PDB Short entry for 2LXI HEADER RNA BINDING PROTEIN 27-AUG-12 2LXI TITLE NMR STRUCTURE OF THE N-TERMINAL RNA BINDING DOMAIN 1 (RRM1) OF THE TITLE 2 PROTEIN RBM10 FROM HOMO SAPIENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-BINDING PROTEIN 10; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RRM 1 DOMAIN RESIDUES 128-218; 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: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PSPEEDET KEYWDS RNA BINDING, RNA BINDING PROTEIN, STRUCTURAL GENOMICS, PSI-BIOLOGY, KEYWDS 2 JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PARTNERSHIP FOR T-CELL KEYWDS 3 BIOLOGY, TCELL EXPDTA SOLUTION NMR NUMMDL 19 AUTHOR P.SERRANO,M.GERALT,S.K.DUTTA,K.WUTHRICH,JOINT CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (JCSG),PARTNERSHIP FOR T-CELL BIOLOGY (TCELL) REVDAT 3 14-JUN-23 2LXI 1 REMARK REVDAT 2 12-JUN-13 2LXI 1 AUTHOR REVDAT 1 10-OCT-12 2LXI 0 JRNL AUTH P.SERRANO,K.WUTHRICH JRNL TITL NMR STRUCTURE OF THE N-TERMINAL RNA BINDING DOMAIN 1 (RRM1) JRNL TITL 2 OF THE PROTEIN RBM10 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), LUGINB, H.L., WUTHRICH, K. REMARK 3 (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LXI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000102955. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 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, 50 MM SODIUM CHLORIDE, REMARK 210 20 MM SODIUM PHOSPHATE, 5 MM REMARK 210 SODIUM AZIDE, 95% 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; APSY REMARK 210 4D-HACANH; APSY 5D-CBCACONH; REMARK 210 APSY 5D-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 : 19 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 6 ARG A 59 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 7 VAL A 49 CA - CB - CG1 ANGL. DEV. = 10.4 DEGREES REMARK 500 9 ARG A 36 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 9 TYR A 79 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 12 MET A 35 CA - CB - CG ANGL. DEV. = 11.7 DEGREES REMARK 500 15 HIS A 25 CB - CG - CD2 ANGL. DEV. = -10.8 DEGREES REMARK 500 19 TYR A 79 CB - CG - CD2 ANGL. DEV. = -5.0 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 MET A 35 -154.51 43.87 REMARK 500 1 ARG A 36 -48.44 75.71 REMARK 500 1 LYS A 38 -66.50 47.05 REMARK 500 1 GLN A 42 4.00 -65.47 REMARK 500 1 SER A 43 72.13 -110.21 REMARK 500 1 ASP A 89 11.61 -144.56 REMARK 500 2 ASN A 2 13.36 -143.00 REMARK 500 2 VAL A 4 72.21 -118.18 REMARK 500 2 ALA A 29 173.26 50.50 REMARK 500 2 MET A 35 87.54 -54.32 REMARK 500 2 ARG A 36 -74.28 -140.53 REMARK 500 2 ASN A 37 94.37 -64.24 REMARK 500 2 ARG A 44 0.21 -153.53 REMARK 500 2 MET A 61 -70.45 -52.57 REMARK 500 2 LEU A 71 -15.55 64.95 REMARK 500 2 LYS A 83 164.95 58.10 REMARK 500 2 GLU A 88 71.17 44.80 REMARK 500 3 ASN A 2 -2.51 76.34 REMARK 500 3 MET A 8 62.56 67.48 REMARK 500 3 ALA A 29 86.80 43.55 REMARK 500 3 LEU A 34 -152.82 -140.53 REMARK 500 3 MET A 35 -153.39 69.49 REMARK 500 3 ASN A 37 -50.68 -153.24 REMARK 500 3 LYS A 38 -24.16 64.08 REMARK 500 3 SER A 39 -74.96 -76.53 REMARK 500 3 GLN A 42 4.33 -62.98 REMARK 500 3 ARG A 44 14.98 -142.72 REMARK 500 3 SER A 80 53.34 -144.18 REMARK 500 4 VAL A 32 137.78 -170.12 REMARK 500 4 ASN A 37 106.02 -160.45 REMARK 500 4 LYS A 38 1.60 -67.37 REMARK 500 4 SER A 40 -40.36 -131.13 REMARK 500 4 SER A 43 -152.81 67.05 REMARK 500 4 ARG A 44 -3.14 75.37 REMARK 500 4 SER A 80 -159.19 -146.90 REMARK 500 4 LYS A 83 155.15 54.32 REMARK 500 5 ALA A 29 92.21 45.22 REMARK 500 5 MET A 35 77.17 -46.18 REMARK 500 5 ARG A 36 -67.04 -131.18 REMARK 500 5 GLN A 42 14.45 -69.58 REMARK 500 5 ARG A 44 13.34 -151.53 REMARK 500 5 LYS A 83 163.35 60.99 REMARK 500 6 ARG A 36 -56.79 173.87 REMARK 500 6 LYS A 38 -66.82 44.39 REMARK 500 6 GLN A 42 14.28 -64.69 REMARK 500 6 LEU A 71 17.18 56.18 REMARK 500 6 ASP A 81 154.73 -49.87 REMARK 500 6 LYS A 83 165.79 55.77 REMARK 500 6 ASN A 87 -162.02 -56.49 REMARK 500 7 MET A 35 16.96 -55.25 REMARK 500 REMARK 500 THIS ENTRY HAS 154 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 ASN A 37 LYS A 38 1 -144.83 REMARK 500 GLN A 28 ALA A 29 2 -142.80 REMARK 500 VAL A 27 GLN A 28 5 -149.13 REMARK 500 GLN A 28 ALA A 29 8 -146.03 REMARK 500 GLN A 28 ALA A 29 9 -143.21 REMARK 500 GLN A 28 ALA A 29 12 149.71 REMARK 500 ALA A 47 PHE A 48 15 145.19 REMARK 500 GLN A 28 ALA A 29 17 -148.31 REMARK 500 ASN A 37 LYS A 38 17 -141.09 REMARK 500 ASP A 81 PRO A 82 19 -149.17 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 ARG A 30 0.09 SIDE CHAIN REMARK 500 3 ARG A 36 0.08 SIDE CHAIN REMARK 500 6 ARG A 30 0.13 SIDE CHAIN REMARK 500 7 ARG A 30 0.10 SIDE CHAIN REMARK 500 9 ARG A 19 0.14 SIDE CHAIN REMARK 500 9 TYR A 79 0.10 SIDE CHAIN REMARK 500 10 ARG A 30 0.08 SIDE CHAIN REMARK 500 15 TYR A 79 0.12 SIDE CHAIN REMARK 500 16 ARG A 44 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18678 RELATED DB: BMRB REMARK 900 RELATED ID: JCSG-421711 RELATED DB: TARGETTRACK DBREF 2LXI A 1 91 UNP P98175 RBM10_HUMAN 128 218 SEQRES 1 A 91 SER ASN ILE VAL MET LEU ARG MET LEU PRO GLN ALA ALA SEQRES 2 A 91 THR GLU ASP ASP ILE ARG GLY GLN LEU GLN SER HIS GLY SEQRES 3 A 91 VAL GLN ALA ARG GLU VAL ARG LEU MET ARG ASN LYS SER SEQRES 4 A 91 SER GLY GLN SER ARG GLY PHE ALA PHE VAL GLU PHE SER SEQRES 5 A 91 HIS LEU GLN ASP ALA THR ARG TRP MET GLU ALA ASN GLN SEQRES 6 A 91 HIS SER LEU ASN ILE LEU GLY GLN LYS VAL SER MET HIS SEQRES 7 A 91 TYR SER ASP PRO LYS PRO LYS ILE ASN GLU ASP TRP LEU HELIX 1 1 THR A 14 GLY A 26 1 13 HELIX 2 2 HIS A 53 ALA A 63 1 11 SHEET 1 A 4 PHE A 46 GLU A 50 0 SHEET 2 A 4 ILE A 3 ARG A 7 -1 N VAL A 4 O VAL A 49 SHEET 3 A 4 GLN A 73 HIS A 78 -1 O HIS A 78 N MET A 5 SHEET 4 A 4 SER A 67 ILE A 70 -1 N LEU A 68 O VAL A 75 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