DEGREES REMARK 500 DC G 33 P - O5' - C5' ANGL. DEV. = -10.6 DEGREES REMARK 500 DA G 34 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG G 35 O5' - C5' - C4' ANGL. DEV. = -5.7 DEGREES REMARK 500 DC G 36 C1' - O4' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 DT G 37 O4' - C4' - C3' ANGL. DEV. = -4.0 DEGREES REMARK 500 DT G 37 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT G 39 O4' - C1' - N1 ANGL. DEV. = -6.7 DEGREES REMARK 500 DT G 40 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 DA G 42 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA G 42 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT H 43 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC H 47 O4' - C4' - C3' ANGL. DEV. = -5.2 DEGREES REMARK 500 DA H 48 O4' - C1' - N9 ANGL. DEV. = 6.6 DEGREES REMARK 500 DA H 48 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DG H 49 C3' - O3' - P ANGL. DEV. = 8.3 DEGREES REMARK 500 DT H 51 O4' - C4' - C3' ANGL. DEV. = -4.7 DEGREES REMARK 500 DT H 51 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT H 53 O4' - C1' - N1 ANGL. DEV. = -6.2 DEGREES REMARK 500 DT H 54 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES REMARK 500 DA H 56 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 102 -159.47 -143.86 REMARK 500 LYS A 104 -53.05 -156.12 REMARK 500 THR A 105 31.87 -88.61 REMARK 500 SER A 135 -61.73 -106.80 REMARK 500 THR A 136 -79.63 -54.42 REMARK 500 GLN A 142 -162.97 -75.95 REMARK 500 ARG A 143 70.18 -157.28 REMARK 500 LEU A 163 10.73 -61.25 REMARK 500 LEU A 164 12.34 -150.48 REMARK 500 ASN B 107 24.03 -74.43 REMARK 500 ARG B 119 -70.78 -51.33 REMARK 500 LEU B 163 35.88 -84.47 REMARK 500 LEU B 164 54.02 -165.33 REMARK 500 ASN C 107 -62.08 -94.30 REMARK 500 SER C 135 -9.91 -146.94 REMARK 500 SER C 138 -84.04 -66.37 REMARK 500 ASN C 139 102.17 -56.96 REMARK 500 GLN C 142 103.90 -52.29 REMARK 500 THR D 106 25.17 -69.80 REMARK 500 ASN D 107 -67.39 -122.02 REMARK 500 THR D 115 -62.07 -99.94 REMARK 500 ASN D 139 99.06 -57.89 REMARK 500 ASN D 141 -40.92 70.81 REMARK 500 ARG D 165 -87.36 -167.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PROTEIN RESIDUES ARE NUMBERED ACCORDING TO THE NATIVE REMARK 999 SCHEME FOR MOUSE MYOD PROTEIN. THERE ARE FOUR SEPARATE REMARK 999 MYOD MONOMERS IN THE ASYMMETRIC UNIT, WHICH HAVE BEEN REMARK 999 ASSIGNED CHAIN IDENTIFIERS A, B, C, AND D. MONOMER A FORMS REMARK 999 A DIMER WITH MONOMER B; MONOMER C FORMS A DIMER WITH REMARK 999 MONOMER D. THERE ARE FOUR DNA STRANDS IN THE ASYMMETRIC REMARK 999 UNIT, WHICH HAVE BEEN ASSIGNED CHAIN IDENTIFIERS E, F, G, REMARK 999 AND H. STRAND E FORMS A DOUBLE STRAND WITH F, WHILE G AND REMARK 999 H FORM THE OTHER DOUBLE STRAND. MYOD DIMER AB IS BOUND TO REMARK 999 DNA DOUBLE STRAND EF. MYOD DIMER CD IS BOUND TO DNA DOUBLE REMARK 999 STRAND GH. DBREF 1MDY A 102 166 UNP P10085 MYOD_MOUSE 102 166 DBREF 1MDY B 105 166 UNP P10085 MYOD_MOUSE 105 166 DBREF 1MDY C 105 166 UNP P10085 MYOD_MOUSE 105 166 DBREF 1MDY D 105 166 UNP P10085 MYOD_MOUSE 105 166 DBREF 1MDY E 1 14 PDB 1MDY 1MDY 1 14 DBREF 1MDY F 15 28 PDB 1MDY 1MDY 15 28 DBREF 1MDY G 29 42 PDB 1MDY 1MDY 29 42 DBREF 1MDY H 43 56 PDB 1MDY 1MDY 43 56 SEQRES 1 E 14 DT DC DA DA DC DA DG DC DT DG DT DT DG SEQRES 2 E 14 DA SEQRES 1 F 14 DT DC DA DA DC DA DG DC DT DG DT DT DG SEQRES 2 F 14 DA SEQRES 1 G 14 DT DC DA DA DC DA DG DC DT DG DT DT DG SEQRES 2 G 14 DA SEQRES 1 H 14 DT DC DA DA DC DA DG DC DT DG DT DT DG SEQRES 2 H 14 DA SEQRES 1 A 68 MET GLU LEU LYS ARG LYS THR THR ASN ALA ASP ARG ARG SEQRES 2 A 68 LYS ALA ALA THR MET ARG GLU ARG ARG ARG LEU SER LYS SEQRES 3 A 68 VAL ASN GLU ALA PHE GLU THR LEU LYS ARG SER THR SER SEQRES 4 A 68 SER ASN PRO ASN GLN ARG LEU PRO LYS VAL GLU ILE LEU SEQRES 5 A 68 ARG ASN ALA ILE ARG TYR ILE GLU GLY LEU GLN ALA LEU SEQRES 6 A 68 LEU ARG ASP SEQRES 1 B 62 THR THR ASN ALA ASP ARG ARG LYS ALA ALA THR MET ARG SEQRES 2 B 62 GLU ARG ARG ARG LEU SER LYS VAL ASN GLU ALA PHE GLU SEQRES 3 B 62 THR LEU LYS ARG SER THR SER SER ASN PRO ASN GLN ARG SEQRES 4 B 62 LEU PRO LYS VAL GLU ILE LEU ARG ASN ALA ILE ARG TYR SEQRES 5 B 62 ILE GLU GLY LEU GLN ALA LEU LEU ARG ASP SEQRES 1 C 62 THR THR ASN ALA ASP ARG ARG LYS ALA ALA THR MET ARG SEQRES 2 C 62 GLU ARG ARG ARG LEU SER LYS VAL ASN GLU ALA PHE GLU SEQRES 3 C 62 THR LEU LYS ARG SER THR SER SER ASN PRO ASN GLN ARG SEQRES 4 C 62 LEU PRO LYS VAL GLU ILE LEU ARG ASN ALA ILE ARG TYR SEQRES 5 C 62 ILE GLU GLY LEU GLN ALA LEU LEU ARG ASP SEQRES 1 D 62 THR THR ASN ALA ASP ARG ARG LYS ALA ALA THR MET ARG SEQRES 2 D 62 GLU ARG ARG ARG LEU SER LYS VAL ASN GLU ALA PHE GLU SEQRES 3 D 62 THR LEU LYS ARG SER THR SER SER ASN PRO ASN GLN ARG SEQRES 4 D 62 LEU PRO LYS VAL GLU ILE LEU ARG ASN ALA ILE ARG TYR SEQRES 5 D 62 ILE GLU GLY LEU GLN ALA LEU LEU ARG ASP FORMUL 9 HOH *25(H2 O) HELIX 1 H1 ASN A 107 SER A 138 1BASIC HEL. & HEL.1 FROM MON.1 32 HELIX 2 H2 LYS A 146 ASP A 166 1HELIX 2 FROM MONOMER 1 21 HELIX 3 H3 ASN B 107 SER B 138 1BASIC HEL. & HEL.1 FROM MON.2 32 HELIX 4 H4 LYS B 146 ASP B 166 1HELIX 2 FROM MONOMER 2 21 HELIX 5 H5 ASN C 107 SER C 138 1BASIC HEL. & HEL.1 FROM MON.3 32 HELIX 6 H6 LYS C 146 ASP C 166 1HELIX 2 FROM MONOMER 3 21 HELIX 7 H7 ASN D 107 SER D 138 1BASIC HEL. & HEL.1 FROM MON.4 32 HELIX 8 H8 LYS D 146 ASP D 166 1HELIX 2 FROM MONOMER 4 21 CRYST1 222.800 70.800 30.000 90.00 90.00 90.00 P 21 21 2 16 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 0.004488 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014124 0.000000 0.00000 SCALE3 0.000000 0.000000 0.033333 0.00000 MTRIX1 1 -0.645814 0.720520 -0.252539 102.97015 1 MTRIX2 1 0.744460 0.667667 0.001127 -45.90718 1 MTRIX3 1 0.169423 -0.187277 -0.967586 11.36556 1 MTRIX1 2 -0.533164 0.834325 0.140135 173.68367 1 MTRIX2 2 0.807272 0.551272 -0.210739 -90.34569 1 MTRIX3 2 -0.253077 0.000768 -0.967446 34.22189 1