HEADER RNA BINDING PROTEIN 22-MAY-19 6RT6 TITLE THE YTH DOMAIN OF YTHDC1 PROTEIN IN COMPLEX WITH GGM6AC TITLE 2 OLIGONUCLEOTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*(6MZ)P*C)-3'); COMPND 3 CHAIN: A, E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: YTH DOMAIN-CONTAINING PROTEIN 1; COMPND 7 CHAIN: B, C; COMPND 8 SYNONYM: SPLICING FACTOR YT521,YT521-B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: YTHDC1, KIAA1966, YT521; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-RNA INTERACTION, EPITRANSCRIPTOMICS, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.BEDI,P.SLEDZ,A.CAFLISCH REVDAT 3 24-JAN-24 6RT6 1 REMARK REVDAT 2 18-DEC-19 6RT6 1 JRNL REVDAT 1 27-NOV-19 6RT6 0 JRNL AUTH Y.LI,R.K.BEDI,L.WIEDMER,D.HUANG,P.SLEDZ,A.CAFLISCH JRNL TITL FLEXIBLE BINDING OF M6A READER PROTEIN YTHDC1 TO ITS JRNL TITL 2 PREFERRED RNA MOTIF. JRNL REF J CHEM THEORY COMPUT V. 15 7004 2019 JRNL REFN ISSN 1549-9626 JRNL PMID 31670957 JRNL DOI 10.1021/ACS.JCTC.9B00987 REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.15.2_3472: ???) 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) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.65 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 56867 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.520 REMARK 3 FREE R VALUE TEST SET COUNT : 2004 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 40.6606 - 3.5194 0.99 3966 151 0.1662 0.1559 REMARK 3 2 3.5194 - 2.7936 1.00 3928 145 0.1874 0.1912 REMARK 3 3 2.7936 - 2.4406 1.00 3956 144 0.2030 0.2287 REMARK 3 4 2.4406 - 2.2174 1.00 3907 145 0.1993 0.2524 REMARK 3 5 2.2174 - 2.0585 1.00 3949 137 0.2056 0.2497 REMARK 3 6 2.0585 - 1.9371 1.00 3931 147 0.2121 0.2449 REMARK 3 7 1.9371 - 1.8401 1.00 3929 142 0.2300 0.2691 REMARK 3 8 1.8401 - 1.7600 1.00 3943 138 0.2433 0.2705 REMARK 3 9 1.7600 - 1.6923 1.00 3910 147 0.2575 0.3014 REMARK 3 10 1.6923 - 1.6339 1.00 3940 145 0.2847 0.3092 REMARK 3 11 1.6339 - 1.5828 1.00 3923 138 0.2994 0.3378 REMARK 3 12 1.5828 - 1.5375 0.99 3884 146 0.3373 0.3615 REMARK 3 13 1.5375 - 1.4971 0.99 3876 137 0.3681 0.3805 REMARK 3 14 1.4971 - 1.4605 0.97 3821 142 0.4061 0.3656 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.800 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.006 2645 REMARK 3 ANGLE : 0.839 3597 REMARK 3 CHIRALITY : 0.080 403 REMARK 3 PLANARITY : 0.005 441 REMARK 3 DIHEDRAL : 11.189 1211 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 6RT6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1292102536. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 1.000002 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56905 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 40.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.360 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.27 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.800 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: 4R3H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS AT PH 6.5, 0.2 M REMARK 280 AMMONIUM SULFATE AND 25% PEG 3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 51.86950 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 G A -1 REMARK 465 G A 0 REMARK 465 GLY B 422 REMARK 465 GLY B 423 REMARK 465 SER B 424 REMARK 465 PRO B 425 REMARK 465 ARG B 508 REMARK 465 HIS B 509 REMARK 465 ARG C 508 REMARK 465 HIS C 509 REMARK 465 G E -1 REMARK 465 G E 0 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 6MZ A 1 O1P O2P P REMARK 470 C A 2 C5' C4' O4' C3' O3' C2' O2' REMARK 470 C A 2 C1' N1 C2 O2 N3 C4 N4 REMARK 470 C A 2 C5 C6 REMARK 470 LYS B 374 CD CE NZ REMARK 470 LYS B 385 CG CD CE NZ REMARK 470 ARG B 395 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 404 NE CZ NH1 NH2 REMARK 470 GLU B 405 CG CD OE1 OE2 REMARK 470 HIS B 427 CG ND1 CD2 CE1 NE2 REMARK 470 MET B 434 CG SD CE REMARK 470 LYS B 437 CG CD CE NZ REMARK 470 LYS B 444 CE NZ REMARK 470 LYS B 457 CE NZ REMARK 470 ARG B 475 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 483 CD OE1 OE2 REMARK 470 GLU B 496 CG CD OE1 OE2 REMARK 470 ASP C 354 CG OD1 OD2 REMARK 470 LYS C 374 CE NZ REMARK 470 LYS C 385 CG CD CE NZ REMARK 470 ARG C 404 CG CD NE CZ NH1 NH2 REMARK 470 HIS C 420 CG ND1 CD2 CE1 NE2 REMARK 470 MET C 434 CG SD CE REMARK 470 SER C 435 OG REMARK 470 LYS C 437 CG CD CE NZ REMARK 470 LYS C 444 CG CD CE NZ REMARK 470 ARG C 475 CG CD NE CZ NH1 NH2 REMARK 470 GLN C 502 CG CD OE1 NE2 REMARK 470 6MZ E 1 O1P O2P P REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 714 O HOH B 747 2.10 REMARK 500 O HOH B 724 O HOH B 779 2.18 REMARK 500 O HOH B 715 O HOH B 810 2.18 REMARK 500 O HOH B 814 O HOH B 829 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH C 709 O HOH C 823 1655 2.16 REMARK 500 O HOH B 790 O HOH C 795 2545 2.17 REMARK 500 O HOH B 724 O HOH C 733 2645 2.19 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 HIS B 427 38.45 99.16 REMARK 500 HIS B 505 36.28 -75.62 REMARK 500 LEU C 439 36.79 -86.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH C 885 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH C 886 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH C 887 DISTANCE = 6.88 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-nucleotide 6MZ E 1 and C E 2 DBREF 6RT6 A -1 2 PDB 6RT6 6RT6 -1 2 DBREF 6RT6 B 345 509 UNP Q96MU7 YTDC1_HUMAN 345 509 DBREF 6RT6 C 345 509 UNP Q96MU7 YTDC1_HUMAN 345 509 DBREF 6RT6 E -1 2 PDB 6RT6 6RT6 -1 2 SEQADV 6RT6 GLY B 344 UNP Q96MU7 EXPRESSION TAG SEQADV 6RT6 GLY C 344 UNP Q96MU7 EXPRESSION TAG SEQRES 1 A 4 G G 6MZ C SEQRES 1 B 166 GLY THR SER LYS LEU LYS TYR VAL LEU GLN ASP ALA ARG SEQRES 2 B 166 PHE PHE LEU ILE LYS SER ASN ASN HIS GLU ASN VAL SER SEQRES 3 B 166 LEU ALA LYS ALA LYS GLY VAL TRP SER THR LEU PRO VAL SEQRES 4 B 166 ASN GLU LYS LYS LEU ASN LEU ALA PHE ARG SER ALA ARG SEQRES 5 B 166 SER VAL ILE LEU ILE PHE SER VAL ARG GLU SER GLY LYS SEQRES 6 B 166 PHE GLN GLY PHE ALA ARG LEU SER SER GLU SER HIS HIS SEQRES 7 B 166 GLY GLY SER PRO ILE HIS TRP VAL LEU PRO ALA GLY MET SEQRES 8 B 166 SER ALA LYS MET LEU GLY GLY VAL PHE LYS ILE ASP TRP SEQRES 9 B 166 ILE CYS ARG ARG GLU LEU PRO PHE THR LYS SER ALA HIS SEQRES 10 B 166 LEU THR ASN PRO TRP ASN GLU HIS LYS PRO VAL LYS ILE SEQRES 11 B 166 GLY ARG ASP GLY GLN GLU ILE GLU LEU GLU CYS GLY THR SEQRES 12 B 166 GLN LEU CYS LEU LEU PHE PRO PRO ASP GLU SER ILE ASP SEQRES 13 B 166 LEU TYR GLN VAL ILE HIS LYS MET ARG HIS SEQRES 1 C 166 GLY THR SER LYS LEU LYS TYR VAL LEU GLN ASP ALA ARG SEQRES 2 C 166 PHE PHE LEU ILE LYS SER ASN ASN HIS GLU ASN VAL SER SEQRES 3 C 166 LEU ALA LYS ALA LYS GLY VAL TRP SER THR LEU PRO VAL SEQRES 4 C 166 ASN GLU LYS LYS LEU ASN LEU ALA PHE ARG SER ALA ARG SEQRES 5 C 166 SER VAL ILE LEU ILE PHE SER VAL ARG GLU SER GLY LYS SEQRES 6 C 166 PHE GLN GLY PHE ALA ARG LEU SER SER GLU SER HIS HIS SEQRES 7 C 166 GLY GLY SER PRO ILE HIS TRP VAL LEU PRO ALA GLY MET SEQRES 8 C 166 SER ALA LYS MET LEU GLY GLY VAL PHE LYS ILE ASP TRP SEQRES 9 C 166 ILE CYS ARG ARG GLU LEU PRO PHE THR LYS SER ALA HIS SEQRES 10 C 166 LEU THR ASN PRO TRP ASN GLU HIS LYS PRO VAL LYS ILE SEQRES 11 C 166 GLY ARG ASP GLY GLN GLU ILE GLU LEU GLU CYS GLY THR SEQRES 12 C 166 GLN LEU CYS LEU LEU PHE PRO PRO ASP GLU SER ILE ASP SEQRES 13 C 166 LEU TYR GLN VAL ILE HIS LYS MET ARG HIS SEQRES 1 E 4 G G 6MZ C HET 6MZ A 1 20 HET 6MZ E 1 20 HET SO4 B 601 5 HET SO4 C 601 5 HET SO4 C 602 5 HET SO4 C 603 5 HETNAM 6MZ N6-METHYLADENOSINE-5'-MONOPHOSPHATE HETNAM SO4 SULFATE ION FORMUL 1 6MZ 2(C11 H16 N5 O7 P) FORMUL 5 SO4 4(O4 S 2-) FORMUL 9 HOH *322(H2 O) HELIX 1 AA1 THR B 345 GLN B 353 1 9 HELIX 2 AA2 ASN B 364 GLY B 375 1 12 HELIX 3 AA3 LEU B 380 ALA B 394 1 15 HELIX 4 AA4 THR B 456 ALA B 459 5 4 HELIX 5 AA5 ASN B 463 GLU B 467 5 5 HELIX 6 AA6 GLU B 481 PHE B 492 1 12 HELIX 7 AA7 ASP B 499 HIS B 505 1 7 HELIX 8 AA8 THR C 345 GLN C 353 1 9 HELIX 9 AA9 ASN C 364 GLY C 375 1 12 HELIX 10 AB1 LEU C 380 ALA C 394 1 15 HELIX 11 AB2 THR C 456 SER C 458 5 3 HELIX 12 AB3 ASN C 463 GLU C 467 5 5 HELIX 13 AB4 GLU C 481 PHE C 492 1 12 HELIX 14 AB5 LEU C 500 MET C 507 1 8 SHEET 1 AA1 4 VAL B 376 TRP B 377 0 SHEET 2 AA1 4 PHE B 443 CYS B 449 -1 O PHE B 443 N TRP B 377 SHEET 3 AA1 4 LYS B 408 LEU B 415 -1 N ARG B 414 O ASP B 446 SHEET 4 AA1 4 LEU B 453 PRO B 454 -1 O LEU B 453 N PHE B 409 SHEET 1 AA2 6 VAL B 376 TRP B 377 0 SHEET 2 AA2 6 PHE B 443 CYS B 449 -1 O PHE B 443 N TRP B 377 SHEET 3 AA2 6 LYS B 408 LEU B 415 -1 N ARG B 414 O ASP B 446 SHEET 4 AA2 6 VAL B 397 VAL B 403 -1 N LEU B 399 O ALA B 413 SHEET 5 AA2 6 ARG B 356 SER B 362 1 N ARG B 356 O ILE B 398 SHEET 6 AA2 6 GLU B 479 ILE B 480 -1 O ILE B 480 N PHE B 357 SHEET 1 AA3 6 VAL C 376 TRP C 377 0 SHEET 2 AA3 6 PHE C 443 CYS C 449 -1 O PHE C 443 N TRP C 377 SHEET 3 AA3 6 GLY C 411 LEU C 415 -1 N ARG C 414 O ASP C 446 SHEET 4 AA3 6 SER C 396 VAL C 403 -1 N LEU C 399 O ALA C 413 SHEET 5 AA3 6 ALA C 355 SER C 362 1 N ARG C 356 O ILE C 398 SHEET 6 AA3 6 GLU C 479 ILE C 480 -1 O ILE C 480 N PHE C 357 SHEET 1 AA4 2 LYS C 408 PHE C 409 0 SHEET 2 AA4 2 LEU C 453 PRO C 454 -1 O LEU C 453 N PHE C 409 LINK O3' 6MZ A 1 P C A 2 1555 1555 1.62 LINK O3' 6MZ E 1 P C E 2 1555 1555 1.61 SITE 1 AC1 4 GLY B 344 SER B 346 LYS B 347 HOH B 704 SITE 1 AC2 6 ARG C 451 GLU C 452 HOH C 720 HOH C 721 SITE 2 AC2 6 HOH C 737 HOH C 787 SITE 1 AC3 6 LYS B 386 GLN B 478 GLU B 479 GLY C 344 SITE 2 AC3 6 LYS C 347 HOH C 761 SITE 1 AC4 6 SER C 419 HIS C 420 HIS C 421 ARG C 451 SITE 2 AC4 6 HOH C 709 HOH C 712 SITE 1 AC5 12 LYS B 361 SER B 362 ASN B 363 ASN B 367 SITE 2 AC5 12 TRP B 377 SER B 378 TRP B 428 LEU B 439 SITE 3 AC5 12 ILE B 473 GLY B 474 ARG B 475 ASP B 476 CRYST1 39.913 103.739 41.983 90.00 104.50 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.025054 0.000000 0.006482 0.00000 SCALE2 0.000000 0.009640 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024603 0.00000 HETATM 1 C2 6MZ A 1 3.404 -0.620 6.544 1.00 29.89 C HETATM 2 C4 6MZ A 1 2.309 1.022 5.243 1.00 38.37 C HETATM 3 C5 6MZ A 1 1.745 0.039 4.509 1.00 35.40 C HETATM 4 N9 6MZ A 1 1.876 2.215 4.733 1.00 41.57 N HETATM 5 N3 6MZ A 1 3.132 0.702 6.255 1.00 35.69 N HETATM 6 N1 6MZ A 1 2.834 -1.607 5.810 1.00 39.93 N HETATM 7 C6 6MZ A 1 2.015 -1.293 4.805 1.00 35.93 C HETATM 8 N6 6MZ A 1 1.374 -2.408 3.973 1.00 35.05 N HETATM 9 C9 6MZ A 1 1.321 -3.808 4.505 1.00 31.86 C HETATM 10 N7 6MZ A 1 0.978 0.598 3.562 1.00 36.98 N HETATM 11 C8 6MZ A 1 1.049 1.962 3.714 1.00 40.05 C HETATM 12 O5' 6MZ A 1 -0.350 6.730 7.371 1.00 54.57 O HETATM 13 C5' 6MZ A 1 -0.274 5.913 6.207 1.00 47.95 C HETATM 14 C4' 6MZ A 1 1.136 5.449 5.915 1.00 47.88 C HETATM 15 O4' 6MZ A 1 1.214 4.016 6.077 1.00 50.27 O HETATM 16 C1' 6MZ A 1 2.288 3.512 5.321 1.00 44.72 C HETATM 17 C2' 6MZ A 1 2.664 4.566 4.261 1.00 43.74 C HETATM 18 O2' 6MZ A 1 3.980 5.031 4.533 1.00 45.88 O HETATM 19 C3' 6MZ A 1 1.634 5.688 4.493 1.00 44.55 C HETATM 20 O3' 6MZ A 1 2.181 6.992 4.319 1.00 55.62 O