HEADER RNA BINDING PROTEIN 03-JUN-11 2LDY TITLE SOLUTION STRUCTURE OF THE RMM-CTD DOMAINS OF HUMAN LINE-1 ORF1P COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORF1 CODES FOR A 40 KDA PRODUCT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 157-330; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET 15B KEYWDS RNA BINDING PROTEIN, NUCLEIC ACID CHAPERONE, GENOME EVOLUTION EXPDTA SOLUTION NMR NUMMDL 21 MDLTYP MINIMIZED AVERAGE AUTHOR M.COLES,V.TRUFFAULT REVDAT 2 14-JUN-23 2LDY 1 REMARK SEQADV REVDAT 1 21-SEP-11 2LDY 0 JRNL AUTH E.KHAZINA,V.TRUFFAULT,R.BUTTNER,S.SCHMIDT,M.COLES, JRNL AUTH 2 O.WEICHENRIEDER JRNL TITL TRIMERIC STRUCTURE AND FLEXIBILITY OF THE L1ORF1 PROTEIN IN JRNL TITL 2 HUMAN L1 RETROTRANSPOSITION. JRNL REF NAT.STRUCT.MOL.BIOL. V. 18 1006 2011 JRNL REFN ISSN 1545-9993 JRNL PMID 21822284 JRNL DOI 10.1038/NSMB.2097 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, X-PLOR NIH 2.21 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), SCHWIETERS, KUSZEWSKI, REMARK 3 TJANDRA AND CLORE (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT WITH CONFORMATIONAL DATABASE REMARK 3 POTENTIAL REMARK 4 REMARK 4 2LDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000102277. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 291 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 300 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6 MM [U-100% 15N] L1ORF1P-RMM, REMARK 210 5 MM TRIS, 300 MM SODIUM REMARK 210 CHLORIDE, 90% H2O/10% D2O; 0.8 REMARK 210 MM [U-100% 13C; U-100% 15N] REMARK 210 L1ORF1P-RMM, 5 MM TRIS, 300 MM REMARK 210 SODIUM CHLORIDE, 90% H2O/10% D2O; REMARK 210 0.8 MM [U-100% 15N] L1ORF1P-CTD, REMARK 210 5 MM TRIS, 300 MM SODIUM REMARK 210 CHLORIDE, 90% H2O/10% D2O; 0.8 REMARK 210 MM [U-100% 13C; U-100% 15N] REMARK 210 L1ORF1P-CTD, 5 MM TRIS, 300 MM REMARK 210 SODIUM CHLORIDE, 90% H2O/10% D2O; REMARK 210 0.8 MM [U-100% 15N] L1ORF1P RMM- REMARK 210 CTD, 5 MM TRIS, 300 MM SODIUM REMARK 210 CHLORIDE, 90% H2O/10% D2O; 0.8 REMARK 210 MM [U-100% 13C; U-100% 15N] REMARK 210 L1ORF1P RMM-CTD, 5 MM TRIS, 300 REMARK 210 MM SODIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D CNH-NOESY; 3D NNH- REMARK 210 NOESY; 3D HNCACB; 3D HBHA(CO)NH; REMARK 210 3D C(CO)NH; 3D CCH-TOCSY; 3D REMARK 210 HNCO; 2D 15N-FILTERED 1H-1H REMARK 210 NOESY; 3D CCH-NOESY; 3D CBCA(CO) REMARK 210 NH; 2D 15N-FILTERES 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY 3.113, X-PLOR REMARK 210 NIH 2.21 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 21 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: STRUCTURES OF THE RMM AND CTD DOMAINS WERE FIRST REMARK 210 DETERMINED SEPARATELY, AND DATA COMPARED TO THAT FOR THE TWO- REMARK 210 DOMAIN CONSTRUCT REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-21 REMARK 465 RES C SSSEQI REMARK 465 HIS A 331 REMARK 465 HIS A 332 REMARK 465 HIS A 333 REMARK 465 HIS A 334 REMARK 465 HIS A 335 REMARK 465 HIS A 336 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 1 GLN A 277 60.13 60.56 REMARK 500 1 ALA A 284 40.40 -151.14 REMARK 500 1 GLU A 291 19.72 52.65 REMARK 500 1 ARG A 310 82.14 -150.73 REMARK 500 1 MET A 323 40.50 -89.87 REMARK 500 2 SER A 208 -69.30 -130.06 REMARK 500 2 ALA A 284 40.24 -151.77 REMARK 500 2 ARG A 310 82.12 -150.94 REMARK 500 2 ASN A 326 -51.05 -141.76 REMARK 500 3 SER A 208 173.56 -56.98 REMARK 500 3 SER A 209 36.50 -89.55 REMARK 500 3 ALA A 284 39.98 -152.21 REMARK 500 3 ARG A 310 82.18 -150.99 REMARK 500 4 ARG A 211 50.02 -160.00 REMARK 500 4 GLN A 277 61.03 60.51 REMARK 500 4 ALA A 284 40.84 -151.15 REMARK 500 4 ARG A 310 82.20 -150.89 REMARK 500 5 SER A 209 38.50 -89.87 REMARK 500 5 LEU A 253 49.98 -87.43 REMARK 500 5 ALA A 284 41.42 -149.84 REMARK 500 5 GLU A 291 19.93 53.26 REMARK 500 5 MET A 323 -178.26 -55.56 REMARK 500 6 SER A 208 179.62 -57.29 REMARK 500 6 SER A 209 36.94 -89.68 REMARK 500 6 ALA A 284 40.33 -152.07 REMARK 500 6 ARG A 310 82.21 -150.31 REMARK 500 6 ARG A 325 -60.11 -95.38 REMARK 500 6 ASN A 326 39.94 -144.76 REMARK 500 7 SER A 209 33.95 -89.25 REMARK 500 7 ALA A 284 40.94 -151.61 REMARK 500 7 ARG A 310 82.28 -150.42 REMARK 500 7 MET A 323 40.85 -93.42 REMARK 500 7 GLU A 324 35.74 -95.33 REMARK 500 8 ALA A 284 40.31 -151.75 REMARK 500 8 ARG A 310 82.23 -150.63 REMARK 500 9 SER A 209 41.05 -93.76 REMARK 500 9 ALA A 284 40.01 -150.74 REMARK 500 9 ASN A 327 -67.79 -95.09 REMARK 500 10 ALA A 284 41.51 -150.70 REMARK 500 10 ARG A 310 82.22 -150.15 REMARK 500 11 SER A 209 37.26 -91.34 REMARK 500 11 LEU A 253 50.00 -90.03 REMARK 500 11 ALA A 284 40.90 -152.66 REMARK 500 11 ARG A 310 82.15 -151.01 REMARK 500 12 LEU A 253 50.00 -90.13 REMARK 500 12 ALA A 284 40.41 -152.06 REMARK 500 12 ARG A 310 82.14 -150.96 REMARK 500 12 ASN A 326 41.80 -151.37 REMARK 500 13 ALA A 284 39.88 -151.25 REMARK 500 13 ARG A 310 82.20 -151.01 REMARK 500 REMARK 500 THIS ENTRY HAS 86 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YKO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN LINE-1 ORF1P TIMER REMARK 900 RELATED ID: 2YKP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN LINE-1 ORF1P TIMER REMARK 900 RELATED ID: 2YKQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN LINE-1 ORF1P TIMER REMARK 900 RELATED ID: 17686 RELATED DB: BMRB DBREF 2LDY A 157 330 UNP Q15605 Q15605_HUMAN 157 330 SEQADV 2LDY MET A 155 UNP Q15605 EXPRESSION TAG SEQADV 2LDY GLY A 156 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 331 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 332 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 333 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 334 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 335 UNP Q15605 EXPRESSION TAG SEQADV 2LDY HIS A 336 UNP Q15605 EXPRESSION TAG SEQRES 1 A 182 MET GLY ASN LEU ARG LEU ILE GLY VAL PRO GLU SER ASP SEQRES 2 A 182 VAL GLU ASN GLY THR LYS LEU GLU ASN THR LEU GLN ASP SEQRES 3 A 182 ILE ILE GLN GLU ASN PHE PRO ASN LEU ALA ARG GLN ALA SEQRES 4 A 182 ASN VAL GLN ILE GLN GLU ILE GLN ARG THR PRO GLN ARG SEQRES 5 A 182 TYR SER SER ARG ARG ALA THR PRO ARG HIS ILE ILE VAL SEQRES 6 A 182 ARG PHE THR LYS VAL GLU MET LYS GLU LYS MET LEU ARG SEQRES 7 A 182 ALA ALA ARG GLU LYS GLY ARG VAL THR LEU LYS GLY LYS SEQRES 8 A 182 PRO ILE ARG LEU THR VAL ASP LEU SER ALA GLU THR LEU SEQRES 9 A 182 GLN ALA ARG ARG GLU TRP GLY PRO ILE PHE ASN ILE LEU SEQRES 10 A 182 LYS GLU LYS ASN PHE GLN PRO ARG ILE SER TYR PRO ALA SEQRES 11 A 182 LYS LEU SER PHE ILE SER GLU GLY GLU ILE LYS TYR PHE SEQRES 12 A 182 ILE ASP LYS GLN MET LEU ARG ASP PHE VAL THR THR ARG SEQRES 13 A 182 PRO ALA LEU LYS GLU LEU LEU LYS GLU ALA LEU ASN MET SEQRES 14 A 182 GLU ARG ASN ASN ARG TYR GLN HIS HIS HIS HIS HIS HIS HELIX 1 1 ASN A 170 PHE A 186 1 17 HELIX 2 2 PHE A 186 ALA A 193 1 8 HELIX 3 3 LYS A 223 GLY A 238 1 16 HELIX 4 4 SER A 254 LYS A 274 1 21 HELIX 5 5 ASP A 299 THR A 308 1 10 HELIX 6 6 ARG A 310 ASN A 322 1 13 SHEET 1 A 4 ILE A 197 THR A 203 0 SHEET 2 A 4 HIS A 216 PHE A 221 -1 O ARG A 220 N GLU A 199 SHEET 3 A 4 ASN A 157 ILE A 161 -1 N LEU A 158 O VAL A 219 SHEET 4 A 4 ARG A 248 THR A 250 -1 O THR A 250 N ARG A 159 SHEET 1 B 2 THR A 241 LEU A 242 0 SHEET 2 B 2 LYS A 245 PRO A 246 -1 O LYS A 245 N LEU A 242 SHEET 1 C 3 ARG A 279 SER A 281 0 SHEET 2 C 3 LYS A 285 SER A 290 -1 O SER A 287 N ARG A 279 SHEET 3 C 3 GLU A 293 PHE A 297 -1 O GLU A 293 N SER A 290 CISPEP 1 THR A 203 PRO A 204 1 -8.80 CISPEP 2 TYR A 282 PRO A 283 1 -4.17 CISPEP 3 THR A 203 PRO A 204 2 -9.78 CISPEP 4 TYR A 282 PRO A 283 2 -3.99 CISPEP 5 THR A 203 PRO A 204 3 -7.18 CISPEP 6 TYR A 282 PRO A 283 3 -3.78 CISPEP 7 THR A 203 PRO A 204 4 -10.85 CISPEP 8 TYR A 282 PRO A 283 4 -4.38 CISPEP 9 THR A 203 PRO A 204 5 -6.56 CISPEP 10 TYR A 282 PRO A 283 5 -4.58 CISPEP 11 THR A 203 PRO A 204 6 -6.49 CISPEP 12 TYR A 282 PRO A 283 6 -4.07 CISPEP 13 THR A 203 PRO A 204 7 -6.90 CISPEP 14 TYR A 282 PRO A 283 7 -3.76 CISPEP 15 THR A 203 PRO A 204 8 -7.65 CISPEP 16 TYR A 282 PRO A 283 8 -3.93 CISPEP 17 THR A 203 PRO A 204 9 -7.87 CISPEP 18 TYR A 282 PRO A 283 9 -4.26 CISPEP 19 THR A 203 PRO A 204 10 -7.58 CISPEP 20 TYR A 282 PRO A 283 10 -4.24 CISPEP 21 THR A 203 PRO A 204 11 -4.48 CISPEP 22 TYR A 282 PRO A 283 11 -4.05 CISPEP 23 THR A 203 PRO A 204 12 -4.26 CISPEP 24 TYR A 282 PRO A 283 12 -3.80 CISPEP 25 THR A 203 PRO A 204 13 -6.61 CISPEP 26 TYR A 282 PRO A 283 13 -4.43 CISPEP 27 THR A 203 PRO A 204 14 -8.30 CISPEP 28 TYR A 282 PRO A 283 14 -4.37 CISPEP 29 THR A 203 PRO A 204 15 -8.98 CISPEP 30 TYR A 282 PRO A 283 15 -3.95 CISPEP 31 THR A 203 PRO A 204 16 -8.62 CISPEP 32 TYR A 282 PRO A 283 16 -3.98 CISPEP 33 THR A 203 PRO A 204 17 -5.19 CISPEP 34 TYR A 282 PRO A 283 17 -4.31 CISPEP 35 THR A 203 PRO A 204 18 -9.94 CISPEP 36 TYR A 282 PRO A 283 18 -4.35 CISPEP 37 THR A 203 PRO A 204 19 -5.62 CISPEP 38 TYR A 282 PRO A 283 19 -4.71 CISPEP 39 THR A 203 PRO A 204 20 -5.27 CISPEP 40 TYR A 282 PRO A 283 20 -4.37 CISPEP 41 THR A 203 PRO A 204 21 -4.31 CISPEP 42 TYR A 282 PRO A 283 21 -4.03 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1