HEADER LIGASE 08-FEB-06 2FYH TITLE SOLUTION STRUCTURE OF THE 2'-5' RNA LIGASE-LIKE PROTEIN FROM TITLE 2 PYROCOCCUS FURIOSUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE INTEGRAL MEMBRANE TRANSPORT PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 2'-5' RNA LIGASE-LIKE PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 186497; SOURCE 4 STRAIN: DSM3638; SOURCE 5 GENE: PF0027; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET23B KEYWDS 2'-5' RNA LIGASE-LIKE PROTEIN, HXTX MOTIF, PYROCOCCUS FURIOSUS, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.OKADA,T.MATSUDA,T.SAKAMOTO,Y.MUTO,S.YOKOYAMA,A.KANAI,G.KAWAI,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 24-NOV-10 2FYH 1 JRNL DBREF SEQADV REVDAT 2 24-FEB-09 2FYH 1 VERSN REVDAT 1 20-FEB-07 2FYH 0 JRNL AUTH A.KANAI,A.SATO,Y.FUKUDA,K.OKADA,T.MATSUDA,T.SAKAMOTO,Y.MUTO, JRNL AUTH 2 S.YOKOYAMA,G.KAWAI,M.TOMITA JRNL TITL CHARACTERIZATION OF A HEAT-STABLE ENZYME POSSESSING JRNL TITL 2 GTP-DEPENDENT RNA LIGASE ACTIVITY FROM A HYPERTHERMOPHILIC JRNL TITL 3 ARCHAEON, PYROCOCCUS FURIOSUS JRNL REF RNA V. 15 420 2009 JRNL REFN ISSN 1355-8382 JRNL PMID 19155324 JRNL DOI 10.1261/RNA.1122109 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: A TOTAL OF 3615 NOE AND 220 DIHEDRAL REMARK 3 ANGLE AND 10 HYDROGEN BOND RESTRAINTS WERE OBTAINED FROM THE NMR REMARK 3 DATA. REMARK 4 REMARK 4 2FYH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-FEB-06. REMARK 100 THE RCSB ID CODE IS RCSB036461. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313 REMARK 210 PH : 4.7 REMARK 210 IONIC STRENGTH : 200MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM 13C/15N-PROTEIN; 1MM HCL; REMARK 210 200MM NACL; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE 200031121, REMARK 210 NMRVIEW 5.0.4, KUJIRA 0.9295, REMARK 210 CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. 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: 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 PHE A 4 128.56 -175.03 REMARK 500 1 SER A 10 153.97 -39.01 REMARK 500 1 SER A 26 43.49 -109.90 REMARK 500 1 ASN A 96 94.99 -32.30 REMARK 500 1 MET A 142 -37.10 -36.91 REMARK 500 1 GLU A 158 -68.46 -100.11 REMARK 500 2 PHE A 4 132.32 -171.93 REMARK 500 2 SER A 10 160.00 -39.46 REMARK 500 2 GLU A 35 165.95 -45.44 REMARK 500 2 LEU A 46 -66.04 -100.55 REMARK 500 2 ASN A 96 95.69 -32.02 REMARK 500 2 ILE A 99 -70.44 -43.82 REMARK 500 2 ALA A 112 -38.18 -37.77 REMARK 500 2 GLU A 150 112.86 -37.50 REMARK 500 2 GLU A 158 -69.83 -93.18 REMARK 500 2 HIS A 185 47.39 -83.41 REMARK 500 3 SER A 10 154.72 -37.78 REMARK 500 3 GLU A 35 160.41 -40.16 REMARK 500 3 LEU A 46 -60.97 -103.19 REMARK 500 3 ASN A 96 94.12 -29.14 REMARK 500 3 ASP A 97 48.86 -104.02 REMARK 500 3 ILE A 100 -19.51 -48.85 REMARK 500 3 GLU A 158 -70.51 -96.86 REMARK 500 3 SER A 183 139.44 -36.31 REMARK 500 3 GLU A 184 -48.22 -134.09 REMARK 500 3 HIS A 185 112.98 -39.46 REMARK 500 3 HIS A 187 109.16 -36.29 REMARK 500 4 SER A 10 151.21 -36.05 REMARK 500 4 PHE A 33 179.10 -56.27 REMARK 500 4 GLU A 35 163.63 -44.65 REMARK 500 4 GLU A 51 -36.78 -39.91 REMARK 500 4 GLU A 62 -37.46 -39.72 REMARK 500 4 ASN A 96 105.29 -25.79 REMARK 500 4 ASP A 97 52.83 -117.33 REMARK 500 4 ILE A 100 -33.81 -38.07 REMARK 500 4 MET A 142 -30.67 -38.21 REMARK 500 4 GLU A 150 107.04 -37.18 REMARK 500 4 GLU A 158 -68.81 -99.08 REMARK 500 4 HIS A 185 42.99 -105.15 REMARK 500 5 SER A 10 157.29 -38.06 REMARK 500 5 SER A 12 -34.84 -34.56 REMARK 500 5 PHE A 33 172.30 -58.48 REMARK 500 5 GLU A 35 176.89 -50.74 REMARK 500 5 LYS A 44 114.45 -162.40 REMARK 500 5 LEU A 46 -61.20 -102.03 REMARK 500 5 ILE A 64 -71.44 -66.22 REMARK 500 5 ASN A 96 115.58 -26.12 REMARK 500 5 PHE A 133 115.99 -163.94 REMARK 500 5 LEU A 147 33.74 -98.01 REMARK 500 5 GLU A 150 123.43 -38.14 REMARK 500 REMARK 500 THIS ENTRY HAS 234 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 10004 RELATED DB: BMRB REMARK 900 1H, 13C AND 15N RESONANCE ASSIGNMENTS OF THE 2'-5' RNA REMARK 900 LIGASE-LIKE PROTEIN REMARK 900 RELATED ID: AR_001000706.1 RELATED DB: TARGETDB DBREF 2FYH A 1 184 UNP Q8U4Q3 Q8U4Q3_PYRFU 1 184 SEQADV 2FYH HIS A 185 UNP Q8U4Q3 EXPRESSION TAG SEQADV 2FYH HIS A 186 UNP Q8U4Q3 EXPRESSION TAG SEQADV 2FYH HIS A 187 UNP Q8U4Q3 EXPRESSION TAG SEQADV 2FYH HIS A 188 UNP Q8U4Q3 EXPRESSION TAG SEQADV 2FYH HIS A 189 UNP Q8U4Q3 EXPRESSION TAG SEQADV 2FYH HIS A 190 UNP Q8U4Q3 EXPRESSION TAG SEQRES 1 A 190 MET ARG ALA PHE ILE ALA ILE ASP VAL SER GLU SER VAL SEQRES 2 A 190 ARG ASP ALA LEU VAL ARG ALA GLN ASP TYR ILE GLY SER SEQRES 3 A 190 LYS GLU ALA LYS ILE LYS PHE VAL GLU ARG GLU ASN PHE SEQRES 4 A 190 HIS ILE THR LEU LYS PHE LEU GLY GLU ILE THR GLU GLU SEQRES 5 A 190 GLN ALA GLU GLU ILE LYS LYS ILE LEU GLU LYS ILE ALA SEQRES 6 A 190 LYS LYS TYR LYS LYS HIS GLU VAL ASN VAL ARG GLY ILE SEQRES 7 A 190 GLY VAL PHE PRO ASN PRO ASN TYR VAL ARG VAL ILE TRP SEQRES 8 A 190 ALA GLY VAL GLU ASN ASP GLU ILE ILE LYS LYS ILE ALA SEQRES 9 A 190 LYS GLU ILE ASP ASP GLU LEU ALA LYS LEU GLY PHE LYS SEQRES 10 A 190 LYS GLU GLY ASN PHE VAL ALA HIS ILE THR LEU GLY ARG SEQRES 11 A 190 VAL LYS PHE VAL LYS ASP LYS LEU GLY LEU ALA MET LYS SEQRES 12 A 190 LEU LYS GLU LEU ALA ASN GLU ASP PHE GLY SER PHE ILE SEQRES 13 A 190 VAL GLU ALA ILE GLU LEU LYS LYS SER THR LEU THR PRO SEQRES 14 A 190 LYS GLY PRO ILE TYR GLU THR LEU ALA ARG PHE GLU LEU SEQRES 15 A 190 SER GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 SER A 10 GLY A 25 1 16 HELIX 2 2 GLU A 35 PHE A 39 5 5 HELIX 3 3 GLU A 52 TYR A 68 1 17 HELIX 4 4 ASP A 97 GLY A 115 1 19 HELIX 5 5 ASP A 136 LEU A 147 1 12 SHEET 1 A 4 ILE A 41 GLY A 47 0 SHEET 2 A 4 ARG A 2 ILE A 7 -1 N ALA A 3 O GLY A 47 SHEET 3 A 4 ILE A 160 THR A 168 -1 O GLU A 161 N ALA A 6 SHEET 4 A 4 GLY A 171 PHE A 180 -1 O ALA A 178 N LEU A 162 SHEET 1 B 5 ILE A 31 PHE A 33 0 SHEET 2 B 5 HIS A 125 VAL A 131 -1 O ARG A 130 N LYS A 32 SHEET 3 B 5 TYR A 86 VAL A 94 -1 N ILE A 90 O GLY A 129 SHEET 4 B 5 GLU A 72 ASN A 83 -1 N GLY A 77 O GLY A 93 SHEET 5 B 5 ASP A 151 ILE A 156 -1 O GLY A 153 N VAL A 75 CISPEP 1 PHE A 81 PRO A 82 1 -0.25 CISPEP 2 PHE A 81 PRO A 82 2 -0.06 CISPEP 3 PHE A 81 PRO A 82 3 0.07 CISPEP 4 PHE A 81 PRO A 82 4 0.06 CISPEP 5 PHE A 81 PRO A 82 5 0.13 CISPEP 6 PHE A 81 PRO A 82 6 0.07 CISPEP 7 PHE A 81 PRO A 82 7 -0.11 CISPEP 8 PHE A 81 PRO A 82 8 0.04 CISPEP 9 PHE A 81 PRO A 82 9 0.17 CISPEP 10 PHE A 81 PRO A 82 10 0.10 CISPEP 11 PHE A 81 PRO A 82 11 0.21 CISPEP 12 PHE A 81 PRO A 82 12 0.03 CISPEP 13 PHE A 81 PRO A 82 13 -0.32 CISPEP 14 PHE A 81 PRO A 82 14 0.03 CISPEP 15 PHE A 81 PRO A 82 15 0.10 CISPEP 16 PHE A 81 PRO A 82 16 0.14 CISPEP 17 PHE A 81 PRO A 82 17 0.23 CISPEP 18 PHE A 81 PRO A 82 18 -0.14 CISPEP 19 PHE A 81 PRO A 82 19 -0.17 CISPEP 20 PHE A 81 PRO A 82 20 -0.11 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