HEADER DE NOVO PROTEIN 18-OCT-11 3VJF TITLE CRYSTAL STRUCTURE OF DE NOVO 4-HELIX BUNDLE PROTEIN WA20 COMPND MOL_ID: 1; COMPND 2 MOLECULE: WA20; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: A DE NOVO PROTEIN FROM ARTIFICIALLY DESIGNED COMPND 6 SUPERFAMILY OF 4-HELIX BUNDLE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-3A KEYWDS PROTEIN DESIGN, DE NOVO PROTEIN, BINARY PATTERNED DESIGN, FOUR HELIX KEYWDS 2 BUNDLE, 3D DOMAIN SWAPPING, RUDIMENTARY ENZYMATIC ACTIVITIES EXPDTA X-RAY DIFFRACTION AUTHOR R.ARAI,A.KIMURA,N.KOBAYASHI,K.MATSUO,T.SATO,A.F.WANG,J.M.PLATT, AUTHOR 2 L.H.BRADLEY,M.H.HECHT REVDAT 3 22-NOV-17 3VJF 1 REMARK REVDAT 2 17-JUL-13 3VJF 1 JRNL REVDAT 1 28-MAR-12 3VJF 0 JRNL AUTH R.ARAI,N.KOBAYASHI,A.KIMURA,T.SATO,K.MATSUO,A.F.WANG, JRNL AUTH 2 J.M.PLATT,L.H.BRADLEY,M.H.HECHT JRNL TITL DOMAIN-SWAPPED DIMERIC STRUCTURE OF A STABLE AND FUNCTIONAL JRNL TITL 2 DE NOVO FOUR-HELIX BUNDLE PROTEIN, WA20 JRNL REF J.PHYS.CHEM.B V. 116 6789 2012 JRNL REFN ISSN 1089-5647 JRNL PMID 22397676 JRNL DOI 10.1021/JP212438H REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 11007 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) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 528 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 652 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 35 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1635 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.11000 REMARK 3 B22 (A**2) : 3.60000 REMARK 3 B33 (A**2) : -2.49000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.232 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.056 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.927 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1674 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2242 ; 1.165 ; 1.868 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 186 ; 4.707 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;39.823 ;26.239 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 321 ;17.409 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 2 ;17.355 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 222 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1314 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 937 ; 0.476 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1502 ; 0.971 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 737 ; 1.892 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 740 ; 2.800 ; 4.500 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 18 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 3 A 18 REMARK 3 ORIGIN FOR THE GROUP (A): 30.6364 25.6290 37.3327 REMARK 3 T TENSOR REMARK 3 T11: 0.8700 T22: 0.3629 REMARK 3 T33: 0.6830 T12: -0.2192 REMARK 3 T13: 0.1607 T23: 0.3855 REMARK 3 L TENSOR REMARK 3 L11: 27.6216 L22: 5.6235 REMARK 3 L33: 16.1982 L12: 7.6448 REMARK 3 L13: -20.9149 L23: -5.7150 REMARK 3 S TENSOR REMARK 3 S11: -1.4039 S12: -0.6408 S13: -2.6133 REMARK 3 S21: 0.1864 S22: -0.3107 S23: -0.4511 REMARK 3 S31: 1.4945 S32: 0.0506 S33: 1.7146 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 : A 19 A 32 REMARK 3 ORIGIN FOR THE GROUP (A): 46.3594 34.0138 24.6354 REMARK 3 T TENSOR REMARK 3 T11: 0.2640 T22: 0.1555 REMARK 3 T33: 0.2601 T12: 0.1238 REMARK 3 T13: -0.0015 T23: 0.1659 REMARK 3 L TENSOR REMARK 3 L11: 24.4505 L22: 13.9627 REMARK 3 L33: 23.3843 L12: 13.8467 REMARK 3 L13: -19.1073 L23: -9.9102 REMARK 3 S TENSOR REMARK 3 S11: -0.0305 S12: -1.1865 S13: -1.1502 REMARK 3 S21: 0.5896 S22: -0.6975 S23: -0.3456 REMARK 3 S31: 0.5976 S32: 1.3064 S33: 0.7281 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 : A 33 A 41 REMARK 3 ORIGIN FOR THE GROUP (A): 56.6353 41.9306 12.2604 REMARK 3 T TENSOR REMARK 3 T11: 0.1857 T22: 0.3009 REMARK 3 T33: 0.3243 T12: 0.0333 REMARK 3 T13: 0.0212 T23: 0.0565 REMARK 3 L TENSOR REMARK 3 L11: 11.4389 L22: 2.8320 REMARK 3 L33: 18.7952 L12: 6.4570 REMARK 3 L13: -12.8830 L23: -6.1033 REMARK 3 S TENSOR REMARK 3 S11: -0.3392 S12: -0.4807 S13: -0.4802 REMARK 3 S21: -0.0538 S22: -0.1647 S23: -0.1088 REMARK 3 S31: 0.5751 S32: 0.7300 S33: 0.5039 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 : A 42 A 49 REMARK 3 ORIGIN FOR THE GROUP (A): 63.4380 46.2890 2.9430 REMARK 3 T TENSOR REMARK 3 T11: 0.1265 T22: 0.2697 REMARK 3 T33: 0.1769 T12: -0.0182 REMARK 3 T13: -0.0004 T23: -0.0396 REMARK 3 L TENSOR REMARK 3 L11: 16.6173 L22: 12.9765 REMARK 3 L33: 15.3387 L12: 9.2067 REMARK 3 L13: -7.2822 L23: -10.2101 REMARK 3 S TENSOR REMARK 3 S11: 0.0273 S12: -0.1931 S13: -0.8030 REMARK 3 S21: 0.1263 S22: -0.3639 S23: -0.6032 REMARK 3 S31: -0.4393 S32: 0.8278 S33: 0.3365 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 : A 50 A 62 REMARK 3 ORIGIN FOR THE GROUP (A): 58.2513 47.1984 -6.3731 REMARK 3 T TENSOR REMARK 3 T11: 0.1393 T22: 0.2828 REMARK 3 T33: 0.1470 T12: -0.0190 REMARK 3 T13: 0.0099 T23: 0.0058 REMARK 3 L TENSOR REMARK 3 L11: 26.7312 L22: 3.6497 REMARK 3 L33: 6.3765 L12: 8.3822 REMARK 3 L13: -5.4318 L23: -1.5096 REMARK 3 S TENSOR REMARK 3 S11: -0.3183 S12: 0.7789 S13: -0.9257 REMARK 3 S21: -0.1573 S22: 0.1636 S23: -0.1436 REMARK 3 S31: 0.0249 S32: 0.0158 S33: 0.1548 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 : A 63 A 69 REMARK 3 ORIGIN FOR THE GROUP (A): 48.7803 43.8285 2.8019 REMARK 3 T TENSOR REMARK 3 T11: 0.1617 T22: 0.2291 REMARK 3 T33: 0.2436 T12: -0.0461 REMARK 3 T13: 0.0138 T23: 0.0442 REMARK 3 L TENSOR REMARK 3 L11: 14.0920 L22: 1.2693 REMARK 3 L33: 20.8494 L12: -3.8551 REMARK 3 L13: -11.5261 L23: -1.6590 REMARK 3 S TENSOR REMARK 3 S11: 0.0048 S12: 0.2949 S13: 0.2393 REMARK 3 S21: -0.1783 S22: -0.0511 S23: -0.4104 REMARK 3 S31: 0.5598 S32: -0.5949 S33: 0.0463 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 70 A 85 REMARK 3 ORIGIN FOR THE GROUP (A): 37.0998 41.4247 15.9061 REMARK 3 T TENSOR REMARK 3 T11: 0.1726 T22: 0.2433 REMARK 3 T33: 0.1732 T12: -0.0778 REMARK 3 T13: -0.0207 T23: -0.0487 REMARK 3 L TENSOR REMARK 3 L11: 13.2757 L22: 1.1298 REMARK 3 L33: 16.5575 L12: 3.1988 REMARK 3 L13: -12.6869 L23: -4.6949 REMARK 3 S TENSOR REMARK 3 S11: -0.2072 S12: 0.8674 S13: -0.0366 REMARK 3 S21: -0.0170 S22: 0.2466 S23: 0.0822 REMARK 3 S31: 0.0556 S32: -1.1278 S33: -0.0394 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 86 A 92 REMARK 3 ORIGIN FOR THE GROUP (A): 26.2727 41.5681 28.8382 REMARK 3 T TENSOR REMARK 3 T11: 0.3930 T22: 0.3504 REMARK 3 T33: 0.1694 T12: 0.0038 REMARK 3 T13: -0.1496 T23: 0.0479 REMARK 3 L TENSOR REMARK 3 L11: 27.5619 L22: 2.5127 REMARK 3 L33: 12.6256 L12: -8.2684 REMARK 3 L13: -17.0780 L23: 2.0388 REMARK 3 S TENSOR REMARK 3 S11: 0.3499 S12: 1.3221 S13: 0.3600 REMARK 3 S21: -1.0431 S22: 0.0021 S23: 0.3374 REMARK 3 S31: 0.3335 S32: -1.2213 S33: -0.3519 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 93 A 101 REMARK 3 ORIGIN FOR THE GROUP (A): 19.7467 42.0146 39.0644 REMARK 3 T TENSOR REMARK 3 T11: 0.1772 T22: 0.2203 REMARK 3 T33: 0.1803 T12: -0.0122 REMARK 3 T13: 0.0442 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 25.9236 L22: 13.5417 REMARK 3 L33: 9.5788 L12: -3.9927 REMARK 3 L13: -7.8002 L23: -0.4144 REMARK 3 S TENSOR REMARK 3 S11: 0.0294 S12: -0.8823 S13: 0.3989 REMARK 3 S21: 0.9027 S22: 0.2754 S23: 0.5210 REMARK 3 S31: -0.3777 S32: 0.0150 S33: -0.3048 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 5 B 22 REMARK 3 ORIGIN FOR THE GROUP (A): 50.9041 33.0900 7.4887 REMARK 3 T TENSOR REMARK 3 T11: 0.6095 T22: 0.1788 REMARK 3 T33: 0.5803 T12: 0.2231 REMARK 3 T13: -0.0187 T23: -0.2428 REMARK 3 L TENSOR REMARK 3 L11: 27.5608 L22: 14.7007 REMARK 3 L33: 30.7429 L12: 15.8692 REMARK 3 L13: -26.8970 L23: -13.4271 REMARK 3 S TENSOR REMARK 3 S11: -1.0242 S12: 0.0735 S13: -1.9019 REMARK 3 S21: -0.0396 S22: -0.6330 S23: -1.1708 REMARK 3 S31: 2.6776 S32: 0.5843 S33: 1.6572 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 23 B 34 REMARK 3 ORIGIN FOR THE GROUP (A): 33.9538 30.8334 21.8784 REMARK 3 T TENSOR REMARK 3 T11: 0.4690 T22: 0.1998 REMARK 3 T33: 0.4136 T12: -0.1986 REMARK 3 T13: 0.0136 T23: -0.0261 REMARK 3 L TENSOR REMARK 3 L11: 24.3101 L22: 11.1144 REMARK 3 L33: 12.3366 L12: -1.0574 REMARK 3 L13: -15.0135 L23: 2.8106 REMARK 3 S TENSOR REMARK 3 S11: -0.4380 S12: 0.3371 S13: -0.6758 REMARK 3 S21: -0.4780 S22: 0.0436 S23: -0.0765 REMARK 3 S31: 1.0251 S32: -0.5216 S33: 0.3944 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 35 B 43 REMARK 3 ORIGIN FOR THE GROUP (A): 21.4631 30.3706 32.7210 REMARK 3 T TENSOR REMARK 3 T11: 0.3968 T22: 0.2897 REMARK 3 T33: 0.1819 T12: -0.2973 REMARK 3 T13: -0.0844 T23: -0.0353 REMARK 3 L TENSOR REMARK 3 L11: 32.6733 L22: 34.7851 REMARK 3 L33: 36.5383 L12: -7.2980 REMARK 3 L13: -29.6389 L23: -15.8059 REMARK 3 S TENSOR REMARK 3 S11: -0.5243 S12: 1.2934 S13: -0.7093 REMARK 3 S21: -1.0091 S22: 0.1431 S23: -0.1035 REMARK 3 S31: 1.3796 S32: -1.3190 S33: 0.3812 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 44 B 56 REMARK 3 ORIGIN FOR THE GROUP (A): 16.0832 31.3706 42.8730 REMARK 3 T TENSOR REMARK 3 T11: 0.4379 T22: 0.5807 REMARK 3 T33: 0.6787 T12: -0.2105 REMARK 3 T13: 0.0836 T23: 0.1453 REMARK 3 L TENSOR REMARK 3 L11: 19.0098 L22: 5.8860 REMARK 3 L33: -2.3741 L12: -0.3314 REMARK 3 L13: -7.1066 L23: 3.7453 REMARK 3 S TENSOR REMARK 3 S11: -1.6801 S12: -0.2675 S13: -1.6397 REMARK 3 S21: 0.2397 S22: 0.5398 S23: 0.1309 REMARK 3 S31: -0.3619 S32: -0.6434 S33: 1.1403 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 57 B 64 REMARK 3 ORIGIN FOR THE GROUP (A): 24.6081 34.3885 46.5188 REMARK 3 T TENSOR REMARK 3 T11: 0.5334 T22: 0.3838 REMARK 3 T33: 0.1983 T12: -0.0604 REMARK 3 T13: 0.1206 T23: 0.1749 REMARK 3 L TENSOR REMARK 3 L11: 39.4016 L22: 14.6127 REMARK 3 L33: 54.6789 L12: 15.4023 REMARK 3 L13: -3.2351 L23: -22.7285 REMARK 3 S TENSOR REMARK 3 S11: 0.3381 S12: -1.9657 S13: -1.2026 REMARK 3 S21: 0.5042 S22: 0.1949 S23: 0.5689 REMARK 3 S31: 3.2062 S32: -0.7690 S33: -0.5330 REMARK 3 REMARK 3 TLS GROUP : 15 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 65 B 74 REMARK 3 ORIGIN FOR THE GROUP (A): 32.7648 38.4446 36.9604 REMARK 3 T TENSOR REMARK 3 T11: 0.1643 T22: 0.2822 REMARK 3 T33: 0.1724 T12: -0.0547 REMARK 3 T13: 0.0030 T23: 0.0368 REMARK 3 L TENSOR REMARK 3 L11: 11.5660 L22: 5.0872 REMARK 3 L33: 14.7831 L12: 3.1290 REMARK 3 L13: -10.9407 L23: -3.9905 REMARK 3 S TENSOR REMARK 3 S11: -0.0091 S12: -0.6527 S13: -0.3050 REMARK 3 S21: 0.2186 S22: -0.0569 S23: 0.3347 REMARK 3 S31: -0.0026 S32: 0.1981 S33: 0.0659 REMARK 3 REMARK 3 TLS GROUP : 16 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 75 B 87 REMARK 3 ORIGIN FOR THE GROUP (A): 42.4927 44.5156 23.2966 REMARK 3 T TENSOR REMARK 3 T11: 0.1810 T22: 0.1874 REMARK 3 T33: 0.1686 T12: -0.0362 REMARK 3 T13: -0.0154 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 7.6750 L22: 2.0898 REMARK 3 L33: 11.4113 L12: 3.5732 REMARK 3 L13: -7.7072 L23: -2.5565 REMARK 3 S TENSOR REMARK 3 S11: 0.2186 S12: -0.2477 S13: 0.3634 REMARK 3 S21: 0.0809 S22: -0.0406 S23: 0.2212 REMARK 3 S31: -0.3834 S32: 0.0809 S33: -0.1780 REMARK 3 REMARK 3 TLS GROUP : 17 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 88 B 95 REMARK 3 ORIGIN FOR THE GROUP (A): 50.8629 50.7167 12.5525 REMARK 3 T TENSOR REMARK 3 T11: 0.1469 T22: 0.1744 REMARK 3 T33: 0.1576 T12: 0.0016 REMARK 3 T13: 0.0332 T23: -0.0281 REMARK 3 L TENSOR REMARK 3 L11: 13.9087 L22: 11.4938 REMARK 3 L33: 21.6724 L12: 6.3717 REMARK 3 L13: -10.7130 L23: -12.0021 REMARK 3 S TENSOR REMARK 3 S11: 0.0159 S12: -0.1422 S13: 0.2605 REMARK 3 S21: 0.4577 S22: -0.0426 S23: 0.5035 REMARK 3 S31: -0.6666 S32: 0.1721 S33: 0.0267 REMARK 3 REMARK 3 TLS GROUP : 18 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 96 B 101 REMARK 3 ORIGIN FOR THE GROUP (A): 54.8099 54.9596 3.5094 REMARK 3 T TENSOR REMARK 3 T11: 0.1895 T22: 0.2255 REMARK 3 T33: 0.1550 T12: -0.0892 REMARK 3 T13: -0.0307 T23: 0.0383 REMARK 3 L TENSOR REMARK 3 L11: 20.6767 L22: 18.2927 REMARK 3 L33: 21.6151 L12: 0.2911 REMARK 3 L13: -12.4470 L23: -4.3646 REMARK 3 S TENSOR REMARK 3 S11: 0.1539 S12: 0.6427 S13: 0.8788 REMARK 3 S21: -0.1404 S22: 0.3504 S23: 0.2819 REMARK 3 S31: -1.0440 S32: -0.0979 S33: -0.5043 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3VJF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000095119. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97881, 0.97908, 0.90000 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11102 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.30600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE 2.13, RESOLVE 2.13 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.344M POTASSIUM PHOSPHATE DIBASIC, REMARK 280 0.056M SODIUM PHOSPHATE MONOBASIC MONOHYDRATE, PH 8.2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277.15K 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 32.97500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.42900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.97500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.42900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 K K A 201 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 118 LIES ON A SPECIAL POSITION. 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 MSE A 1 REMARK 465 TYR A 2 REMARK 465 ARG A 102 REMARK 465 MSE B 1 REMARK 465 TYR B 2 REMARK 465 GLY B 3 REMARK 465 LYS B 4 REMARK 465 GLN B 49 REMARK 465 GLY B 50 REMARK 465 ASN B 51 REMARK 465 GLN B 52 REMARK 465 ASP B 53 REMARK 465 ASP B 54 REMARK 465 GLY B 55 REMARK 465 ARG B 102 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 ASN B 6 43.07 -69.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 201 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 51 O REMARK 620 2 MSE A 48 O 76.8 REMARK 620 3 GLN A 49 O 87.2 65.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 201 DBREF 3VJF A 1 102 PDB 3VJF 3VJF 1 102 DBREF 3VJF B 1 102 PDB 3VJF 3VJF 1 102 SEQRES 1 A 102 MSE TYR GLY LYS LEU ASN LYS LEU VAL GLU HIS ILE LYS SEQRES 2 A 102 GLU LEU LEU GLN GLN LEU ASN LYS ASN TRP HIS ARG HIS SEQRES 3 A 102 GLN GLY ASN LEU HIS ASP MSE ASN GLN GLN MSE GLU GLN SEQRES 4 A 102 LEU PHE GLN GLU PHE GLN HIS PHE MSE GLN GLY ASN GLN SEQRES 5 A 102 ASP ASP GLY LYS LEU GLN ASN MSE ILE HIS GLU MSE GLN SEQRES 6 A 102 GLN PHE MSE ASN GLN VAL ASP ASN HIS LEU GLN SER GLU SEQRES 7 A 102 SER ASP THR VAL HIS HIS PHE HIS ASN LYS LEU GLN GLU SEQRES 8 A 102 LEU MSE ASN ASN PHE HIS HIS LEU VAL HIS ARG SEQRES 1 B 102 MSE TYR GLY LYS LEU ASN LYS LEU VAL GLU HIS ILE LYS SEQRES 2 B 102 GLU LEU LEU GLN GLN LEU ASN LYS ASN TRP HIS ARG HIS SEQRES 3 B 102 GLN GLY ASN LEU HIS ASP MSE ASN GLN GLN MSE GLU GLN SEQRES 4 B 102 LEU PHE GLN GLU PHE GLN HIS PHE MSE GLN GLY ASN GLN SEQRES 5 B 102 ASP ASP GLY LYS LEU GLN ASN MSE ILE HIS GLU MSE GLN SEQRES 6 B 102 GLN PHE MSE ASN GLN VAL ASP ASN HIS LEU GLN SER GLU SEQRES 7 B 102 SER ASP THR VAL HIS HIS PHE HIS ASN LYS LEU GLN GLU SEQRES 8 B 102 LEU MSE ASN ASN PHE HIS HIS LEU VAL HIS ARG MODRES 3VJF MSE A 33 MET SELENOMETHIONINE MODRES 3VJF MSE A 37 MET SELENOMETHIONINE MODRES 3VJF MSE A 48 MET SELENOMETHIONINE MODRES 3VJF MSE A 60 MET SELENOMETHIONINE MODRES 3VJF MSE A 64 MET SELENOMETHIONINE MODRES 3VJF MSE A 68 MET SELENOMETHIONINE MODRES 3VJF MSE A 93 MET SELENOMETHIONINE MODRES 3VJF MSE B 33 MET SELENOMETHIONINE MODRES 3VJF MSE B 37 MET SELENOMETHIONINE MODRES 3VJF MSE B 48 MET SELENOMETHIONINE MODRES 3VJF MSE B 60 MET SELENOMETHIONINE MODRES 3VJF MSE B 64 MET SELENOMETHIONINE MODRES 3VJF MSE B 68 MET SELENOMETHIONINE MODRES 3VJF MSE B 93 MET SELENOMETHIONINE HET MSE A 33 8 HET MSE A 37 8 HET MSE A 48 8 HET MSE A 60 8 HET MSE A 64 8 HET MSE A 68 8 HET MSE A 93 8 HET MSE B 33 8 HET MSE B 37 8 HET MSE B 48 8 HET MSE B 60 8 HET MSE B 64 8 HET MSE B 68 8 HET MSE B 93 8 HET K A 201 1 HETNAM MSE SELENOMETHIONINE HETNAM K POTASSIUM ION FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 K K 1+ FORMUL 4 HOH *55(H2 O) HELIX 1 1 GLY A 3 ASN A 51 1 49 HELIX 2 2 ASP A 53 HIS A 101 1 49 HELIX 3 3 LYS B 7 MSE B 48 1 42 HELIX 4 4 LEU B 57 HIS B 101 1 45 LINK C ASP A 32 N MSE A 33 1555 1555 1.33 LINK C MSE A 33 N ASN A 34 1555 1555 1.33 LINK C GLN A 36 N MSE A 37 1555 1555 1.33 LINK C MSE A 37 N GLU A 38 1555 1555 1.34 LINK C PHE A 47 N MSE A 48 1555 1555 1.33 LINK C MSE A 48 N GLN A 49 1555 1555 1.33 LINK C ASN A 59 N MSE A 60 1555 1555 1.33 LINK C MSE A 60 N ILE A 61 1555 1555 1.33 LINK C GLU A 63 N MSE A 64 1555 1555 1.34 LINK C MSE A 64 N GLN A 65 1555 1555 1.33 LINK C PHE A 67 N MSE A 68 1555 1555 1.33 LINK C MSE A 68 N ASN A 69 1555 1555 1.33 LINK C LEU A 92 N MSE A 93 1555 1555 1.33 LINK C MSE A 93 N ASN A 94 1555 1555 1.33 LINK C ASP B 32 N MSE B 33 1555 1555 1.33 LINK C MSE B 33 N ASN B 34 1555 1555 1.33 LINK C GLN B 36 N MSE B 37 1555 1555 1.33 LINK C MSE B 37 N GLU B 38 1555 1555 1.33 LINK C PHE B 47 N MSE B 48 1555 1555 1.34 LINK C ASN B 59 N MSE B 60 1555 1555 1.33 LINK C MSE B 60 N ILE B 61 1555 1555 1.33 LINK C GLU B 63 N MSE B 64 1555 1555 1.33 LINK C MSE B 64 N GLN B 65 1555 1555 1.33 LINK C PHE B 67 N MSE B 68 1555 1555 1.33 LINK C MSE B 68 N ASN B 69 1555 1555 1.34 LINK C LEU B 92 N MSE B 93 1555 1555 1.33 LINK C MSE B 93 N ASN B 94 1555 1555 1.33 LINK O ASN A 51 K K A 201 1555 1555 2.55 LINK O MSE A 48 K K A 201 1555 1555 2.75 LINK O GLN A 49 K K A 201 1555 1555 2.97 SITE 1 AC1 3 MSE A 48 GLN A 49 ASN A 51 CRYST1 65.950 102.858 31.344 90.00 90.00 90.00 P 21 21 2 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 0.015163 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009722 0.000000 0.00000 SCALE3 0.000000 0.000000 0.031904 0.00000