HEADER RNA BINDING PROTEIN 14-FEB-14 2MKS TITLE NMR STRUCTURE OF THE RRM DOMAIN OF RBMX FROM HOMO SAPIENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-BINDING MOTIF PROTEIN, X CHROMOSOME; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RRM DOMAIN RESIDUES 1-90; COMPND 5 SYNONYM: GLYCOPROTEIN P43, HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN G, COMPND 6 HNRNP G, RNA-BINDING MOTIF PROTEIN, X CHROMOSOME, N-TERMINALLY COMPND 7 PROCESSED; COMPND 8 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: RBMX, HNRPG, RBMXP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PSPEEDET KEYWDS T-CELL, PSI-BIOLOGY, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.SERRANO,M.GERALT,K.WUTHRICH,JOINT CENTER FOR STRUCTURAL GENOMICS AUTHOR 2 (JCSG),PARTNERSHIP FOR T-CELL BIOLOGY (TCELL) REVDAT 1 12-MAR-14 2MKS 0 JRNL AUTH P.SERRANO,K.WUTHRICH,M.GERALT,S.K.DUTTA JRNL TITL NMR STRUCTURE OF THE FIRST RRM DOMAIN OF THE PROTEIN RBM39 JRNL TITL 2 FROM HOMO SAPIENS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, OPALP REMARK 3 AUTHORS : GUNTERT P. (CYANA), LUGINBUHL, GUNTERT, BILLETER REMARK 3 AND WUTHRICH (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MKS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-FEB-14. REMARK 100 THE RCSB ID CODE IS RCSB103733. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 0.220 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2 MM [U-98% 13C; U-98% 15N] REMARK 210 PROTEIN, 100 MM SODIUM CHLORIDE, REMARK 210 10 MM [U-99% 2H] SODIUM ACETATE, REMARK 210 5 MM SODIUM AZIDE, 2 MM DTT, 95% REMARK 210 H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY; 4D REMARK 210 APSY HACANH; 5D APSY CBCACONH; 5D REMARK 210 APSY HACACONH 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, CARA, UNIO REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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 3 VAL A 56 CA - CB - CG2 ANGL. DEV. = 13.6 DEGREES REMARK 500 5 ARG A 8 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 13 VAL A 56 CA - CB - CG2 ANGL. DEV. = 11.4 DEGREES REMARK 500 16 VAL A 56 CA - CB - CG2 ANGL. DEV. = 9.5 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 ARG A 8 82.89 -157.02 REMARK 500 1 ASN A 18 -179.40 -66.18 REMARK 500 1 ARG A 35 141.30 65.15 REMARK 500 1 GLU A 38 115.94 -164.21 REMARK 500 1 THR A 47 31.84 -153.98 REMARK 500 1 ASP A 70 -56.67 -129.66 REMARK 500 2 PRO A 9 23.92 -74.88 REMARK 500 2 LYS A 32 11.17 -146.31 REMARK 500 2 GLU A 46 -72.77 -75.44 REMARK 500 2 THR A 47 64.38 -156.62 REMARK 500 2 ASN A 48 -6.45 60.85 REMARK 500 3 GLU A 20 23.32 -145.62 REMARK 500 3 GLU A 46 -68.04 -166.64 REMARK 500 3 THR A 47 24.37 -147.80 REMARK 500 3 ASN A 48 16.81 51.94 REMARK 500 3 SER A 90 49.22 -152.29 REMARK 500 4 ARG A 8 69.64 -152.64 REMARK 500 4 TYR A 33 73.29 -106.66 REMARK 500 4 THR A 47 31.06 -156.98 REMARK 500 4 ASP A 70 -61.04 -100.39 REMARK 500 4 ASP A 77 -4.02 65.21 REMARK 500 5 THR A 47 30.04 -150.90 REMARK 500 5 ASN A 48 10.26 57.88 REMARK 500 5 ASP A 70 -69.47 -136.68 REMARK 500 5 LYS A 79 -167.83 -119.73 REMARK 500 6 VAL A 4 18.99 -157.99 REMARK 500 6 GLU A 5 35.65 -74.76 REMARK 500 6 GLU A 20 22.05 -140.14 REMARK 500 6 ARG A 35 176.57 64.16 REMARK 500 6 GLU A 46 -77.27 -60.25 REMARK 500 6 THR A 47 37.87 -162.48 REMARK 500 6 ASN A 48 13.40 58.89 REMARK 500 6 ASP A 70 -51.84 -133.47 REMARK 500 6 LEU A 76 -154.75 -90.45 REMARK 500 7 ALA A 6 32.78 -144.37 REMARK 500 7 GLU A 46 -72.54 -65.99 REMARK 500 7 THR A 47 46.71 -148.30 REMARK 500 8 HIS A 2 -33.15 -134.19 REMARK 500 8 GLU A 5 78.13 -115.66 REMARK 500 8 LEU A 12 -166.75 -124.43 REMARK 500 8 GLU A 20 34.17 -149.04 REMARK 500 8 VAL A 37 -0.11 -142.81 REMARK 500 8 THR A 47 53.24 -164.73 REMARK 500 8 ASN A 48 15.74 59.29 REMARK 500 8 LYS A 49 -176.52 -67.95 REMARK 500 8 ASP A 70 -85.33 -108.04 REMARK 500 9 VAL A 4 37.31 -70.89 REMARK 500 9 ARG A 35 108.93 75.33 REMARK 500 9 THR A 47 27.25 -164.28 REMARK 500 9 ASP A 70 -70.36 -114.85 REMARK 500 REMARK 500 THIS ENTRY HAS 129 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 6 ASP A 7 4 145.98 REMARK 500 ARG A 45 GLU A 46 4 -134.52 REMARK 500 GLY A 1 HIS A 2 6 133.20 REMARK 500 ALA A 6 ASP A 7 6 146.83 REMARK 500 SER A 90 PHE A 91 6 148.63 REMARK 500 ASP A 7 ARG A 8 18 147.93 REMARK 500 LEU A 76 ASP A 77 18 -144.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 TYR A 33 0.08 SIDE CHAIN REMARK 500 2 ARG A 8 0.09 SIDE CHAIN REMARK 500 5 ARG A 69 0.13 SIDE CHAIN REMARK 500 6 TYR A 33 0.08 SIDE CHAIN REMARK 500 6 ARG A 35 0.20 SIDE CHAIN REMARK 500 8 ARG A 51 0.09 SIDE CHAIN REMARK 500 9 ARG A 69 0.12 SIDE CHAIN REMARK 500 10 TYR A 33 0.07 SIDE CHAIN REMARK 500 10 ARG A 35 0.09 SIDE CHAIN REMARK 500 10 ARG A 69 0.10 SIDE CHAIN REMARK 500 13 ARG A 45 0.09 SIDE CHAIN REMARK 500 14 ARG A 8 0.08 SIDE CHAIN REMARK 500 16 ARG A 8 0.12 SIDE CHAIN REMARK 500 16 ARG A 35 0.13 SIDE CHAIN REMARK 500 17 ARG A 8 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19792 RELATED DB: BMRB REMARK 900 RELATED ID: JCSG-423933 RELATED DB: TARGETTRACK DBREF 2MKS A 3 92 UNP P38159 RBMX_HUMAN 1 90 SEQADV 2MKS GLY A 1 UNP P38159 EXPRESSION TAG SEQADV 2MKS HIS A 2 UNP P38159 EXPRESSION TAG SEQRES 1 A 92 GLY HIS MET VAL GLU ALA ASP ARG PRO GLY LYS LEU PHE SEQRES 2 A 92 ILE GLY GLY LEU ASN THR GLU THR ASN GLU LYS ALA LEU SEQRES 3 A 92 GLU ALA VAL PHE GLY LYS TYR GLY ARG ILE VAL GLU VAL SEQRES 4 A 92 LEU LEU MET LYS ASP ARG GLU THR ASN LYS SER ARG GLY SEQRES 5 A 92 PHE ALA PHE VAL THR PHE GLU SER PRO ALA ASP ALA LYS SEQRES 6 A 92 ASP ALA ALA ARG ASP MET ASN GLY LYS SER LEU ASP GLY SEQRES 7 A 92 LYS ALA ILE LYS VAL GLU GLN ALA THR LYS PRO SER PHE SEQRES 8 A 92 GLU HELIX 1 1 ASN A 22 GLY A 31 1 10 HELIX 2 2 LYS A 32 GLY A 34 5 3 HELIX 3 3 SER A 60 ALA A 67 1 8 SHEET 1 A 5 GLU A 38 LEU A 40 0 SHEET 2 A 5 PHE A 53 THR A 57 -1 O PHE A 55 N LEU A 40 SHEET 3 A 5 PHE A 13 GLY A 15 -1 N ILE A 14 O ALA A 54 SHEET 4 A 5 LYS A 79 GLU A 84 -1 O LYS A 82 N GLY A 15 SHEET 5 A 5 LYS A 74 LEU A 76 -1 N LYS A 74 O ILE A 81 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