PDB Short entry for 2M2B HEADER RNA BINDING PROTEIN 17-DEC-12 2M2B TITLE NMR STRUCTURE OF THE RRM2 DOMAIN OF THE PROTEIN RBM10 FROM HOMO TITLE 2 SAPIENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-BINDING PROTEIN 10; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 277-408; COMPND 5 SYNONYM: G PATCH DOMAIN-CONTAINING PROTEIN 9, RNA-BINDING MOTIF COMPND 6 PROTEIN 10, RNA-BINDING PROTEIN S1-1, S1-1; COMPND 7 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: RBM10, DXS8237E, GPATC9, GPATCH9, KIAA0122; SOURCE 6 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PEU-HIS-FLEX; SOURCE 9 OTHER_DETAILS: WHEAT GERM KEYWDS T-CELL, JCSG, MPP, PSI-BIOLOGY, RNA BINDING PROTEIN, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, PARTNERSHIP FOR T- KEYWDS 3 CELL BIOLOGY, TCELL, MITOCHONDRIAL PROTEIN PARTNERSHIP EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.SERRANO,M.GERALT,S.K.DUTTA,K.WUTHRICH,R.L.WROBEL,S.MAKINO, AUTHOR 2 T.M.MISENHIEMER,J.L.MARKLEY,B.G.FOX,JOINT CENTER FOR STRUCTURAL AUTHOR 3 GENOMICS (JCSG),PARTNERSHIP FOR T-CELL BIOLOGY (TCELL),MITOCHONDRIAL AUTHOR 4 PROTEIN PARTNERSHIP (MPP) REVDAT 2 14-JUN-23 2M2B 1 REMARK SEQADV REVDAT 1 16-JAN-13 2M2B 0 JRNL AUTH P.SERRANO,K.WUTHRICH JRNL TITL NMR STRUCTURE OF THE RRM2 DOMAIN OF THE PROTEIN RBM10 FROM JRNL TITL 2 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 2M2B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-DEC-12. REMARK 100 THE DEPOSITION ID IS D_1000103119. 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 : 0.6 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; REMARK 210 5D 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 : NULL 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 8 ARG A 110 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ALA A 2 -77.38 -143.71 REMARK 500 1 SER A 19 -174.71 62.02 REMARK 500 1 ASP A 24 99.71 -64.40 REMARK 500 1 ASN A 30 -4.27 73.28 REMARK 500 1 THR A 63 -166.61 -124.28 REMARK 500 1 LEU A 93 45.12 -82.29 REMARK 500 1 ALA A 105 57.43 -98.85 REMARK 500 1 LYS A 109 -164.11 -79.10 REMARK 500 1 ALA A 123 -73.37 -145.87 REMARK 500 1 SER A 127 19.80 -150.46 REMARK 500 2 ASN A 21 -1.15 64.86 REMARK 500 2 ASP A 24 116.55 -169.06 REMARK 500 2 ASN A 30 66.13 62.68 REMARK 500 2 THR A 63 -164.21 -114.64 REMARK 500 2 LEU A 74 -154.54 -132.39 REMARK 500 2 THR A 76 -73.00 -55.48 REMARK 500 2 THR A 94 82.37 -152.68 REMARK 500 2 ASP A 111 100.04 -167.68 REMARK 500 2 MET A 112 -178.31 -177.36 REMARK 500 2 ASN A 115 49.18 -144.01 REMARK 500 2 SER A 118 95.99 -61.76 REMARK 500 2 ARG A 119 116.95 -168.24 REMARK 500 2 ALA A 123 -85.97 -131.79 REMARK 500 2 SER A 127 26.66 -147.83 REMARK 500 3 LEU A 11 -163.57 -119.41 REMARK 500 3 SER A 18 -69.46 63.08 REMARK 500 3 ASN A 21 -80.30 -130.98 REMARK 500 3 ALA A 22 55.86 -157.75 REMARK 500 3 ASN A 30 70.74 47.58 REMARK 500 3 LEU A 74 -154.57 -139.43 REMARK 500 3 ALA A 80 2.55 -69.40 REMARK 500 3 ASP A 96 17.46 55.21 REMARK 500 3 GLU A 116 151.72 75.09 REMARK 500 3 ALA A 123 -78.54 -65.92 REMARK 500 3 SER A 127 16.04 -159.07 REMARK 500 4 ALA A 2 167.73 176.09 REMARK 500 4 LEU A 6 24.32 -154.21 REMARK 500 4 SER A 12 48.34 -143.45 REMARK 500 4 SER A 18 35.39 -92.31 REMARK 500 4 SER A 19 -6.95 61.04 REMARK 500 4 ASN A 30 60.44 61.33 REMARK 500 4 ALA A 105 32.07 -75.11 REMARK 500 4 ASN A 115 -48.89 -143.64 REMARK 500 4 GLU A 116 -167.27 44.92 REMARK 500 4 ALA A 123 -81.97 -139.72 REMARK 500 4 SER A 127 40.18 -145.43 REMARK 500 5 SER A 18 90.25 -161.38 REMARK 500 5 SER A 19 53.72 -152.95 REMARK 500 5 ASN A 21 90.97 72.51 REMARK 500 5 GLN A 81 -33.68 -132.34 REMARK 500 REMARK 500 THIS ENTRY HAS 235 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 ILE A 130 ALA A 131 3 -143.96 REMARK 500 SER A 18 SER A 19 7 -145.55 REMARK 500 ILE A 130 ALA A 131 13 -118.04 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 7 ARG A 67 0.10 SIDE CHAIN REMARK 500 8 ARG A 119 0.08 SIDE CHAIN REMARK 500 14 TYR A 47 0.08 SIDE CHAIN REMARK 500 16 ARG A 110 0.08 SIDE CHAIN REMARK 500 17 ARG A 29 0.10 SIDE CHAIN REMARK 500 17 ARG A 67 0.12 SIDE CHAIN REMARK 500 18 ARG A 119 0.08 SIDE CHAIN REMARK 500 19 ARG A 29 0.12 SIDE CHAIN REMARK 500 19 ARG A 67 0.11 SIDE CHAIN REMARK 500 20 ARG A 119 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18905 RELATED DB: BMRB REMARK 900 RELATED ID: JCSG-421710 RELATED DB: TARGETTRACK DBREF 2M2B A 1 131 UNP P98175 RBM10_HUMAN 277 408 SEQADV 2M2B A UNP P98175 VAL 354 DELETION SEQRES 1 A 131 GLN ALA GLN GLY VAL LEU ALA SER GLN ALA LEU SER GLN SEQRES 2 A 131 GLY SER GLU PRO SER SER GLU ASN ALA ASN ASP THR ILE SEQRES 3 A 131 ILE LEU ARG ASN LEU ASN PRO HIS SER THR MET ASP SER SEQRES 4 A 131 ILE LEU GLY ALA LEU ALA PRO TYR ALA VAL LEU SER SER SEQRES 5 A 131 SER ASN VAL ARG VAL ILE LYS ASP LYS GLN THR GLN LEU SEQRES 6 A 131 ASN ARG GLY PHE ALA PHE ILE GLN LEU SER THR ILE GLU SEQRES 7 A 131 ALA ALA GLN LEU LEU GLN ILE LEU GLN ALA LEU HIS PRO SEQRES 8 A 131 PRO LEU THR ILE ASP GLY LYS THR ILE ASN VAL GLU PHE SEQRES 9 A 131 ALA LYS GLY SER LYS ARG ASP MET ALA SER ASN GLU GLY SEQRES 10 A 131 SER ARG ILE SER ALA ALA SER VAL ALA SER THR ALA ILE SEQRES 11 A 131 ALA HELIX 1 1 MET A 37 ALA A 45 1 9 HELIX 2 2 PRO A 46 ALA A 48 5 3 HELIX 3 3 SER A 75 GLN A 87 1 13 HELIX 4 4 THR A 94 LYS A 98 5 5 SHEET 1 A 4 VAL A 55 ARG A 56 0 SHEET 2 A 4 ALA A 70 GLN A 73 -1 O PHE A 71 N ARG A 56 SHEET 3 A 4 THR A 25 LEU A 28 -1 N LEU A 28 O ALA A 70 SHEET 4 A 4 GLU A 103 PHE A 104 -1 O GLU A 103 N ILE A 27 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