HEADER TRANSCRIPTION/DNA 19-SEP-14 4RDU TITLE CRYSTAL STRUCTURE OF A DISTAL-LESS HOMEOBOX PROTEIN 5 (DLX5) FROM HOMO TITLE 2 SAPIENS AT 1.85 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HOMEOBOX PROTEIN DLX-5; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: DNA BINDING RESIDUES 137-198; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: (DC)(DG)(DA)(DC)(DT)(DA)(DA)(DT)(DT)(DA)(DG)(DT)(DC)(DG); COMPND 8 CHAIN: B, C, E, F; COMPND 9 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: BC006226, DLX5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PET28BGB1TEV; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS PF00046 FAMILY, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION-DNA COMPLEX, PARTNERSHIP FOR STEM CELL KEYWDS 4 BIOLOGY, STEMCELL EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG),PARTNERSHIP FOR STEM CELL AUTHOR 2 BIOLOGY (STEMCELL) REVDAT 4 20-SEP-23 4RDU 1 REMARK REVDAT 3 01-FEB-23 4RDU 1 SEQADV REVDAT 2 22-NOV-17 4RDU 1 SOURCE REMARK REVDAT 1 19-NOV-14 4RDU 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG), JRNL AUTH 2 PARTNERSHIP FOR STEM CELL BIOLOGY (STEMCELL) JRNL TITL CRYSTAL STRUCTURE OF A DISTAL-LESS HOMEOBOX PROTEIN 5 (DLX5) JRNL TITL 2 FROM HOMO SAPIENS AT 1.85 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 23315 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1188 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1571 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.3070 REMARK 3 BIN FREE R VALUE SET COUNT : 85 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1008 REMARK 3 NUCLEIC ACID ATOMS : 1114 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 233 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.79000 REMARK 3 B22 (A**2) : -3.44000 REMARK 3 B33 (A**2) : 3.53000 REMARK 3 B12 (A**2) : 1.68000 REMARK 3 B13 (A**2) : 0.94000 REMARK 3 B23 (A**2) : -1.41000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.153 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.492 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2313 ; 0.011 ; 0.015 REMARK 3 BOND LENGTHS OTHERS (A): 1732 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3352 ; 1.316 ; 1.515 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4015 ; 1.409 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 133 ; 4.955 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 47 ;30.428 ;21.915 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 224 ;13.370 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;23.005 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 324 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1830 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 527 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 138 A 198 4 REMARK 3 1 D 138 D 198 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 916 ; 0.370 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 916 ; 5.210 ; 2.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 1 B 14 4 REMARK 3 1 E 1 E 14 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 B (A): 443 ; 0.380 ; 0.500 REMARK 3 MEDIUM THERMAL 2 B (A**2): 443 ;11.360 ; 2.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : C F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 1 C 13 4 REMARK 3 1 F 1 F 13 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 3 C (A): 410 ; 0.350 ; 0.500 REMARK 3 MEDIUM THERMAL 3 C (A**2): 410 ; 6.410 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 138 A 198 REMARK 3 ORIGIN FOR THE GROUP (A): 43.5709 18.6864 64.8952 REMARK 3 T TENSOR REMARK 3 T11: 0.0661 T22: 0.2269 REMARK 3 T33: 0.0670 T12: 0.0266 REMARK 3 T13: -0.0565 T23: -0.0080 REMARK 3 L TENSOR REMARK 3 L11: 2.2604 L22: 1.7535 REMARK 3 L33: 1.5004 L12: -0.2119 REMARK 3 L13: -0.3260 L23: -0.1581 REMARK 3 S TENSOR REMARK 3 S11: -0.0456 S12: -0.0001 S13: 0.1175 REMARK 3 S21: 0.1013 S22: 0.0240 S23: 0.0004 REMARK 3 S31: -0.1491 S32: 0.0356 S33: 0.0215 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 14 REMARK 3 ORIGIN FOR THE GROUP (A): 47.0531 18.3199 53.3141 REMARK 3 T TENSOR REMARK 3 T11: 0.1109 T22: 0.3359 REMARK 3 T33: 0.1155 T12: 0.0242 REMARK 3 T13: -0.0739 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 1.4100 L22: 6.7192 REMARK 3 L33: 3.1087 L12: 0.4243 REMARK 3 L13: -0.9798 L23: -1.0038 REMARK 3 S TENSOR REMARK 3 S11: -0.0893 S12: 0.0722 S13: 0.0750 REMARK 3 S21: -0.4759 S22: 0.0728 S23: 0.0460 REMARK 3 S31: 0.0542 S32: -0.0889 S33: 0.0164 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 14 REMARK 3 ORIGIN FOR THE GROUP (A): 48.6210 16.1753 52.5788 REMARK 3 T TENSOR REMARK 3 T11: 0.0888 T22: 0.3008 REMARK 3 T33: 0.0782 T12: 0.0292 REMARK 3 T13: -0.0227 T23: 0.0221 REMARK 3 L TENSOR REMARK 3 L11: 2.4302 L22: 7.8270 REMARK 3 L33: 3.6764 L12: 0.4885 REMARK 3 L13: -0.0219 L23: 1.2875 REMARK 3 S TENSOR REMARK 3 S11: -0.0845 S12: 0.1058 S13: -0.1050 REMARK 3 S21: -0.3058 S22: 0.0446 S23: -0.4550 REMARK 3 S31: 0.1033 S32: 0.1779 S33: 0.0399 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 137 D 198 REMARK 3 ORIGIN FOR THE GROUP (A): 45.0864 1.1239 76.8714 REMARK 3 T TENSOR REMARK 3 T11: 0.1259 T22: 0.2034 REMARK 3 T33: 0.0413 T12: 0.0372 REMARK 3 T13: -0.0672 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.5654 L22: 2.8222 REMARK 3 L33: 2.7639 L12: 0.1825 REMARK 3 L13: 0.1324 L23: 0.2273 REMARK 3 S TENSOR REMARK 3 S11: 0.0777 S12: -0.0157 S13: -0.0653 REMARK 3 S21: 0.2301 S22: -0.0356 S23: -0.0668 REMARK 3 S31: 0.2059 S32: 0.0216 S33: -0.0421 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 1 E 14 REMARK 3 ORIGIN FOR THE GROUP (A): 40.1001 3.2042 88.1196 REMARK 3 T TENSOR REMARK 3 T11: 0.2473 T22: 0.1712 REMARK 3 T33: 0.0198 T12: -0.0043 REMARK 3 T13: 0.0050 T23: -0.0164 REMARK 3 L TENSOR REMARK 3 L11: 5.5024 L22: 8.7214 REMARK 3 L33: 3.0855 L12: 2.9492 REMARK 3 L13: 0.0154 L23: 0.2655 REMARK 3 S TENSOR REMARK 3 S11: 0.2491 S12: -0.1552 S13: -0.2222 REMARK 3 S21: 0.7125 S22: -0.2764 S23: 0.1367 REMARK 3 S31: 0.4237 S32: -0.2555 S33: 0.0273 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 1 F 13 REMARK 3 ORIGIN FOR THE GROUP (A): 38.4843 5.0608 89.0283 REMARK 3 T TENSOR REMARK 3 T11: 0.2296 T22: 0.2456 REMARK 3 T33: 0.0974 T12: -0.0046 REMARK 3 T13: 0.0095 T23: -0.0303 REMARK 3 L TENSOR REMARK 3 L11: 3.6647 L22: 5.0134 REMARK 3 L33: 3.2435 L12: 0.5540 REMARK 3 L13: 0.2111 L23: -0.0515 REMARK 3 S TENSOR REMARK 3 S11: 0.1789 S12: -0.3262 S13: 0.0116 REMARK 3 S21: 0.7119 S22: -0.2378 S23: 0.5197 REMARK 3 S31: 0.1669 S32: -0.2804 S33: 0.0589 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL REMARK 3 B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. 3.TLS GROUPS WERE ASSIGNED WITH THE AID OF THE TLSMD REMARK 3 (MOTION DETERMINATION) SERVER. 4. WATERS WERE EXCLUDED FROM TLS REMARK 3 ASSIGNMENT. REMARK 4 REMARK 4 4RDU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1000087222. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL14-1 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 : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : VERTICAL FOCUSING MIRROR; DOUBLE REMARK 200 CRYSTAL SI(111) MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23348 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 22.303 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.27100 REMARK 200 R SYM FOR SHELL (I) : 0.27100 REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: 1IG7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.08M SODIUM CHLORIDE, 45.00% 2-METHYL REMARK 280 -2,4-PENTANEDIOL, 0.012M SPERMINE TETRAHYDROCHLORIDE, 0.1M REMARK 280 SODIUM CACODYLATE PH 6.0, NANODROP, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F 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 GLY A 0 REMARK 465 HIS A 135 REMARK 465 MET A 136 REMARK 465 VAL A 137 REMARK 465 GLY D 0 REMARK 465 HIS D 135 REMARK 465 MET D 136 REMARK 465 DG F 14 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 ARG A 154 CD NE CZ NH1 NH2 REMARK 470 LYS A 193 CE NZ REMARK 470 VAL D 137 CG1 CG2 REMARK 470 LYS D 193 CD CE NZ REMARK 470 LYS D 197 CG CD CE NZ REMARK 470 ASN D 198 CG OD1 ND2 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 O HOH A 271 O HOH C 113 2.19 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 ARG A 189 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 DC C 1 C5' - C4' - C3' ANGL. DEV. = 7.5 DEGREES REMARK 500 DC C 1 C5' - C4' - O4' ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG D 154 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-430652 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (135-198) WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. IN THE REMARK 999 CONSTRUCT LYS 135 WAS MUTATED TO HIS AND LYS 136 WAS MUTATED TO MET. DBREF 4RDU A 135 198 UNP P56178 DLX5_HUMAN 135 198 DBREF 4RDU D 135 198 UNP P56178 DLX5_HUMAN 135 198 DBREF 4RDU B 1 14 PDB 4RDU 4RDU 1 14 DBREF 4RDU C 1 14 PDB 4RDU 4RDU 1 14 DBREF 4RDU E 1 14 PDB 4RDU 4RDU 1 14 DBREF 4RDU F 1 14 PDB 4RDU 4RDU 1 14 SEQADV 4RDU GLY A 0 UNP P56178 EXPRESSION TAG SEQADV 4RDU HIS A 135 UNP P56178 LYS 135 ENGINEERED MUTATION SEQADV 4RDU MET A 136 UNP P56178 LYS 136 ENGINEERED MUTATION SEQADV 4RDU GLY D 0 UNP P56178 EXPRESSION TAG SEQADV 4RDU HIS D 135 UNP P56178 LYS 135 ENGINEERED MUTATION SEQADV 4RDU MET D 136 UNP P56178 LYS 136 ENGINEERED MUTATION SEQRES 1 A 65 GLY HIS MET VAL ARG LYS PRO ARG THR ILE TYR SER SER SEQRES 2 A 65 PHE GLN LEU ALA ALA LEU GLN ARG ARG PHE GLN LYS THR SEQRES 3 A 65 GLN TYR LEU ALA LEU PRO GLU ARG ALA GLU LEU ALA ALA SEQRES 4 A 65 SER LEU GLY LEU THR GLN THR GLN VAL LYS ILE TRP PHE SEQRES 5 A 65 GLN ASN LYS ARG SER LYS ILE LYS LYS ILE MET LYS ASN SEQRES 1 B 14 DC DG DA DC DT DA DA DT DT DA DG DT DC SEQRES 2 B 14 DG SEQRES 1 C 14 DC DG DA DC DT DA DA DT DT DA DG DT DC SEQRES 2 C 14 DG SEQRES 1 D 65 GLY HIS MET VAL ARG LYS PRO ARG THR ILE TYR SER SER SEQRES 2 D 65 PHE GLN LEU ALA ALA LEU GLN ARG ARG PHE GLN LYS THR SEQRES 3 D 65 GLN TYR LEU ALA LEU PRO GLU ARG ALA GLU LEU ALA ALA SEQRES 4 D 65 SER LEU GLY LEU THR GLN THR GLN VAL LYS ILE TRP PHE SEQRES 5 D 65 GLN ASN LYS ARG SER LYS ILE LYS LYS ILE MET LYS ASN SEQRES 1 E 14 DC DG DA DC DT DA DA DT DT DA DG DT DC SEQRES 2 E 14 DG SEQRES 1 F 14 DC DG DA DC DT DA DA DT DT DA DG DT DC SEQRES 2 F 14 DG FORMUL 7 HOH *233(H2 O) HELIX 1 1 SER A 145 THR A 159 1 15 HELIX 2 2 ALA A 163 LEU A 174 1 12 HELIX 3 3 THR A 177 LYS A 197 1 21 HELIX 4 4 SER D 145 THR D 159 1 15 HELIX 5 5 ALA D 163 LEU D 174 1 12 HELIX 6 6 THR D 177 ASN D 198 1 22 CRYST1 34.182 42.913 56.104 84.13 77.33 67.13 P 1 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 0.029255 -0.012341 -0.006344 0.00000 SCALE2 0.000000 0.025291 -0.000479 0.00000 SCALE3 0.000000 0.000000 0.018272 0.00000