HEADER TRANSLATION REGULATOR 07-FEB-14 2MKH TITLE SOLUTION STRUCTURE OF TANDEM RRM DOMAINS OF CYTOPLASMIC TITLE 2 POLYADENYLATION ELEMENT BINDING PROTEIN 1 (CPEB1) IN FREE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOPLASMIC POLYADENYLATION ELEMENT-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 219-434; COMPND 5 SYNONYM: CPE-BP1, CPE-BINDING PROTEIN 1, H-CEBP, HCPEB-1; COMPND 6 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: CPEB1, CPEB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A(+) KEYWDS CPEB1, RNA RECOGNITION MOTIF (RRM), CYTOPLASMIC POLYADENYLATION, KEYWDS 2 TRANSLATIONAL REGULATION, TRANSLATION REGULATOR EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.AFROZ,L.SKRISOVSKA,E.BELLOC,J.G.BOIXET,R.MENDEZ,F.H.-T.ALLAIN REVDAT 2 27-APR-16 2MKH 1 DBREF SEQADV SEQRES REVDAT 1 23-JUL-14 2MKH 0 JRNL AUTH T.AFROZ,L.SKRISOVSKA,E.BELLOC,J.GUILLEN-BOIXET,R.MENDEZ, JRNL AUTH 2 F.H.-T.ALLAIN JRNL TITL A FLY TRAP MECHANISM PROVIDES SEQUENCE-SPECIFIC RNA JRNL TITL 2 RECOGNITION BY CPEB PROTEINS JRNL REF GENES DEV. V. 28 1498 2014 JRNL REFN ISSN 0890-9369 JRNL PMID 24990967 JRNL DOI 10.1101/GAD.241133.114 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MKH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-FEB-14. REMARK 100 THE RCSB ID CODE IS RCSB103722. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 100 MM SODIUM CHLORIDE-1, 1 MM REMARK 210 DTT-2, 1 MM MAGNESIUM SULPHATE-3, REMARK 210 50 MM SODIUM PHOSPHATE-4, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC ALIPHATIC; 2D 1H- REMARK 210 13C HSQC AROMATIC; 2D 1H-1H REMARK 210 TOCSY; 2D 1H-1H NOESY; 3D HNCO; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D HCCH REMARK 210 -TOCSY; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC; 3D HN(CO)CA REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 700 MHZ; 600 MHZ; 500 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 LEU A 430 REMARK 465 GLU A 431 REMARK 465 ASP A 432 REMARK 465 SER A 433 REMARK 465 LEU A 434 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 ARG A 395 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 2 TYR A 312 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 5 ARG A 257 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 5 ARG A 319 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 6 ARG A 350 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 7 PHE A 374 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 8 TYR A 229 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 10 ARG A 340 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 10 TYR A 404 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 11 ARG A 257 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 11 ARG A 320 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 12 TYR A 389 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 13 TYR A 404 CB - CG - CD1 ANGL. DEV. = -4.3 DEGREES REMARK 500 14 ARG A 395 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 18 PRO A 303 C - N - CA ANGL. DEV. = 9.0 DEGREES REMARK 500 19 PRO A 303 C - N - CA ANGL. DEV. = 9.3 DEGREES 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 1 PRO A 225 109.63 -44.21 REMARK 500 1 PRO A 232 -76.52 -63.33 REMARK 500 1 SER A 235 -9.95 -146.22 REMARK 500 1 LYS A 237 174.13 -53.66 REMARK 500 1 VAL A 243 72.98 -119.96 REMARK 500 1 TRP A 245 -4.94 -141.42 REMARK 500 1 ARG A 275 31.11 -90.77 REMARK 500 1 PHE A 286 -167.21 -168.03 REMARK 500 1 GLU A 289 -54.10 -140.32 REMARK 500 1 CYS A 299 -148.32 -107.25 REMARK 500 1 PRO A 303 -103.01 -71.72 REMARK 500 1 SER A 318 38.00 -149.27 REMARK 500 1 MET A 321 -41.79 -157.75 REMARK 500 1 PRO A 348 108.69 -54.63 REMARK 500 1 ARG A 350 73.98 -106.52 REMARK 500 1 HIS A 358 150.19 -48.70 REMARK 500 1 MET A 360 -53.21 -145.43 REMARK 500 1 PHE A 374 -17.38 -158.67 REMARK 500 1 VAL A 378 -33.06 -135.01 REMARK 500 1 HIS A 387 38.58 70.49 REMARK 500 1 TYR A 389 54.52 37.87 REMARK 500 1 ILE A 391 37.73 39.75 REMARK 500 1 ALA A 411 -17.97 53.17 REMARK 500 1 LYS A 419 16.32 -144.32 REMARK 500 2 TRP A 220 -16.90 -151.76 REMARK 500 2 LYS A 230 7.75 -66.93 REMARK 500 2 ASN A 231 71.17 36.80 REMARK 500 2 PRO A 232 -89.64 -66.31 REMARK 500 2 SER A 235 13.24 -155.39 REMARK 500 2 LYS A 237 -172.77 -66.89 REMARK 500 2 GLU A 287 88.29 -60.36 REMARK 500 2 LEU A 288 5.18 -56.56 REMARK 500 2 GLU A 289 -41.73 -131.67 REMARK 500 2 CYS A 299 -157.15 -79.10 REMARK 500 2 PRO A 303 33.04 -77.49 REMARK 500 2 SER A 305 70.91 41.96 REMARK 500 2 ASP A 307 28.59 -160.33 REMARK 500 2 SER A 318 -32.62 -147.85 REMARK 500 2 ARG A 322 -95.25 -69.89 REMARK 500 2 CYS A 323 29.80 -156.33 REMARK 500 2 PRO A 348 63.44 -57.86 REMARK 500 2 ALA A 356 -2.41 61.18 REMARK 500 2 ILE A 391 48.48 31.70 REMARK 500 2 ASN A 399 17.52 56.55 REMARK 500 2 ALA A 411 -12.54 57.29 REMARK 500 2 LYS A 419 -4.37 -145.57 REMARK 500 3 THR A 219 159.68 60.03 REMARK 500 3 ARG A 227 -1.81 -142.78 REMARK 500 3 SER A 235 -155.44 -152.52 REMARK 500 3 LYS A 237 143.85 56.26 REMARK 500 REMARK 500 THIS ENTRY HAS 484 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 12 ILE A 247 24.4 L L OUTSIDE RANGE REMARK 500 20 ILE A 247 21.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19775 RELATED DB: BMRB REMARK 900 RELATED ID: 2MKE RELATED DB: PDB REMARK 900 RELATED ID: 2MKI RELATED DB: PDB REMARK 900 RELATED ID: 2MKJ RELATED DB: PDB REMARK 900 RELATED ID: 2MKK RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS SEQUENCE IS ISOFORM 4 OF CPEB1_HUMAN. DBREF 2MKH A 219 434 UNP Q9BZB8 CPEB1_HUMAN 219 434 SEQADV 2MKH MET A 218 UNP Q9BZB8 EXPRESSION TAG SEQRES 1 A 217 MET THR TRP SER GLY GLN LEU PRO PRO ARG ASN TYR LYS SEQRES 2 A 217 ASN PRO ILE TYR SER CYS LYS VAL PHE LEU GLY GLY VAL SEQRES 3 A 217 PRO TRP ASP ILE THR GLU ALA GLY LEU VAL ASN THR PHE SEQRES 4 A 217 ARG VAL PHE GLY SER LEU SER VAL GLU TRP PRO GLY LYS SEQRES 5 A 217 ASP GLY LYS HIS PRO ARG CYS PRO PRO LYS GLY TYR VAL SEQRES 6 A 217 TYR LEU VAL PHE GLU LEU GLU LYS SER VAL ARG SER LEU SEQRES 7 A 217 LEU GLN ALA CYS SER HIS ASP PRO LEU SER PRO ASP GLY SEQRES 8 A 217 LEU SER GLU TYR TYR PHE LYS MET SER SER ARG ARG MET SEQRES 9 A 217 ARG CYS LYS GLU VAL GLN VAL ILE PRO TRP VAL LEU ALA SEQRES 10 A 217 ASP SER ASN PHE VAL ARG SER PRO SER GLN ARG LEU ASP SEQRES 11 A 217 PRO SER ARG THR VAL PHE VAL GLY ALA LEU HIS GLY MET SEQRES 12 A 217 LEU ASN ALA GLU ALA LEU ALA ALA ILE LEU ASN ASP LEU SEQRES 13 A 217 PHE GLY GLY VAL VAL TYR ALA GLY ILE ASP THR ASP LYS SEQRES 14 A 217 HIS LYS TYR PRO ILE GLY SER GLY ARG VAL THR PHE ASN SEQRES 15 A 217 ASN GLN ARG SER TYR LEU LYS ALA VAL SER ALA ALA PHE SEQRES 16 A 217 VAL GLU ILE LYS THR THR LYS PHE THR LYS LYS VAL GLN SEQRES 17 A 217 ILE ASP PRO TYR LEU GLU ASP SER LEU HELIX 1 1 THR A 248 ARG A 257 1 10 HELIX 2 2 VAL A 258 GLY A 260 5 3 HELIX 3 3 GLU A 289 GLN A 297 1 9 HELIX 4 4 ASN A 362 PHE A 374 1 13 HELIX 5 5 GLN A 401 ALA A 411 1 11 SHEET 1 A 7 THR A 219 TRP A 220 0 SHEET 2 A 7 PHE A 412 LYS A 416 1 O LYS A 416 N TRP A 220 SHEET 3 A 7 THR A 421 ASP A 427 -1 O LYS A 422 N ILE A 415 SHEET 4 A 7 THR A 351 GLY A 355 -1 N GLY A 355 O GLN A 425 SHEET 5 A 7 SER A 393 THR A 397 -1 O GLY A 394 N VAL A 354 SHEET 6 A 7 TYR A 379 ILE A 382 -1 N GLY A 381 O ARG A 395 SHEET 7 A 7 ASN A 337 VAL A 339 -1 N PHE A 338 O ALA A 380 SHEET 1 B 6 LEU A 262 GLU A 265 0 SHEET 2 B 6 TYR A 281 PHE A 286 -1 O TYR A 283 N GLU A 265 SHEET 3 B 6 TYR A 234 GLY A 241 -1 N VAL A 238 O LEU A 284 SHEET 4 B 6 VAL A 326 VAL A 332 -1 O GLN A 327 N GLY A 241 SHEET 5 B 6 GLU A 311 PHE A 314 -1 N PHE A 314 O VAL A 326 SHEET 6 B 6 SER A 300 ASP A 302 -1 N SER A 300 O TYR A 313 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