HEADER TRANSCRIPTION 02-MAY-15 4ZM2 TITLE ANTITOXIN PHD FROM PHAGE P1 IN COMPLEX WITH ITS OPERATOR DNA INVERTED TITLE 2 REPEAT IN A MONOCLINIC SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTITOXIN PHD; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: ADDICTION PROTEIN PDH,PREVENT HOST DEATH PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(GP*CP*TP*TP*GP*TP*GP*TP*AP*CP*AP*CP*AP*T)-3'); COMPND 8 CHAIN: E, G; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'-D(CP*AP*TP*GP*TP*GP*TP*AP*CP*AP*CP*AP*AP*G)-3'); COMPND 12 CHAIN: F, H; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE P1; SOURCE 3 ORGANISM_TAXID: 10678; SOURCE 4 GENE: PHD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE P1; SOURCE 10 ORGANISM_TAXID: 10678; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE P1; SOURCE 14 ORGANISM_TAXID: 10678 KEYWDS TRANSCRIPTION FACTOR, TOXIN-ANTITOXIN, DNA BINDING, INTRINSIC KEYWDS 2 DISORDER, CONDITIONAL COOPERATIVITY, PROTEIN-DNA COMPLEX, KEYWDS 3 TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR A.GARCIA-PINO,R.LORIS REVDAT 4 29-JUN-16 4ZM2 1 JRNL REVDAT 3 18-MAY-16 4ZM2 1 JRNL REVDAT 2 04-MAY-16 4ZM2 1 JRNL REVDAT 1 20-APR-16 4ZM2 0 JRNL AUTH A.GARCIA-PINO,S.DE GIETER,A.TALAVERA,H.DE GREVE,R.G.EFREMOV, JRNL AUTH 2 R.LORIS JRNL TITL AN INTRINSICALLY DISORDERED ENTROPIC SWITCH DETERMINES JRNL TITL 2 ALLOSTERY IN PHD-DOC REGULATION. JRNL REF NAT.CHEM.BIOL. V. 12 490 2016 JRNL REFN ESSN 1552-4469 JRNL PMID 27159580 JRNL DOI 10.1038/NCHEMBIO.2078 REMARK 2 REMARK 2 RESOLUTION. 3.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 4674 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) : 0.262 REMARK 3 R VALUE (WORKING SET) : 0.262 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 234 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 : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.88 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 4.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.39 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1184 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2667 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1125 REMARK 3 BIN R VALUE (WORKING SET) : 0.2639 REMARK 3 BIN FREE R VALUE : 0.3192 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.98 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 59 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 : 1623 REMARK 3 NUCLEIC ACID ATOMS : 1120 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 101.3 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 111.8 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 26.87380 REMARK 3 B22 (A**2) : 60.38300 REMARK 3 B33 (A**2) : -87.25680 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 9.03700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 1.018 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.819 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.814 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2957 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4224 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 886 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 51 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 304 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2957 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 402 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3147 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.45 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.39 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 28.97 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 5.0454 27.3911 6.3970 REMARK 3 T TENSOR REMARK 3 T11: -0.4149 T22: -0.0489 REMARK 3 T33: 0.6412 T12: -0.1528 REMARK 3 T13: -0.0762 T23: 0.2665 REMARK 3 L TENSOR REMARK 3 L11: 3.5002 L22: 1.6000 REMARK 3 L33: 6.6552 L12: -4.4375 REMARK 3 L13: -1.3384 L23: -4.6206 REMARK 3 S TENSOR REMARK 3 S11: -0.0570 S12: -0.8460 S13: -0.8985 REMARK 3 S21: -0.4530 S22: 0.6646 S23: 0.1143 REMARK 3 S31: 0.4478 S32: -0.1347 S33: -0.6075 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 6.3528 33.8077 8.1088 REMARK 3 T TENSOR REMARK 3 T11: 0.1044 T22: 0.2425 REMARK 3 T33: -0.1077 T12: 0.0464 REMARK 3 T13: 0.1047 T23: 0.0782 REMARK 3 L TENSOR REMARK 3 L11: 0.7822 L22: 1.5356 REMARK 3 L33: 9.2910 L12: 2.5739 REMARK 3 L13: 1.2559 L23: -2.4092 REMARK 3 S TENSOR REMARK 3 S11: 0.7954 S12: 0.1992 S13: -0.2562 REMARK 3 S21: 0.0058 S22: 0.3664 S23: 1.1719 REMARK 3 S31: -0.5267 S32: 0.7138 S33: -1.1618 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): 27.6311 -5.4701 7.6822 REMARK 3 T TENSOR REMARK 3 T11: 0.0931 T22: 0.0933 REMARK 3 T33: 0.3331 T12: -0.0157 REMARK 3 T13: -0.0501 T23: -0.1018 REMARK 3 L TENSOR REMARK 3 L11: 2.1301 L22: 3.9078 REMARK 3 L33: 2.4213 L12: -1.4646 REMARK 3 L13: -3.1819 L23: -6.8309 REMARK 3 S TENSOR REMARK 3 S11: 0.1138 S12: 0.5855 S13: 0.1565 REMARK 3 S21: 0.9315 S22: 0.4063 S23: 0.0675 REMARK 3 S31: -0.3723 S32: 0.0089 S33: -0.5201 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): 26.4856 -11.4323 5.3860 REMARK 3 T TENSOR REMARK 3 T11: 0.0362 T22: 0.0004 REMARK 3 T33: 0.2748 T12: 0.0303 REMARK 3 T13: -0.0538 T23: 0.0368 REMARK 3 L TENSOR REMARK 3 L11: -0.2065 L22: 0.0000 REMARK 3 L33: 7.6494 L12: 2.2642 REMARK 3 L13: -0.2884 L23: 3.1763 REMARK 3 S TENSOR REMARK 3 S11: -0.1161 S12: 0.3136 S13: -0.0177 REMARK 3 S21: 0.2488 S22: 0.2692 S23: 0.6155 REMARK 3 S31: 0.1257 S32: 0.0351 S33: -0.1531 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { E|* } REMARK 3 ORIGIN FOR THE GROUP (A): 32.9102 -6.2744 -14.0096 REMARK 3 T TENSOR REMARK 3 T11: 0.2851 T22: -0.0590 REMARK 3 T33: 0.5038 T12: -0.1927 REMARK 3 T13: 0.3134 T23: -0.3404 REMARK 3 L TENSOR REMARK 3 L11: -0.9318 L22: 3.5290 REMARK 3 L33: 0.9318 L12: -3.3235 REMARK 3 L13: 1.0014 L23: -3.3160 REMARK 3 S TENSOR REMARK 3 S11: -0.5468 S12: 0.8708 S13: 0.7396 REMARK 3 S21: -1.1940 S22: 1.0885 S23: 0.0618 REMARK 3 S31: 0.8636 S32: 0.7598 S33: -0.5417 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { F|* } REMARK 3 ORIGIN FOR THE GROUP (A): 32.1882 -3.4245 -13.1081 REMARK 3 T TENSOR REMARK 3 T11: -0.1262 T22: -0.2021 REMARK 3 T33: 0.6475 T12: -0.1171 REMARK 3 T13: -0.0941 T23: -0.1251 REMARK 3 L TENSOR REMARK 3 L11: 3.0807 L22: 4.3512 REMARK 3 L33: 3.9016 L12: -4.0991 REMARK 3 L13: -4.6837 L23: 4.6426 REMARK 3 S TENSOR REMARK 3 S11: 0.2505 S12: -0.6613 S13: 0.1648 REMARK 3 S21: -1.1089 S22: 0.2998 S23: -0.1544 REMARK 3 S31: -0.8279 S32: 0.0170 S33: -0.5503 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { G|* } REMARK 3 ORIGIN FOR THE GROUP (A): -0.1359 29.0364 -14.3172 REMARK 3 T TENSOR REMARK 3 T11: -0.1520 T22: -0.2314 REMARK 3 T33: 0.3892 T12: -0.3941 REMARK 3 T13: -0.4276 T23: 0.1716 REMARK 3 L TENSOR REMARK 3 L11: 0.7990 L22: 0.0000 REMARK 3 L33: 9.8080 L12: -0.9573 REMARK 3 L13: -0.8270 L23: -6.6313 REMARK 3 S TENSOR REMARK 3 S11: 0.6583 S12: -0.5212 S13: -0.5648 REMARK 3 S21: -1.4114 S22: 0.2578 S23: 0.6146 REMARK 3 S31: 0.4707 S32: -1.3746 S33: -0.9161 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: { H|* } REMARK 3 ORIGIN FOR THE GROUP (A): 1.2090 26.2907 -13.3134 REMARK 3 T TENSOR REMARK 3 T11: 0.4643 T22: -0.3413 REMARK 3 T33: 0.4504 T12: -0.0955 REMARK 3 T13: 0.0176 T23: -0.0525 REMARK 3 L TENSOR REMARK 3 L11: 9.7105 L22: 0.0429 REMARK 3 L33: 0.6003 L12: -2.3163 REMARK 3 L13: 2.6728 L23: -7.1659 REMARK 3 S TENSOR REMARK 3 S11: 0.0710 S12: -0.1520 S13: -0.6683 REMARK 3 S21: -1.2804 S22: -0.2554 S23: 0.6661 REMARK 3 S31: 0.6147 S32: 0.5214 S33: 0.1844 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4ZM2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000209526. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9786 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 4674 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.880 REMARK 200 RESOLUTION RANGE LOW (A) : 43.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.6300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.02 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.550 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: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% 1,4-DIOXANE AND 200 MM NACL, 100 REMARK 280 MM TRIS PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 28.29000 REMARK 290 SMTRY3 2 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, G, H 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 ASP A 53 REMARK 465 ALA A 54 REMARK 465 GLU A 55 REMARK 465 PHE A 56 REMARK 465 ALA A 57 REMARK 465 SER A 58 REMARK 465 LEU A 59 REMARK 465 PHE A 60 REMARK 465 ASP A 61 REMARK 465 THR A 62 REMARK 465 LEU A 63 REMARK 465 ASP A 64 REMARK 465 SER A 65 REMARK 465 THR A 66 REMARK 465 ASN A 67 REMARK 465 LYS A 68 REMARK 465 GLU A 69 REMARK 465 LEU A 70 REMARK 465 VAL A 71 REMARK 465 ASN A 72 REMARK 465 ARG A 73 REMARK 465 THR B 62 REMARK 465 LEU B 63 REMARK 465 ASP B 64 REMARK 465 SER B 65 REMARK 465 THR B 66 REMARK 465 ASN B 67 REMARK 465 LYS B 68 REMARK 465 GLU B 69 REMARK 465 LEU B 70 REMARK 465 VAL B 71 REMARK 465 ASN B 72 REMARK 465 ARG B 73 REMARK 465 PHE C 56 REMARK 465 ALA C 57 REMARK 465 SER C 58 REMARK 465 LEU C 59 REMARK 465 PHE C 60 REMARK 465 ASP C 61 REMARK 465 THR C 62 REMARK 465 LEU C 63 REMARK 465 ASP C 64 REMARK 465 SER C 65 REMARK 465 THR C 66 REMARK 465 ASN C 67 REMARK 465 LYS C 68 REMARK 465 GLU C 69 REMARK 465 LEU C 70 REMARK 465 VAL C 71 REMARK 465 ASN C 72 REMARK 465 ARG C 73 REMARK 465 ALA D 54 REMARK 465 GLU D 55 REMARK 465 PHE D 56 REMARK 465 ALA D 57 REMARK 465 SER D 58 REMARK 465 LEU D 59 REMARK 465 PHE D 60 REMARK 465 ASP D 61 REMARK 465 THR D 62 REMARK 465 LEU D 63 REMARK 465 ASP D 64 REMARK 465 SER D 65 REMARK 465 THR D 66 REMARK 465 ASN D 67 REMARK 465 LYS D 68 REMARK 465 GLU D 69 REMARK 465 LEU D 70 REMARK 465 VAL D 71 REMARK 465 ASN D 72 REMARK 465 ARG D 73 REMARK 465 DC H 1 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 GLN A 2 CG CD OE1 NE2 REMARK 470 ARG A 7 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 38 CG1 CG2 CD1 REMARK 470 LYS A 49 CG CD CE NZ REMARK 470 ALA A 50 CB REMARK 470 LEU A 52 CG CD1 CD2 REMARK 470 MET B 1 CG SD CE REMARK 470 PHE B 6 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 10 CB CG CD NE CZ NH1 NH2 REMARK 470 LEU B 13 CG CD1 CD2 REMARK 470 GLU B 24 CG CD OE1 OE2 REMARK 470 VAL B 26 CG1 CG2 REMARK 470 VAL B 37 CG1 CG2 REMARK 470 ILE B 38 CG1 CG2 CD1 REMARK 470 PHE B 56 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU B 59 CG CD1 CD2 REMARK 470 PHE B 60 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG C 7 CG CD NE CZ NH1 NH2 REMARK 470 VAL C 37 CG1 CG2 REMARK 470 ILE C 38 CG1 CG2 CD1 REMARK 470 LEU C 52 CG CD1 CD2 REMARK 470 GLU C 55 CG CD OE1 OE2 REMARK 470 LEU D 13 CG CD1 CD2 REMARK 470 GLU D 24 CG CD OE1 OE2 REMARK 470 LEU D 52 CG CD1 CD2 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 DT E 8 O3' DT E 8 C3' -0.057 REMARK 500 DA E 9 O3' DA E 9 C3' -0.049 REMARK 500 DA E 11 O5' DA E 11 C5' -0.154 REMARK 500 DC E 12 O3' DC E 12 C3' -0.052 REMARK 500 DA F 2 C5 DA F 2 C6 0.058 REMARK 500 DA F 2 N9 DA F 2 C4 0.042 REMARK 500 DG F 4 O3' DG F 4 C3' -0.048 REMARK 500 DT F 5 O3' DT F 5 C3' 0.085 REMARK 500 DT F 7 O3' DT F 7 C3' -0.040 REMARK 500 DA F 8 N9 DA F 8 C4 0.042 REMARK 500 DC F 9 C1' DC F 9 N1 0.097 REMARK 500 DA F 10 O3' DA F 10 C3' -0.096 REMARK 500 DG F 14 O3' DG F 14 C3' -0.038 REMARK 500 DT G 8 O3' DT G 8 C3' -0.058 REMARK 500 DA G 9 O3' DA G 9 C3' -0.043 REMARK 500 DC G 10 O3' DC G 10 C3' -0.042 REMARK 500 DA G 13 O3' DA G 13 C3' -0.048 REMARK 500 DT H 7 O3' DT H 7 C3' -0.052 REMARK 500 DA H 8 C5' DA H 8 C4' 0.042 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 DG E 1 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES REMARK 500 DT E 4 C4' - C3' - C2' ANGL. DEV. = -4.2 DEGREES REMARK 500 DT F 5 C3' - O3' - P ANGL. DEV. = 10.6 DEGREES REMARK 500 DA F 8 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC F 9 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC G 2 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT G 6 O4' - C1' - N1 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT G 8 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA H 2 C3' - O3' - P ANGL. DEV. = 9.2 DEGREES REMARK 500 DT H 7 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DT H 7 O4' - C1' - N1 ANGL. DEV. = 2.8 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 PHE B 56 -70.67 -138.32 REMARK 500 LEU C 52 -9.61 -59.11 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 DG F 4 0.06 SIDE CHAIN REMARK 500 DG H 4 0.05 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 4ZM2 A 1 73 UNP Q06253 PHD_BPP1 1 73 DBREF 4ZM2 B 1 73 UNP Q06253 PHD_BPP1 1 73 DBREF 4ZM2 C 1 73 UNP Q06253 PHD_BPP1 1 73 DBREF 4ZM2 D 1 73 UNP Q06253 PHD_BPP1 1 73 DBREF 4ZM2 E 1 14 PDB 4ZM2 4ZM2 1 14 DBREF 4ZM2 F 1 14 PDB 4ZM2 4ZM2 1 14 DBREF 4ZM2 G 1 14 PDB 4ZM2 4ZM2 1 14 DBREF 4ZM2 H 1 14 PDB 4ZM2 4ZM2 1 14 SEQRES 1 A 73 MET GLN SER ILE ASN PHE ARG THR ALA ARG GLY ASN LEU SEQRES 2 A 73 SER GLU VAL LEU ASN ASN VAL GLU ALA GLY GLU GLU VAL SEQRES 3 A 73 GLU ILE THR ARG ARG GLY ARG GLU PRO ALA VAL ILE VAL SEQRES 4 A 73 SER LYS ALA THR PHE GLU ALA TYR LYS LYS ALA ALA LEU SEQRES 5 A 73 ASP ALA GLU PHE ALA SER LEU PHE ASP THR LEU ASP SER SEQRES 6 A 73 THR ASN LYS GLU LEU VAL ASN ARG SEQRES 1 B 73 MET GLN SER ILE ASN PHE ARG THR ALA ARG GLY ASN LEU SEQRES 2 B 73 SER GLU VAL LEU ASN ASN VAL GLU ALA GLY GLU GLU VAL SEQRES 3 B 73 GLU ILE THR ARG ARG GLY ARG GLU PRO ALA VAL ILE VAL SEQRES 4 B 73 SER LYS ALA THR PHE GLU ALA TYR LYS LYS ALA ALA LEU SEQRES 5 B 73 ASP ALA GLU PHE ALA SER LEU PHE ASP THR LEU ASP SER SEQRES 6 B 73 THR ASN LYS GLU LEU VAL ASN ARG SEQRES 1 C 73 MET GLN SER ILE ASN PHE ARG THR ALA ARG GLY ASN LEU SEQRES 2 C 73 SER GLU VAL LEU ASN ASN VAL GLU ALA GLY GLU GLU VAL SEQRES 3 C 73 GLU ILE THR ARG ARG GLY ARG GLU PRO ALA VAL ILE VAL SEQRES 4 C 73 SER LYS ALA THR PHE GLU ALA TYR LYS LYS ALA ALA LEU SEQRES 5 C 73 ASP ALA GLU PHE ALA SER LEU PHE ASP THR LEU ASP SER SEQRES 6 C 73 THR ASN LYS GLU LEU VAL ASN ARG SEQRES 1 D 73 MET GLN SER ILE ASN PHE ARG THR ALA ARG GLY ASN LEU SEQRES 2 D 73 SER GLU VAL LEU ASN ASN VAL GLU ALA GLY GLU GLU VAL SEQRES 3 D 73 GLU ILE THR ARG ARG GLY ARG GLU PRO ALA VAL ILE VAL SEQRES 4 D 73 SER LYS ALA THR PHE GLU ALA TYR LYS LYS ALA ALA LEU SEQRES 5 D 73 ASP ALA GLU PHE ALA SER LEU PHE ASP THR LEU ASP SER SEQRES 6 D 73 THR ASN LYS GLU LEU VAL ASN ARG SEQRES 1 E 14 DG DC DT DT DG DT DG DT DA DC DA DC DA SEQRES 2 E 14 DT SEQRES 1 F 14 DC DA DT DG DT DG DT DA DC DA DC DA DA SEQRES 2 F 14 DG SEQRES 1 G 14 DG DC DT DT DG DT DG DT DA DC DA DC DA SEQRES 2 G 14 DT SEQRES 1 H 14 DC DA DT DG DT DG DT DA DC DA DC DA DA SEQRES 2 H 14 DG HELIX 1 AA1 PHE A 6 ASN A 12 1 7 HELIX 2 AA2 ASN A 12 ALA A 22 1 11 HELIX 3 AA3 LYS A 41 LEU A 52 1 12 HELIX 4 AA4 PHE B 6 ASN B 12 1 7 HELIX 5 AA5 ASN B 12 ALA B 22 1 11 HELIX 6 AA6 LYS B 41 GLU B 55 1 15 HELIX 7 AA7 PHE C 6 ASN C 12 1 7 HELIX 8 AA8 ASN C 12 ALA C 22 1 11 HELIX 9 AA9 LYS C 41 LEU C 52 1 12 HELIX 10 AB1 PHE D 6 ASN D 12 1 7 HELIX 11 AB2 ASN D 12 ALA D 22 1 11 HELIX 12 AB3 LYS D 41 LEU D 52 1 12 SHEET 1 AA1 6 GLN A 2 ASN A 5 0 SHEET 2 AA1 6 VAL A 26 ARG A 30 1 O GLU A 27 N GLN A 2 SHEET 3 AA1 6 ARG A 33 SER A 40 -1 O ALA A 36 N ILE A 28 SHEET 4 AA1 6 ALA B 36 SER B 40 -1 O VAL B 37 N VAL A 39 SHEET 5 AA1 6 VAL B 26 THR B 29 -1 N ILE B 28 O ALA B 36 SHEET 6 AA1 6 GLN B 2 ASN B 5 1 N ILE B 4 O GLU B 27 SHEET 1 AA2 6 GLN C 2 ASN C 5 0 SHEET 2 AA2 6 VAL C 26 THR C 29 1 O GLU C 27 N ILE C 4 SHEET 3 AA2 6 ALA C 36 SER C 40 -1 O ALA C 36 N ILE C 28 SHEET 4 AA2 6 ALA D 36 SER D 40 -1 O VAL D 37 N VAL C 39 SHEET 5 AA2 6 VAL D 26 THR D 29 -1 N ILE D 28 O ALA D 36 SHEET 6 AA2 6 GLN D 2 ASN D 5 1 N ILE D 4 O GLU D 27 CISPEP 1 LEU B 59 PHE B 60 0 -0.92 CRYST1 65.870 56.580 74.840 90.00 111.47 90.00 P 1 21 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 0.015181 0.000000 0.005971 0.00000 SCALE2 0.000000 0.017674 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014358 0.00000