PDB Short entry for 2K2O HEADER MEMBRANE PROTEIN 07-APR-08 2K2O TITLE SOLUTION STRUCTURE OF THE INNER DYSF DOMAIN OF HUMAN MYOFERLIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MYOFERLIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: INNER DYSF DOMAIN (UNP RESIDUES 923-1040); COMPND 5 SYNONYM: FER-1-LIKE PROTEIN 3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 GENE: FER1L3, KIAA1207, MYOF; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-151D TOPO KEYWDS MYOFERLIN, MUSCULAR DYSTROPHY, DYSF, DYSFERLIN, LIMB-GIRDLE, KEYWDS 2 ALTERNATIVE SPLICING, MEMBRANE, NUCLEUS, PHOSPHOPROTEIN, KEYWDS 3 POLYMORPHISM, TRANSMEMBRANE, MEMBRANE PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.PATEL,R.HARRIS,N.KEEP,P.DRISCOLL REVDAT 3 19-FEB-20 2K2O 1 REMARK SEQADV REVDAT 2 24-FEB-09 2K2O 1 VERSN REVDAT 1 10-JUN-08 2K2O 0 JRNL AUTH P.PATEL,R.HARRIS,S.M.GEDDES,E.M.STREHLE,J.D.WATSON,R.BASHIR, JRNL AUTH 2 K.BUSHBY,P.C.DRISCOLL,N.H.KEEP JRNL TITL SOLUTION STRUCTURE OF THE INNER DYSF DOMAIN OF MYOFERLIN AND JRNL TITL 2 IMPLICATIONS FOR LIMB GIRDLE MUSCULAR DYSTROPHY TYPE 2B. JRNL REF J.MOL.BIOL. V. 379 981 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18495154 JRNL DOI 10.1016/J.JMB.2008.04.046 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CCPN_ANALYSIS, CNSSOLVE 1.2 REMARK 3 AUTHORS : CCPN (CCPN_ANALYSIS), BRUNGER, ADAMS, CLORE, GROS, REMARK 3 NILGES AND READ (CNSSOLVE) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT IN WATER REMARK 4 REMARK 4 2K2O COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000100599. 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 : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.3 MM [U-100% 15N] DYSF, 20 MM REMARK 210 MES, 100 MM SODIUM CHLORIDE, 90% REMARK 210 H2O/10% D2O; 1.3 MM [U-100% 13C; REMARK 210 U-100% 15N] DYSF, 20 MM MES, 100 REMARK 210 MM SODIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O; 1.3 MM [U-100% 13C; U-100% REMARK 210 15N] DYSF, 20 MM MES, 100 MM REMARK 210 SODIUM CHLORIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HNCO; 3D HN(CA)CO; 3D REMARK 210 HA(CA)NH; 3D HA(CACO)NH; 2D 1H- REMARK 210 13C HSQC; ARO-HSQC; ARO-TOCSY- REMARK 210 HSQC; ARO-NOESY-HSQC; 3D HCCH- REMARK 210 TOCSY; 3D 1H-13C NOESY; IPAP REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS; INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPN_ANALYSIS, TALOS, REMARK 210 PROCHECKNMR, CNSSOLVE 1.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HB3 ASN A 937 HB3 ARG A 1020 1.25 REMARK 500 OD2 ASP A 1002 HZ1 LYS A 1006 1.58 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 925 -60.62 -146.69 REMARK 500 1 HIS A 927 -46.13 -179.19 REMARK 500 1 THR A 928 89.41 62.76 REMARK 500 1 PRO A 942 94.42 -56.89 REMARK 500 1 ALA A 949 174.06 -58.90 REMARK 500 1 ALA A 979 178.05 55.49 REMARK 500 1 SER A 981 -165.05 -110.20 REMARK 500 1 ASN A 985 30.04 -99.12 REMARK 500 1 ASP A1002 155.64 163.33 REMARK 500 1 HIS A1016 108.03 -54.67 REMARK 500 1 LEU A1031 -47.32 66.38 REMARK 500 2 PRO A 920 102.74 -40.73 REMARK 500 2 ALA A 925 -75.66 -109.27 REMARK 500 2 THR A 928 87.89 64.19 REMARK 500 2 PRO A 942 89.22 -68.50 REMARK 500 2 ALA A 949 -162.31 -74.32 REMARK 500 2 ASP A 959 99.15 -59.41 REMARK 500 2 ASP A1002 151.19 165.16 REMARK 500 2 HIS A1016 106.14 -48.94 REMARK 500 2 ASP A1030 16.10 49.27 REMARK 500 2 LEU A1031 -37.58 55.74 REMARK 500 3 PHE A 921 -169.54 -108.79 REMARK 500 3 PRO A 942 97.76 -61.64 REMARK 500 3 ALA A 949 -178.17 -64.64 REMARK 500 3 GLU A 976 -33.78 -131.10 REMARK 500 3 ASP A 989 173.01 -55.22 REMARK 500 3 THR A1017 -35.77 -158.00 REMARK 500 3 ASP A1030 -33.53 65.60 REMARK 500 3 LEU A1031 9.92 87.55 REMARK 500 4 ALA A 925 -70.82 68.76 REMARK 500 4 PRO A 942 84.61 -62.68 REMARK 500 4 GLU A 950 -62.19 78.37 REMARK 500 4 ASP A 959 104.73 -57.55 REMARK 500 4 GLU A 976 -36.61 -137.86 REMARK 500 4 TRP A 993 109.53 -58.78 REMARK 500 4 ASP A1002 170.37 158.69 REMARK 500 4 HIS A1003 33.97 -149.81 REMARK 500 4 GLU A1012 104.40 -163.13 REMARK 500 4 HIS A1016 100.01 -53.53 REMARK 500 4 ASP A1030 -20.47 72.23 REMARK 500 4 LEU A1031 -12.86 78.17 REMARK 500 5 ASP A 919 131.74 69.63 REMARK 500 5 HIS A 927 -152.31 -105.86 REMARK 500 5 THR A 928 115.54 -166.18 REMARK 500 5 PRO A 942 91.44 -64.04 REMARK 500 5 ALA A 949 -170.88 -66.86 REMARK 500 5 SER A 963 156.53 138.48 REMARK 500 5 ASN A 985 39.68 -94.46 REMARK 500 5 ASP A1002 -93.98 -168.77 REMARK 500 5 HIS A1003 -75.64 167.83 REMARK 500 REMARK 500 THIS ENTRY HAS 242 RAMACHANDRAN OUTLIERS. 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 A1027 0.09 SIDE CHAIN REMARK 500 2 ARG A1022 0.10 SIDE CHAIN REMARK 500 2 ARG A1027 0.08 SIDE CHAIN REMARK 500 5 ARG A1027 0.10 SIDE CHAIN REMARK 500 6 ARG A1027 0.10 SIDE CHAIN REMARK 500 8 ARG A1027 0.10 SIDE CHAIN REMARK 500 10 ARG A 986 0.11 SIDE CHAIN REMARK 500 10 ARG A1022 0.09 SIDE CHAIN REMARK 500 11 ARG A1021 0.08 SIDE CHAIN REMARK 500 12 ARG A1027 0.08 SIDE CHAIN REMARK 500 14 ARG A1022 0.08 SIDE CHAIN REMARK 500 15 ARG A1022 0.09 SIDE CHAIN REMARK 500 16 ARG A 986 0.09 SIDE CHAIN REMARK 500 17 ARG A1027 0.08 SIDE CHAIN REMARK 500 19 ARG A 986 0.07 SIDE CHAIN REMARK 500 20 ARG A1022 0.11 SIDE CHAIN REMARK 500 20 ARG A1027 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15718 RELATED DB: BMRB DBREF 2K2O A 923 1040 UNP Q9NZM1 MYOF_HUMAN 923 1040 SEQADV 2K2O ILE A 918 UNP Q9NZM1 EXPRESSION TAG SEQADV 2K2O ASP A 919 UNP Q9NZM1 EXPRESSION TAG SEQADV 2K2O PRO A 920 UNP Q9NZM1 EXPRESSION TAG SEQADV 2K2O PHE A 921 UNP Q9NZM1 EXPRESSION TAG SEQADV 2K2O THR A 922 UNP Q9NZM1 EXPRESSION TAG SEQRES 1 A 123 ILE ASP PRO PHE THR ALA ASP ALA GLY HIS THR GLU PHE SEQRES 2 A 123 THR ASP GLU VAL TYR GLN ASN GLU SER ARG TYR PRO GLY SEQRES 3 A 123 GLY ASP TRP LYS PRO ALA GLU ASP THR TYR THR ASP ALA SEQRES 4 A 123 ASN GLY ASP LYS ALA ALA SER PRO SER GLU LEU THR CYS SEQRES 5 A 123 PRO PRO GLY TRP GLU TRP GLU ASP ASP ALA TRP SER TYR SEQRES 6 A 123 ASP ILE ASN ARG ALA VAL ASP GLU LYS GLY TRP GLU TYR SEQRES 7 A 123 GLY ILE THR ILE PRO PRO ASP HIS LYS PRO LYS SER TRP SEQRES 8 A 123 VAL ALA ALA GLU LYS MET TYR HIS THR HIS ARG ARG ARG SEQRES 9 A 123 ARG LEU VAL ARG LYS ARG LYS LYS ASP LEU THR GLN THR SEQRES 10 A 123 ALA SER SER THR ALA ARG SHEET 1 A 4 LYS A 947 THR A 954 0 SHEET 2 A 4 GLU A 929 SER A 939 -1 N TYR A 935 O THR A 954 SHEET 3 A 4 HIS A1018 LYS A1028 -1 O LEU A1023 N VAL A 934 SHEET 4 A 4 SER A 981 TYR A 982 -1 N SER A 981 O VAL A1024 SHEET 1 B 3 GLU A 974 TRP A 975 0 SHEET 2 B 3 HIS A1018 LYS A1028 -1 O LYS A1028 N GLU A 974 SHEET 3 B 3 GLU A 994 GLY A 996 -1 N GLY A 996 O HIS A1018 CISPEP 1 PRO A 1000 PRO A 1001 1 -0.30 CISPEP 2 PRO A 1000 PRO A 1001 2 -1.53 CISPEP 3 PRO A 1000 PRO A 1001 3 -1.36 CISPEP 4 PRO A 1000 PRO A 1001 4 -2.27 CISPEP 5 PRO A 1000 PRO A 1001 5 -3.29 CISPEP 6 PRO A 1000 PRO A 1001 6 -2.77 CISPEP 7 PRO A 1000 PRO A 1001 7 0.24 CISPEP 8 PRO A 1000 PRO A 1001 8 -1.24 CISPEP 9 PRO A 1000 PRO A 1001 9 -2.23 CISPEP 10 PRO A 1000 PRO A 1001 10 -0.89 CISPEP 11 PRO A 1000 PRO A 1001 11 -3.01 CISPEP 12 PRO A 1000 PRO A 1001 12 -2.56 CISPEP 13 PRO A 1000 PRO A 1001 13 -0.40 CISPEP 14 PRO A 1000 PRO A 1001 14 1.42 CISPEP 15 PRO A 1000 PRO A 1001 15 0.12 CISPEP 16 PRO A 1000 PRO A 1001 16 -1.81 CISPEP 17 PRO A 1000 PRO A 1001 17 -1.02 CISPEP 18 PRO A 1000 PRO A 1001 18 -2.18 CISPEP 19 PRO A 1000 PRO A 1001 19 -3.83 CISPEP 20 PRO A 1000 PRO A 1001 20 -1.43 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