HEADER TRANSLATION 28-MAR-12 2RSM TITLE SOLUTION STRUCTURE AND SIRNA-MEDIATED KNOCKDOWN ANALYSIS OF THE TITLE 2 MITOCHONDRIAL DISEASE-RELATED PROTEIN C12ORF65 (ICT2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE PEPTIDE CHAIN RELEASE FACTOR C12ORF65 HOMOLOG, COMPND 3 MITOCHONDRIAL; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: GGQ DOMAIN, UNP RESIDUES 21-124; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: P070213-30; SOURCE 8 OTHER_DETAILS: ESCHERICHIA COLI KEYWDS GGQ DOMAIN, RELEASE FACTOR, TRANSLATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.ENOMOTO,N.TOCHIO,T.TOMIZAWA,S.KOSHIBA,P.GUNTERT,T.KIGAWA, AUTHOR 2 S.YOKOYAMA,N.NAMEKI REVDAT 2 14-JUN-23 2RSM 1 REMARK SEQADV REVDAT 1 08-AUG-12 2RSM 0 JRNL AUTH H.KOGURE,Y.HIKAWA,M.HAGIHARA,N.TOCHIO,S.KOSHIBA,Y.INOUE, JRNL AUTH 2 P.GUNTERT,T.KIGAWA,S.YOKOYAMA,N.NAMEKI JRNL TITL SOLUTION STRUCTURE AND SIRNA-MEDIATED KNOCKDOWN ANALYSIS OF JRNL TITL 2 THE MITOCHONDRIAL DISEASE-RELATED PROTEIN C12ORF65. JRNL REF PROTEINS 2012 JRNL REFN ESSN 1097-0134 JRNL PMID 22821833 JRNL DOI 10.1002/PROT.24152 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, OPAL REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), LUGINBUHL, GUNTERT, REMARK 3 BILLETER AND WUTHRICH (OPAL) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RSM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-APR-12. REMARK 100 THE DEPOSITION ID IS D_1000150234. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.96 MM [U-13C; U-15N] ENTITY-1, REMARK 210 20 MM [U-2H] TRIS-2, 100 MM REMARK 210 SODIUM CHLORIDE-3, 1 MM [U-2H] REMARK 210 DTT-4, 0.02 % SODIUM AZIDE-5, 10 REMARK 210 % [U-2H] D2O-6, 90 % H2O-7, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW, KUJIRA, CYANA REMARK 210 2.0 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 : 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 1 ARG A 34 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 15 LEU A 43 CB - CA - C ANGL. DEV. = 11.8 DEGREES REMARK 500 19 LEU A 43 CB - CA - C ANGL. DEV. = 14.8 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 LYS A 35 4.28 -151.87 REMARK 500 1 LEU A 40 56.17 27.14 REMARK 500 1 ALA A 62 -81.82 65.91 REMARK 500 1 THR A 63 80.33 41.99 REMARK 500 1 ASN A 68 30.06 -78.95 REMARK 500 1 PRO A 112 -177.94 -69.98 REMARK 500 1 SER A 114 74.16 58.22 REMARK 500 2 ALA A 25 83.99 -153.67 REMARK 500 2 LEU A 41 152.20 -49.80 REMARK 500 2 GLN A 61 15.25 56.30 REMARK 500 2 ALA A 62 107.39 -51.82 REMARK 500 2 ASN A 64 84.07 -67.85 REMARK 500 2 THR A 66 46.86 -67.54 REMARK 500 2 GLN A 85 -70.47 -115.77 REMARK 500 3 SER A 3 -88.08 -84.72 REMARK 500 3 LYS A 35 42.34 -152.39 REMARK 500 3 ASP A 36 45.59 -149.19 REMARK 500 3 LEU A 40 102.75 -38.61 REMARK 500 3 ALA A 62 -176.22 -172.24 REMARK 500 3 LYS A 65 48.60 -143.57 REMARK 500 3 GLN A 85 -78.61 -162.41 REMARK 500 3 SER A 113 82.56 42.45 REMARK 500 4 SER A 6 -132.95 -129.59 REMARK 500 4 LEU A 11 -167.43 -74.84 REMARK 500 4 ALA A 25 71.64 -157.40 REMARK 500 4 LYS A 35 20.39 -150.06 REMARK 500 4 PRO A 38 99.07 -67.25 REMARK 500 4 LEU A 40 50.61 38.13 REMARK 500 4 ASN A 68 -5.27 65.95 REMARK 500 4 GLN A 85 -36.07 -146.79 REMARK 500 5 SER A 3 -84.12 -152.47 REMARK 500 5 THR A 28 -177.68 -69.05 REMARK 500 5 VAL A 29 -154.80 -94.72 REMARK 500 5 ARG A 34 -73.23 -136.33 REMARK 500 5 GLN A 61 -60.98 -128.17 REMARK 500 5 LYS A 65 23.27 49.76 REMARK 500 5 ASN A 68 2.94 83.45 REMARK 500 5 GLN A 85 -71.67 -144.69 REMARK 500 5 SER A 110 -137.11 -84.18 REMARK 500 5 SER A 113 -71.74 -112.04 REMARK 500 6 VAL A 31 170.66 -55.85 REMARK 500 6 LEU A 40 81.94 -64.67 REMARK 500 6 THR A 63 11.50 -57.63 REMARK 500 6 ASN A 64 96.40 -66.19 REMARK 500 6 CYS A 69 133.80 178.45 REMARK 500 6 GLN A 85 -47.54 -150.01 REMARK 500 6 SER A 114 -97.03 -77.62 REMARK 500 7 ALA A 25 56.49 -147.98 REMARK 500 7 LEU A 40 64.51 30.11 REMARK 500 7 SER A 114 59.82 -141.63 REMARK 500 REMARK 500 THIS ENTRY HAS 133 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 5 ARG A 93 0.12 SIDE CHAIN REMARK 500 9 TYR A 37 0.10 SIDE CHAIN REMARK 500 11 ARG A 97 0.10 SIDE CHAIN REMARK 500 13 ARG A 97 0.10 SIDE CHAIN REMARK 500 15 ARG A 87 0.08 SIDE CHAIN REMARK 500 15 ARG A 97 0.11 SIDE CHAIN REMARK 500 17 ARG A 34 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 11491 RELATED DB: BMRB DBREF 2RSM A 6 109 UNP Q80VP5 CL065_MOUSE 21 124 SEQADV 2RSM GLY A 1 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 2 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 3 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM GLY A 4 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 5 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 110 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM GLY A 111 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM PRO A 112 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 113 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM SER A 114 UNP Q80VP5 EXPRESSION TAG SEQADV 2RSM GLY A 115 UNP Q80VP5 EXPRESSION TAG SEQRES 1 A 115 GLY SER SER GLY SER SER GLY LYS TRP GLY LEU ARG LEU SEQRES 2 A 115 GLN GLU LYS PRO ALA LEU LEU PHE PRO GLY MET ALA ALA SEQRES 3 A 115 SER THR VAL GLN VAL ALA GLY ARG LYS ASP TYR PRO ALA SEQRES 4 A 115 LEU LEU PRO LEU ASN GLU SER GLU LEU GLU GLU GLN PHE SEQRES 5 A 115 VAL LYS GLY HIS GLY PRO GLY GLY GLN ALA THR ASN LYS SEQRES 6 A 115 THR SER ASN CYS VAL VAL LEU LYS HIS VAL PRO SER GLY SEQRES 7 A 115 ILE VAL VAL LYS CYS HIS GLN THR ARG SER VAL ASP GLN SEQRES 8 A 115 ASN ARG LYS ILE ALA ARG LYS VAL LEU GLN GLU LYS VAL SEQRES 9 A 115 ASP VAL PHE TYR ASN SER GLY PRO SER SER GLY HELIX 1 1 ASN A 44 LEU A 48 5 5 HELIX 2 2 SER A 88 SER A 110 1 23 SHEET 1 A 3 GLU A 49 PHE A 52 0 SHEET 2 A 3 VAL A 70 LYS A 73 -1 O VAL A 71 N GLN A 51 SHEET 3 A 3 VAL A 80 CYS A 83 -1 O VAL A 81 N LEU A 72 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