HEADER TRANSFERASE 14-NOV-18 6IRX TITLE CRYSTAL STRUCTURE OF THE ZEBRAFISH CAP-SPECIFIC ADENOSINE TITLE 2 METHYLTRANSFERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PDX1 C-TERMINAL-INHIBITING FACTOR 1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: PCIF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PE-SUMO KEYWDS RNA METHYLATION, METHYLTRANSFERASE, M6A, N6-METHYLADENOSINE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.HIRANO,H.NISHIMASU,R.ISHITANI,O.NUREKI REVDAT 3 28-OCT-20 6IRX 1 JRNL REVDAT 2 23-JAN-19 6IRX 1 JRNL REVDAT 1 05-DEC-18 6IRX 0 JRNL AUTH S.AKICHIKA,S.HIRANO,Y.SHICHINO,T.SUZUKI,H.NISHIMASU, JRNL AUTH 2 R.ISHITANI,A.SUGITA,Y.HIROSE,S.IWASAKI,O.NUREKI,T.SUZUKI JRNL TITL CAP-SPECIFIC TERMINAL N 6 -METHYLATION OF RNA BY AN RNA JRNL TITL 2 POLYMERASE II-ASSOCIATED METHYLTRANSFERASE. JRNL REF SCIENCE V. 363 2019 JRNL REFN ESSN 1095-9203 JRNL PMID 30467178 JRNL DOI 10.1126/SCIENCE.AAV0080 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 38620 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.820 REMARK 3 FREE R VALUE TEST SET COUNT : 1860 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.0463 - 4.7012 1.00 2999 166 0.1653 0.1888 REMARK 3 2 4.7012 - 3.7320 1.00 2888 146 0.1605 0.1816 REMARK 3 3 3.7320 - 3.2604 1.00 2842 148 0.1804 0.2009 REMARK 3 4 3.2604 - 2.9623 1.00 2821 157 0.2069 0.2480 REMARK 3 5 2.9623 - 2.7500 1.00 2851 120 0.2181 0.2159 REMARK 3 6 2.7500 - 2.5879 1.00 2808 140 0.2241 0.2518 REMARK 3 7 2.5879 - 2.4583 1.00 2825 123 0.2229 0.2746 REMARK 3 8 2.4583 - 2.3513 1.00 2789 151 0.2126 0.2525 REMARK 3 9 2.3513 - 2.2608 1.00 2795 147 0.2196 0.2510 REMARK 3 10 2.2608 - 2.1828 1.00 2780 150 0.2050 0.2459 REMARK 3 11 2.1828 - 2.1145 1.00 2785 148 0.2151 0.2374 REMARK 3 12 2.1145 - 2.0541 1.00 2769 143 0.2252 0.2400 REMARK 3 13 2.0541 - 2.0000 1.00 2808 121 0.2354 0.2778 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 178 THROUGH 228 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.2550 5.8918 14.0303 REMARK 3 T TENSOR REMARK 3 T11: 0.2619 T22: 0.2418 REMARK 3 T33: 0.2166 T12: -0.0085 REMARK 3 T13: -0.0368 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 1.4428 L22: 1.8640 REMARK 3 L33: 1.4834 L12: 0.1229 REMARK 3 L13: -0.7133 L23: -0.4848 REMARK 3 S TENSOR REMARK 3 S11: -0.0815 S12: -0.1658 S13: -0.1383 REMARK 3 S21: 0.0092 S22: -0.0463 S23: -0.0524 REMARK 3 S31: 0.2008 S32: 0.0310 S33: 0.1259 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 229 THROUGH 303 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.1500 11.7774 26.4085 REMARK 3 T TENSOR REMARK 3 T11: 0.3569 T22: 0.4133 REMARK 3 T33: 0.3059 T12: 0.0488 REMARK 3 T13: 0.0169 T23: 0.0502 REMARK 3 L TENSOR REMARK 3 L11: 3.7876 L22: 1.7431 REMARK 3 L33: 1.5877 L12: -1.5212 REMARK 3 L13: -1.2990 L23: 1.3928 REMARK 3 S TENSOR REMARK 3 S11: -0.0008 S12: 0.0878 S13: -0.0408 REMARK 3 S21: -0.0645 S22: -0.1326 S23: 0.2658 REMARK 3 S31: -0.1419 S32: -0.2188 S33: 0.1325 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 304 THROUGH 389 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.2766 12.0429 32.6159 REMARK 3 T TENSOR REMARK 3 T11: 0.4290 T22: 0.4264 REMARK 3 T33: 0.3532 T12: 0.0805 REMARK 3 T13: -0.0328 T23: -0.0228 REMARK 3 L TENSOR REMARK 3 L11: 1.7627 L22: 1.6991 REMARK 3 L33: 2.6273 L12: -0.7309 REMARK 3 L13: -1.5669 L23: 0.9369 REMARK 3 S TENSOR REMARK 3 S11: -0.0400 S12: -0.2122 S13: -0.2484 REMARK 3 S21: 0.0365 S22: -0.1502 S23: 0.5221 REMARK 3 S31: -0.3149 S32: -0.3211 S33: 0.1524 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 390 THROUGH 423 ) REMARK 3 ORIGIN FOR THE GROUP (A): 72.6462 5.5877 8.4802 REMARK 3 T TENSOR REMARK 3 T11: 0.2903 T22: 0.3834 REMARK 3 T33: 0.2752 T12: 0.0775 REMARK 3 T13: -0.0103 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 1.8712 L22: 5.7241 REMARK 3 L33: 2.5072 L12: -0.2522 REMARK 3 L13: -0.9653 L23: -1.7857 REMARK 3 S TENSOR REMARK 3 S11: -0.0614 S12: -0.0199 S13: -0.2034 REMARK 3 S21: -0.0505 S22: -0.0855 S23: -0.4018 REMARK 3 S31: 0.2893 S32: 0.3599 S33: 0.1745 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 424 THROUGH 484 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.9950 1.1730 -0.2988 REMARK 3 T TENSOR REMARK 3 T11: 0.2564 T22: 0.2270 REMARK 3 T33: 0.2082 T12: -0.0003 REMARK 3 T13: -0.0036 T23: -0.0281 REMARK 3 L TENSOR REMARK 3 L11: 3.4099 L22: 3.1356 REMARK 3 L33: 4.1253 L12: -0.1870 REMARK 3 L13: 0.8676 L23: 0.2862 REMARK 3 S TENSOR REMARK 3 S11: 0.1005 S12: 0.1912 S13: -0.1724 REMARK 3 S21: -0.0464 S22: -0.0061 S23: 0.1799 REMARK 3 S31: 0.2408 S32: -0.3414 S33: -0.0903 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 485 THROUGH 520 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.6689 22.6713 3.7425 REMARK 3 T TENSOR REMARK 3 T11: 0.2591 T22: 0.2551 REMARK 3 T33: 0.2645 T12: 0.0182 REMARK 3 T13: -0.0300 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 2.8824 L22: 2.1003 REMARK 3 L33: 3.5576 L12: -2.2577 REMARK 3 L13: 0.1263 L23: -0.3375 REMARK 3 S TENSOR REMARK 3 S11: 0.0014 S12: 0.1709 S13: 0.1091 REMARK 3 S21: -0.0801 S22: 0.0798 S23: 0.2363 REMARK 3 S31: -0.0729 S32: -0.3327 S33: -0.0929 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 521 THROUGH 579 ) REMARK 3 ORIGIN FOR THE GROUP (A): 59.8104 19.9244 12.4802 REMARK 3 T TENSOR REMARK 3 T11: 0.2818 T22: 0.2804 REMARK 3 T33: 0.2675 T12: -0.0083 REMARK 3 T13: -0.0156 T23: -0.0067 REMARK 3 L TENSOR REMARK 3 L11: 1.5994 L22: 2.4154 REMARK 3 L33: 0.9685 L12: -0.0874 REMARK 3 L13: -0.3366 L23: -0.0796 REMARK 3 S TENSOR REMARK 3 S11: -0.0439 S12: -0.2022 S13: 0.2476 REMARK 3 S21: 0.1984 S22: 0.0444 S23: -0.0640 REMARK 3 S31: -0.1905 S32: 0.0206 S33: -0.0039 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 580 THROUGH 673 ) REMARK 3 ORIGIN FOR THE GROUP (A): 50.4026 31.1663 10.3371 REMARK 3 T TENSOR REMARK 3 T11: 0.3861 T22: 0.2487 REMARK 3 T33: 0.4226 T12: 0.0760 REMARK 3 T13: 0.0222 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 3.4423 L22: 2.0753 REMARK 3 L33: 2.7983 L12: -0.3936 REMARK 3 L13: -0.0403 L23: 0.1112 REMARK 3 S TENSOR REMARK 3 S11: 0.0995 S12: -0.0802 S13: 0.4305 REMARK 3 S21: 0.0281 S22: 0.0212 S23: 0.2170 REMARK 3 S31: -0.3594 S32: -0.3682 S33: -0.1081 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6IRX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1300009798. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38694 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 47.033 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.40 REMARK 200 R MERGE (I) : 0.13500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.90 REMARK 200 R MERGE FOR SHELL (I) : 1.05400 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: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 11% PEG 3350, 0.1M POTASSIUM REMARK 280 THIOCYANATE, 0.1M BIS-TRIS PROPANE, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 35.77250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.54200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.06600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.54200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.77250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.06600 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 395 REMARK 465 GLY A 396 REMARK 465 THR A 397 REMARK 465 GLU A 398 REMARK 465 SER A 399 REMARK 465 ALA A 400 REMARK 465 GLU A 401 REMARK 465 VAL A 488 REMARK 465 ASN A 489 REMARK 465 GLN A 628 REMARK 465 HIS A 629 REMARK 465 ILE A 630 REMARK 465 CYS A 631 REMARK 465 LYS A 632 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 281 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 283 CG CD CE NZ REMARK 470 LYS A 285 CG CD CE NZ REMARK 470 ARG A 328 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 330 CG OD1 OD2 REMARK 470 HIS A 331 CG ND1 CD2 CE1 NE2 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 SER A 257 -15.69 -153.31 REMARK 500 ASP A 404 56.80 -111.40 REMARK 500 ASN A 430 -128.61 58.52 REMARK 500 ARG A 624 -27.97 -143.66 REMARK 500 REMARK 500 REMARK: NULL DBREF1 6IRX A 178 673 UNP A0A0R4IKJ1_DANRE DBREF2 6IRX A A0A0R4IKJ1 178 673 SEQADV 6IRX VAL A 308 UNP A0A0R4IKJ ALA 308 ENGINEERED MUTATION SEQADV 6IRX ASN A 344 UNP A0A0R4IKJ HIS 344 ENGINEERED MUTATION SEQRES 1 A 496 VAL TYR TRP ASP LEU ASP ILE GLN THR ASN ALA VAL ILE SEQRES 2 A 496 ARG GLU ARG ALA PRO ALA ASP HIS LEU PRO PRO HIS PRO SEQRES 3 A 496 GLU ILE GLU LEU GLN ARG ALA GLN LEU THR THR LYS LEU SEQRES 4 A 496 ARG GLN HIS TYR HIS GLU LEU CYS SER GLN ARG GLU GLY SEQRES 5 A 496 ILE GLU PRO PRO ARG GLU SER PHE ASN ARG TRP LEU LEU SEQRES 6 A 496 GLU ARG LYS VAL VAL ASP LYS GLY LEU ASP PRO LEU LEU SEQRES 7 A 496 PRO SER GLU CYS ASP PRO VAL ILE SER PRO SER MSE PHE SEQRES 8 A 496 ARG GLU ILE MSE ASN ASP ILE PRO ILE ARG LEU SER ARG SEQRES 9 A 496 ILE LYS TYR LYS GLU GLU ALA ARG LYS LEU LEU PHE LYS SEQRES 10 A 496 TYR ALA GLU ALA ALA LYS LYS MSE ILE ASP SER ARG ASN SEQRES 11 A 496 VAL THR PRO GLU SER ARG LYS VAL VAL LYS TRP ASN VAL SEQRES 12 A 496 GLU ASP THR MSE ASN TRP LEU ARG ARG ASP HIS SER ALA SEQRES 13 A 496 SER LYS GLU ASP TYR MSE ASP ARG LEU GLU ASN LEU ARG SEQRES 14 A 496 LYS GLN CYS GLY PRO HIS VAL ALA SER VAL ALA LYS ASP SEQRES 15 A 496 SER VAL GLU GLY ILE CYS SER LYS ILE TYR HIS ILE SER SEQRES 16 A 496 ALA GLU TYR VAL ARG ARG ILE ARG GLN ALA HIS LEU THR SEQRES 17 A 496 LEU LEU LYS GLU CYS ASN ILE SER VAL ASP GLY THR GLU SEQRES 18 A 496 SER ALA GLU VAL GLN ASP ARG LEU VAL TYR CYS TYR PRO SEQRES 19 A 496 VAL ARG LEU SER ILE PRO ALA PRO PRO GLN THR ARG VAL SEQRES 20 A 496 GLU LEU HIS PHE GLU ASN ASP ILE ALA CYS LEU ARG PHE SEQRES 21 A 496 LYS GLY GLU MSE VAL LYS VAL SER ARG GLY HIS PHE ASN SEQRES 22 A 496 LYS LEU GLU LEU LEU TYR ARG TYR SER CYS ILE ASP ASP SEQRES 23 A 496 PRO ARG PHE GLU LYS PHE LEU SER ARG VAL TRP CYS LEU SEQRES 24 A 496 ILE LYS ARG TYR GLN VAL MSE PHE GLY SER GLY VAL ASN SEQRES 25 A 496 GLU GLY SER GLY LEU GLN GLY SER LEU PRO VAL PRO VAL SEQRES 26 A 496 PHE GLU ALA LEU ASN LYS GLN PHE GLY VAL THR PHE GLU SEQRES 27 A 496 CYS PHE ALA SER PRO LEU ASN CYS TYR PHE LYS GLN PHE SEQRES 28 A 496 CYS SER ALA PHE PRO ASP ILE ASP GLY PHE PHE GLY SER SEQRES 29 A 496 ARG GLY PRO PHE LEU SER PHE SER PRO ALA SER GLY SER SEQRES 30 A 496 PHE GLU ALA ASN PRO PRO PHE CYS GLU GLU LEU MSE ASP SEQRES 31 A 496 ALA MSE VAL THR HIS PHE GLU ASP LEU LEU GLY ARG SER SEQRES 32 A 496 SER GLU PRO LEU SER PHE ILE ILE PHE VAL PRO GLU TRP SEQRES 33 A 496 ARG ASP PRO PRO THR PRO ALA LEU THR ARG MSE GLU ALA SEQRES 34 A 496 SER ARG PHE ARG ARG HIS GLN MSE THR VAL PRO ALA PHE SEQRES 35 A 496 GLU HIS GLU TYR ARG SER GLY SER GLN HIS ILE CYS LYS SEQRES 36 A 496 ARG GLU GLU ILE TYR TYR LYS ALA ILE HIS GLY THR ALA SEQRES 37 A 496 VAL ILE PHE LEU GLN ASN ASN ALA GLY PHE ALA LYS TRP SEQRES 38 A 496 GLU PRO THR THR GLU ARG ILE GLN GLU LEU LEU ALA ALA SEQRES 39 A 496 TYR LYS MODRES 6IRX MSE A 267 MET MODIFIED RESIDUE MODRES 6IRX MSE A 272 MET MODIFIED RESIDUE MODRES 6IRX MSE A 302 MET MODIFIED RESIDUE MODRES 6IRX MSE A 324 MET MODIFIED RESIDUE MODRES 6IRX MSE A 339 MET MODIFIED RESIDUE MODRES 6IRX MSE A 441 MET MODIFIED RESIDUE MODRES 6IRX MSE A 483 MET MODIFIED RESIDUE MODRES 6IRX MSE A 566 MET MODIFIED RESIDUE MODRES 6IRX MSE A 569 MET MODIFIED RESIDUE MODRES 6IRX MSE A 604 MET MODIFIED RESIDUE MODRES 6IRX MSE A 614 MET MODIFIED RESIDUE HET MSE A 267 8 HET MSE A 272 8 HET MSE A 302 8 HET MSE A 324 8 HET MSE A 339 8 HET MSE A 441 8 HET MSE A 483 8 HET MSE A 566 8 HET MSE A 569 8 HET MSE A 604 8 HET MSE A 614 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 2 HOH *198(H2 O) HELIX 1 AA1 HIS A 202 GLY A 229 1 28 HELIX 2 AA2 GLU A 235 ASP A 248 1 14 HELIX 3 AA3 SER A 264 ASP A 274 1 11 HELIX 4 AA4 TYR A 284 ARG A 306 1 23 HELIX 5 AA5 THR A 309 ARG A 328 1 20 HELIX 6 AA6 SER A 334 CYS A 390 1 57 HELIX 7 AA7 ARG A 446 CYS A 460 1 15 HELIX 8 AA8 LYS A 468 GLY A 485 1 18 HELIX 9 AA9 PRO A 499 GLY A 511 1 13 HELIX 10 AB1 PHE A 532 GLY A 537 1 6 HELIX 11 AB2 PHE A 538 GLY A 540 5 3 HELIX 12 AB3 PRO A 544 PHE A 548 5 5 HELIX 13 AB4 CYS A 562 SER A 580 1 19 HELIX 14 AB5 THR A 598 ALA A 606 1 9 HELIX 15 AB6 TYR A 637 ILE A 641 5 5 HELIX 16 AB7 ASN A 651 TRP A 658 1 8 HELIX 17 AB8 THR A 661 ALA A 670 1 10 SHEET 1 AA1 2 VAL A 189 ARG A 191 0 SHEET 2 AA1 2 LEU A 406 TYR A 408 -1 O VAL A 407 N ILE A 190 SHEET 1 AA2 3 VAL A 424 GLU A 429 0 SHEET 2 AA2 3 ILE A 432 PHE A 437 -1 O CYS A 434 N HIS A 427 SHEET 3 AA2 3 GLU A 440 SER A 445 -1 O VAL A 444 N ALA A 433 SHEET 1 AA3 5 PHE A 514 GLU A 515 0 SHEET 2 AA3 5 GLY A 553 ALA A 557 1 O GLU A 556 N PHE A 514 SHEET 3 AA3 5 LEU A 584 PRO A 591 1 O PHE A 589 N ALA A 557 SHEET 4 AA3 5 THR A 644 GLN A 650 -1 O ALA A 645 N VAL A 590 SHEET 5 AA3 5 ARG A 610 VAL A 616 -1 N ARG A 611 O PHE A 648 LINK C SER A 266 N MSE A 267 1555 1555 1.33 LINK C MSE A 267 N PHE A 268 1555 1555 1.33 LINK C ILE A 271 N MSE A 272 1555 1555 1.33 LINK C MSE A 272 N ASN A 273 1555 1555 1.33 LINK C LYS A 301 N MSE A 302 1555 1555 1.33 LINK C MSE A 302 N ILE A 303 1555 1555 1.33 LINK C THR A 323 N MSE A 324 1555 1555 1.33 LINK C MSE A 324 N ASN A 325 1555 1555 1.34 LINK C TYR A 338 N MSE A 339 1555 1555 1.33 LINK C MSE A 339 N ASP A 340 1555 1555 1.34 LINK C GLU A 440 N MSE A 441 1555 1555 1.33 LINK C MSE A 441 N VAL A 442 1555 1555 1.33 LINK C VAL A 482 N MSE A 483 1555 1555 1.33 LINK C MSE A 483 N PHE A 484 1555 1555 1.33 LINK C LEU A 565 N MSE A 566 1555 1555 1.33 LINK C MSE A 566 N ASP A 567 1555 1555 1.33 LINK C ALA A 568 N MSE A 569 1555 1555 1.33 LINK C MSE A 569 N VAL A 570 1555 1555 1.34 LINK C ARG A 603 N MSE A 604 1555 1555 1.33 LINK C MSE A 604 N GLU A 605 1555 1555 1.33 LINK C GLN A 613 N MSE A 614 1555 1555 1.33 LINK C MSE A 614 N THR A 615 1555 1555 1.33 CISPEP 1 ASP A 260 PRO A 261 0 5.44 CISPEP 2 ILE A 275 PRO A 276 0 3.88 CISPEP 3 ASP A 595 PRO A 596 0 -8.49 CRYST1 71.545 84.132 93.084 90.00 90.00 90.00 P 21 21 21 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 0.013977 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011886 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010743 0.00000