HEADER TRANSCRIPTION/DNA 21-AUG-24 9D9R TITLE X-RAY STRUCTURE OF ALX4 HOMEODOMAIN DIMER BOUND TO DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HOMEOBOX PROTEIN ARISTALESS-LIKE 4; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'- COMPND 7 D(*CP*GP*CP*TP*AP*AP*TP*TP*CP*AP*AP*TP*TP*AP*AP*CP*G)-3'); COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'- COMPND 12 D(*CP*GP*TP*TP*AP*AP*TP*TP*GP*AP*AP*TP*TP*AP*GP*CP*G)-3'); COMPND 13 CHAIN: D; COMPND 14 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: ALX4, KIAA1788; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_COMMON: HUMAN; SOURCE 17 ORGANISM_TAXID: 9606 KEYWDS ALX4, PAIRED-LIKE HOMEODOMAIN, TRANSCRIPTION FACTOR, TRANSCRIPTION, KEYWDS 2 TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Z.YUAN,R.A.KOVALL REVDAT 2 27-AUG-25 9D9R 1 JRNL REVDAT 1 09-APR-25 9D9R 0 JRNL AUTH B.CAIN,Z.YUAN,E.THOMAN,R.A.KOVALL,B.GEBELEIN JRNL TITL THE ALX4 DIMER STRUCTURE PROVIDES INSIGHT INTO HOW DISEASE JRNL TITL 2 ALLELES IMPACT FUNCTION. JRNL REF NAT COMMUN V. 16 4800 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 40410151 JRNL DOI 10.1038/S41467-025-59728-9 REMARK 2 REMARK 2 RESOLUTION. 2.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.4 (23-JAN-2024) 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.21 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18810 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) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 961 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 : 49 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.39 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.41 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.72 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 392 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3805 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 381 REMARK 3 BIN R VALUE (WORKING SET) : 0.3774 REMARK 3 BIN FREE R VALUE : 0.4973 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 2.81 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 : 1180 REMARK 3 NUCLEIC ACID ATOMS : 691 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 2 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 122.7 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -22.85250 REMARK 3 B22 (A**2) : -22.85250 REMARK 3 B33 (A**2) : 45.70500 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.430 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.210 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.180 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.207 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.179 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 : 0.898 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.878 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1989 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 2819 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 617 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 238 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1215 ; 10.000 ; 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 : 247 ; 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 : 1143 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.82 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.67 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.43 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 18 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|210 - 221} REMARK 3 ORIGIN FOR THE GROUP (A): -39.2387 19.6346 31.9155 REMARK 3 T TENSOR REMARK 3 T11: 0.2470 T22: -0.0131 REMARK 3 T33: -0.4780 T12: -0.2476 REMARK 3 T13: 0.0602 T23: 0.1186 REMARK 3 L TENSOR REMARK 3 L11: 18.4810 L22: 15.8280 REMARK 3 L33: 4.9907 L12: -6.9550 REMARK 3 L13: -0.4693 L23: -0.0959 REMARK 3 S TENSOR REMARK 3 S11: -0.5454 S12: -1.4787 S13: -0.6321 REMARK 3 S21: 1.2588 S22: 0.1264 S23: 1.4352 REMARK 3 S31: 1.3844 S32: -0.4284 S33: 0.4191 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {A|222 - 230} REMARK 3 ORIGIN FOR THE GROUP (A): -24.5273 6.7992 26.0813 REMARK 3 T TENSOR REMARK 3 T11: 0.8795 T22: -0.3855 REMARK 3 T33: 0.1146 T12: 0.4026 REMARK 3 T13: 0.1367 T23: 0.1207 REMARK 3 L TENSOR REMARK 3 L11: 7.2409 L22: 11.6408 REMARK 3 L33: 5.1217 L12: -9.6312 REMARK 3 L13: 6.8209 L23: -5.9934 REMARK 3 S TENSOR REMARK 3 S11: -0.5840 S12: -0.9793 S13: -2.0774 REMARK 3 S21: 0.6190 S22: 0.7938 S23: 0.3326 REMARK 3 S31: 1.7455 S32: 0.2422 S33: -0.2097 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {A|231 - 254} REMARK 3 ORIGIN FOR THE GROUP (A): -26.1882 10.6777 16.3761 REMARK 3 T TENSOR REMARK 3 T11: 0.5101 T22: -0.2281 REMARK 3 T33: -0.0190 T12: 0.0883 REMARK 3 T13: 0.0586 T23: -0.1257 REMARK 3 L TENSOR REMARK 3 L11: 7.8616 L22: 16.1474 REMARK 3 L33: 10.5486 L12: -0.1705 REMARK 3 L13: -2.3118 L23: -1.9253 REMARK 3 S TENSOR REMARK 3 S11: -0.3890 S12: 0.4496 S13: -1.6130 REMARK 3 S21: -0.5454 S22: 0.2104 S23: -0.4717 REMARK 3 S31: 1.4725 S32: 0.7150 S33: 0.1786 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: {A|255 - 269} REMARK 3 ORIGIN FOR THE GROUP (A): -26.5625 18.2201 22.3496 REMARK 3 T TENSOR REMARK 3 T11: 0.2554 T22: -0.0434 REMARK 3 T33: -0.1404 T12: 0.1352 REMARK 3 T13: 0.0114 T23: 0.0615 REMARK 3 L TENSOR REMARK 3 L11: 5.0533 L22: -4.1787 REMARK 3 L33: 6.1298 L12: -3.0891 REMARK 3 L13: -0.9747 L23: 1.1765 REMARK 3 S TENSOR REMARK 3 S11: 0.0915 S12: -0.9540 S13: -0.4412 REMARK 3 S21: 0.1951 S22: -0.0040 S23: -0.4394 REMARK 3 S31: 1.0768 S32: 0.5582 S33: -0.0875 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: {A|270 - 277} REMARK 3 ORIGIN FOR THE GROUP (A): -13.1869 26.4945 23.7175 REMARK 3 T TENSOR REMARK 3 T11: -0.0868 T22: 0.2604 REMARK 3 T33: -0.3060 T12: 0.1733 REMARK 3 T13: -0.1474 T23: -0.1582 REMARK 3 L TENSOR REMARK 3 L11: 17.8502 L22: 5.3795 REMARK 3 L33: 16.6309 L12: 9.8117 REMARK 3 L13: -3.3431 L23: 7.5674 REMARK 3 S TENSOR REMARK 3 S11: -0.5412 S12: 0.5230 S13: 0.1124 REMARK 3 S21: -0.2459 S22: 1.9679 S23: 0.8931 REMARK 3 S31: -0.1387 S32: 1.6292 S33: -1.4267 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: {B|213 - 226} REMARK 3 ORIGIN FOR THE GROUP (A): -42.4143 19.3920 7.0069 REMARK 3 T TENSOR REMARK 3 T11: 0.0016 T22: -0.0469 REMARK 3 T33: -0.4420 T12: -0.1335 REMARK 3 T13: -0.1784 T23: -0.3252 REMARK 3 L TENSOR REMARK 3 L11: 23.1103 L22: 8.1144 REMARK 3 L33: 12.1246 L12: 6.4471 REMARK 3 L13: 0.0352 L23: -3.6159 REMARK 3 S TENSOR REMARK 3 S11: 0.4320 S12: 1.4041 S13: -1.8056 REMARK 3 S21: -1.0635 S22: -0.5409 S23: 0.1232 REMARK 3 S31: 0.1979 S32: -0.7659 S33: 0.1089 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: {B|227 - 246} REMARK 3 ORIGIN FOR THE GROUP (A): -51.5775 24.8290 21.1698 REMARK 3 T TENSOR REMARK 3 T11: -0.1099 T22: 0.1124 REMARK 3 T33: -0.1817 T12: -0.1971 REMARK 3 T13: 0.0392 T23: -0.0604 REMARK 3 L TENSOR REMARK 3 L11: 13.0776 L22: 12.9692 REMARK 3 L33: 5.5763 L12: 2.5377 REMARK 3 L13: 0.1641 L23: 7.7792 REMARK 3 S TENSOR REMARK 3 S11: 0.1446 S12: -0.2101 S13: -0.7937 REMARK 3 S21: 0.7128 S22: -0.5132 S23: 0.6544 REMARK 3 S31: 0.2057 S32: -1.5501 S33: 0.3686 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: {B|247 - 256} REMARK 3 ORIGIN FOR THE GROUP (A): -48.8634 15.8432 17.1584 REMARK 3 T TENSOR REMARK 3 T11: 0.1673 T22: 0.0838 REMARK 3 T33: 0.1679 T12: -0.3391 REMARK 3 T13: -0.0626 T23: -0.0976 REMARK 3 L TENSOR REMARK 3 L11: 11.2654 L22: 16.5769 REMARK 3 L33: 0.0000 L12: -8.1220 REMARK 3 L13: -8.7202 L23: 5.0473 REMARK 3 S TENSOR REMARK 3 S11: 0.2633 S12: -0.0029 S13: -1.3480 REMARK 3 S21: 0.2879 S22: -0.5574 S23: 1.1067 REMARK 3 S31: 1.8920 S32: -0.7930 S33: 0.2941 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: {B|257 - 271} REMARK 3 ORIGIN FOR THE GROUP (A): -44.2387 29.7402 16.0410 REMARK 3 T TENSOR REMARK 3 T11: -0.3758 T22: 0.4187 REMARK 3 T33: 0.0619 T12: 0.0320 REMARK 3 T13: -0.1707 T23: -0.0096 REMARK 3 L TENSOR REMARK 3 L11: 6.7228 L22: 18.2235 REMARK 3 L33: 9.9954 L12: -11.0828 REMARK 3 L13: -8.0115 L23: 1.0455 REMARK 3 S TENSOR REMARK 3 S11: 0.7003 S12: 0.1700 S13: -0.8980 REMARK 3 S21: 1.0382 S22: -0.4726 S23: 0.5292 REMARK 3 S31: -1.2159 S32: 0.8360 S33: -0.2276 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: {B|272 - 278} REMARK 3 ORIGIN FOR THE GROUP (A): -46.8333 45.9056 13.5166 REMARK 3 T TENSOR REMARK 3 T11: 0.3809 T22: 0.6728 REMARK 3 T33: 0.8286 T12: -0.1681 REMARK 3 T13: -0.0617 T23: 0.3529 REMARK 3 L TENSOR REMARK 3 L11: 25.8968 L22: 15.1812 REMARK 3 L33: 5.0554 L12: -8.1825 REMARK 3 L13: -3.9174 L23: -9.3323 REMARK 3 S TENSOR REMARK 3 S11: -0.1409 S12: -0.0615 S13: 1.8943 REMARK 3 S21: -0.7647 S22: 0.7351 S23: -0.0155 REMARK 3 S31: -0.8695 S32: 0.5343 S33: -0.5942 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: {C|1 - 4} REMARK 3 ORIGIN FOR THE GROUP (A): -25.2634 21.4447 38.8985 REMARK 3 T TENSOR REMARK 3 T11: 0.2433 T22: 0.6052 REMARK 3 T33: -0.4910 T12: 0.0278 REMARK 3 T13: -0.1199 T23: 0.2066 REMARK 3 L TENSOR REMARK 3 L11: 16.9369 L22: 16.3249 REMARK 3 L33: 22.6511 L12: -0.1767 REMARK 3 L13: -6.4993 L23: -0.3917 REMARK 3 S TENSOR REMARK 3 S11: 0.8941 S12: -0.9933 S13: -0.3833 REMARK 3 S21: 1.0082 S22: -0.1687 S23: -1.9009 REMARK 3 S31: -1.2877 S32: 1.1419 S33: -0.7255 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: {C|5 - 8} REMARK 3 ORIGIN FOR THE GROUP (A): -35.1082 23.2948 27.3659 REMARK 3 T TENSOR REMARK 3 T11: 0.3012 T22: -0.0496 REMARK 3 T33: -0.3176 T12: -0.0348 REMARK 3 T13: -0.0656 T23: 0.0392 REMARK 3 L TENSOR REMARK 3 L11: 5.1110 L22: 22.6285 REMARK 3 L33: 11.3962 L12: -7.7333 REMARK 3 L13: -0.1607 L23: -6.7530 REMARK 3 S TENSOR REMARK 3 S11: -0.0578 S12: -0.6186 S13: -0.1702 REMARK 3 S21: 0.5639 S22: -0.0982 S23: 0.2452 REMARK 3 S31: 0.3121 S32: 0.0940 S33: 0.1561 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: {C|9 - 12} REMARK 3 ORIGIN FOR THE GROUP (A): -33.3223 34.4231 15.4038 REMARK 3 T TENSOR REMARK 3 T11: -0.0023 T22: 0.1300 REMARK 3 T33: -0.3287 T12: -0.1147 REMARK 3 T13: 0.0045 T23: 0.0828 REMARK 3 L TENSOR REMARK 3 L11: 22.9880 L22: 19.3672 REMARK 3 L33: 24.9463 L12: -2.6852 REMARK 3 L13: -11.5210 L23: 2.4926 REMARK 3 S TENSOR REMARK 3 S11: 0.7384 S12: 0.4431 S13: 1.6892 REMARK 3 S21: -1.7339 S22: 0.2268 S23: 0.1180 REMARK 3 S31: 0.3961 S32: -0.4929 S33: -0.9653 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: {C|13 - 17} REMARK 3 ORIGIN FOR THE GROUP (A): -34.9639 24.4402 1.1433 REMARK 3 T TENSOR REMARK 3 T11: 0.2504 T22: 0.5029 REMARK 3 T33: -0.4796 T12: -0.1514 REMARK 3 T13: -0.0351 T23: -0.1770 REMARK 3 L TENSOR REMARK 3 L11: 19.0933 L22: 8.0615 REMARK 3 L33: 2.5812 L12: -1.8430 REMARK 3 L13: 5.0489 L23: -2.7577 REMARK 3 S TENSOR REMARK 3 S11: -0.1056 S12: -0.0142 S13: -1.0677 REMARK 3 S21: -1.6601 S22: 0.2525 S23: -0.6496 REMARK 3 S31: 0.3233 S32: -0.3418 S33: -0.1470 REMARK 3 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: {D|18 - 21} REMARK 3 ORIGIN FOR THE GROUP (A): -39.4277 30.8918 -1.0294 REMARK 3 T TENSOR REMARK 3 T11: 0.4537 T22: 0.3361 REMARK 3 T33: -0.4976 T12: 0.0925 REMARK 3 T13: -0.1815 T23: -0.0866 REMARK 3 L TENSOR REMARK 3 L11: 21.0935 L22: 12.1683 REMARK 3 L33: 18.3206 L12: -2.5765 REMARK 3 L13: -9.0364 L23: -1.8109 REMARK 3 S TENSOR REMARK 3 S11: -0.3391 S12: 1.3099 S13: 1.5434 REMARK 3 S21: -0.8035 S22: 0.6989 S23: 0.5922 REMARK 3 S31: -1.8392 S32: 0.2676 S33: -0.3598 REMARK 3 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: {D|22 - 25} REMARK 3 ORIGIN FOR THE GROUP (A): -34.4386 24.9323 11.7791 REMARK 3 T TENSOR REMARK 3 T11: 0.0889 T22: 0.1725 REMARK 3 T33: -0.4031 T12: -0.1932 REMARK 3 T13: -0.0932 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 20.8424 L22: 8.6807 REMARK 3 L33: 23.2736 L12: 8.2496 REMARK 3 L13: 7.4480 L23: 4.5622 REMARK 3 S TENSOR REMARK 3 S11: -0.8107 S12: 0.6016 S13: -0.6126 REMARK 3 S21: -0.5056 S22: 0.0671 S23: -0.0200 REMARK 3 S31: -0.8892 S32: -0.1697 S33: 0.7437 REMARK 3 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: {D|26 - 30} REMARK 3 ORIGIN FOR THE GROUP (A): -29.6444 30.6136 26.5229 REMARK 3 T TENSOR REMARK 3 T11: 0.0545 T22: 0.1283 REMARK 3 T33: -0.3153 T12: -0.0507 REMARK 3 T13: -0.1071 T23: 0.0219 REMARK 3 L TENSOR REMARK 3 L11: 18.6057 L22: 12.5256 REMARK 3 L33: 16.7931 L12: -1.7674 REMARK 3 L13: -11.5677 L23: 2.5734 REMARK 3 S TENSOR REMARK 3 S11: 0.3777 S12: -0.4977 S13: 0.9908 REMARK 3 S21: 1.2129 S22: 0.5008 S23: -0.4730 REMARK 3 S31: 0.5303 S32: 0.7405 S33: -0.8785 REMARK 3 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: {D|31 - 34} REMARK 3 ORIGIN FOR THE GROUP (A): -33.4802 19.0445 39.5087 REMARK 3 T TENSOR REMARK 3 T11: 0.5788 T22: 0.2677 REMARK 3 T33: -0.4374 T12: -0.0840 REMARK 3 T13: -0.0544 T23: 0.1432 REMARK 3 L TENSOR REMARK 3 L11: 21.0067 L22: 8.0076 REMARK 3 L33: 10.1912 L12: -6.2048 REMARK 3 L13: 6.8861 L23: -6.1063 REMARK 3 S TENSOR REMARK 3 S11: 0.6793 S12: -0.5946 S13: -1.0799 REMARK 3 S21: 1.7004 S22: -0.6708 S23: 1.1398 REMARK 3 S31: 1.8838 S32: 0.0027 S33: -0.0086 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9D9R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-AUG-24. REMARK 100 THE DEPOSITION ID IS D_1000287274. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-22 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18846 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.389 REMARK 200 RESOLUTION RANGE LOW (A) : 79.570 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.70 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 3.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 7.5, 0.2M TRIMETHYLAMINE REMARK 280 N-OXIDE, 20% PEG MME 2000, VAPOR DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 106.09400 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 53.04700 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 53.04700 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 106.09400 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 204 REMARK 465 PRO A 205 REMARK 465 ALA A 206 REMARK 465 ALA A 207 REMARK 465 ALA A 208 REMARK 465 SER A 209 REMARK 465 PRO A 278 REMARK 465 GLN A 279 REMARK 465 PHE A 280 REMARK 465 GLU A 281 REMARK 465 LYS A 282 REMARK 465 GLY B 204 REMARK 465 PRO B 205 REMARK 465 ALA B 206 REMARK 465 ALA B 207 REMARK 465 ALA B 208 REMARK 465 SER B 209 REMARK 465 ASN B 210 REMARK 465 LYS B 211 REMARK 465 GLY B 212 REMARK 465 GLN B 279 REMARK 465 PHE B 280 REMARK 465 GLU B 281 REMARK 465 LYS B 282 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 ASN A 210 CG OD1 ND2 REMARK 470 GLU A 227 CG CD OE1 OE2 REMARK 470 LYS B 213 CG CD CE NZ REMARK 470 LYS B 214 CG CD CE NZ REMARK 470 LYS B 271 O CG CD CE NZ 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 ASP B 252 17.43 57.72 REMARK 500 SER B 276 49.68 -105.39 REMARK 500 REMARK 500 REMARK: NULL DBREF 9D9R A 209 274 UNP Q9H161 ALX4_HUMAN 209 274 DBREF 9D9R B 209 274 UNP Q9H161 ALX4_HUMAN 209 274 DBREF 9D9R C 1 17 PDB 9D9R 9D9R 1 17 DBREF 9D9R D 18 34 PDB 9D9R 9D9R 18 34 SEQADV 9D9R GLY A 204 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PRO A 205 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA A 206 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA A 207 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA A 208 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R TRP A 275 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R SER A 276 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R HIS A 277 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PRO A 278 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R GLN A 279 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PHE A 280 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R GLU A 281 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R LYS A 282 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R GLY B 204 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PRO B 205 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA B 206 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA B 207 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R ALA B 208 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R TRP B 275 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R SER B 276 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R HIS B 277 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PRO B 278 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R GLN B 279 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R PHE B 280 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R GLU B 281 UNP Q9H161 EXPRESSION TAG SEQADV 9D9R LYS B 282 UNP Q9H161 EXPRESSION TAG SEQRES 1 A 79 GLY PRO ALA ALA ALA SER ASN LYS GLY LYS LYS ARG ARG SEQRES 2 A 79 ASN ARG THR THR PHE THR SER TYR GLN LEU GLU GLU LEU SEQRES 3 A 79 GLU LYS VAL PHE GLN LYS THR HIS TYR PRO ASP VAL TYR SEQRES 4 A 79 ALA ARG GLU GLN LEU ALA MET ARG THR ASP LEU THR GLU SEQRES 5 A 79 ALA ARG VAL GLN VAL TRP PHE GLN ASN ARG ARG ALA LYS SEQRES 6 A 79 TRP ARG LYS ARG GLU ARG TRP SER HIS PRO GLN PHE GLU SEQRES 7 A 79 LYS SEQRES 1 B 79 GLY PRO ALA ALA ALA SER ASN LYS GLY LYS LYS ARG ARG SEQRES 2 B 79 ASN ARG THR THR PHE THR SER TYR GLN LEU GLU GLU LEU SEQRES 3 B 79 GLU LYS VAL PHE GLN LYS THR HIS TYR PRO ASP VAL TYR SEQRES 4 B 79 ALA ARG GLU GLN LEU ALA MET ARG THR ASP LEU THR GLU SEQRES 5 B 79 ALA ARG VAL GLN VAL TRP PHE GLN ASN ARG ARG ALA LYS SEQRES 6 B 79 TRP ARG LYS ARG GLU ARG TRP SER HIS PRO GLN PHE GLU SEQRES 7 B 79 LYS SEQRES 1 C 17 DC DG DC DT DA DA DT DT DC DA DA DT DT SEQRES 2 C 17 DA DA DC DG SEQRES 1 D 17 DC DG DT DT DA DA DT DT DG DA DA DT DT SEQRES 2 D 17 DA DG DC DG HET EDO A 301 4 HET EDO B 301 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *2(H2 O) HELIX 1 AA1 THR A 222 THR A 236 1 15 HELIX 2 AA2 ASP A 240 THR A 251 1 12 HELIX 3 AA3 THR A 254 GLU A 273 1 20 HELIX 4 AA4 THR B 222 GLN B 234 1 13 HELIX 5 AA5 ASP B 240 THR B 251 1 12 HELIX 6 AA6 THR B 254 ARG B 274 1 21 CRYST1 70.460 70.460 159.141 90.00 90.00 120.00 P 32 2 1 12 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 0.014192 0.008194 0.000000 0.00000 SCALE2 0.000000 0.016388 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006284 0.00000 CONECT 1876 1877 1878 CONECT 1877 1876 CONECT 1878 1876 1879 CONECT 1879 1878 CONECT 1880 1881 1882 CONECT 1881 1880 CONECT 1882 1880 1883 CONECT 1883 1882 MASTER 573 0 2 6 0 0 0 6 1881 4 8 18 END