HEADER DNA BINDING PROTEIN 06-APR-06 2GMG TITLE SOLUTION NMR STRUCTURE OF PROTEIN PF0610 FROM PYROCOCCUS FURIOSUS, TITLE 2 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET PFG3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN PF0610; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 186497; SOURCE 4 STRAIN: DSM 3638; SOURCE 5 GENE: AE010183; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PET-24D KEYWDS WINGED-HELIX LIKE PROTEIN WITH METAL BINDING SITE, STRUCTURAL KEYWDS 2 GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL KEYWDS 3 GENOMICS CONSORTIUM, NESG, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR X.WANG,H.S.LEE,M.W.ADAMS,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AUTHOR 2 (NESG),G.T.MONTELIONE,J.H.PRESTEGARD REVDAT 4 13-JUL-11 2GMG 1 VERSN REVDAT 3 24-FEB-09 2GMG 1 VERSN REVDAT 2 09-OCT-07 2GMG 1 AUTHOR TITLE REVDAT 1 28-NOV-06 2GMG 0 JRNL AUTH X.WANG,H.S.LEE,F.J.SUGAR,F.E.JENNEY,M.W.ADAMS,J.H.PRESTEGARD JRNL TITL PF0610, A NOVEL WINGED HELIX-TURN-HELIX VARIANT POSSESSING A JRNL TITL 2 RUBREDOXIN-LIKE ZN RIBBON MOTIF FROM THE HYPERTHERMOPHILIC JRNL TITL 3 ARCHAEON, PYROCOCCUS FURIOSUS. JRNL REF BIOCHEMISTRY V. 46 752 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17223696 JRNL DOI 10.1021/BI061870H REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.14 REMARK 3 AUTHORS : SCHWIETERS, C.D. ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS REFINED WITH 923 NOE- REMARK 3 DERIVED DISTANCE RESTRAINTS, 109 BACK BONE DIHEDRAL ANGLE REMARK 3 RESTRAINTS AND 208 RESIDUAL DIPOLAR COUPLING CONSTANTS REMARK 4 REMARK 4 2GMG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-06. REMARK 100 THE RCSB ID CODE IS RCSB037294. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 0.15M REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5MM PF0610 U-15N, 13C, 20MM REMARK 210 TRIS, 150MM NACL, 95% H2O, 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N- REMARK 210 SEPARATED_NOESY; HNCACB; REMARK 210 CBCACONNH; HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.15 REMARK 210 METHOD USED : SIMULATED ANNEALING USING REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 HH21 ARG A 13 HG11 VAL A 51 1.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 SER A 26 C PRO A 27 N 0.127 REMARK 500 1 LYS A 66 C PRO A 67 N 0.115 REMARK 500 1 ILE A 83 C PRO A 84 N 0.117 REMARK 500 1 CYS A 87 C PRO A 88 N 0.125 REMARK 500 1 GLU A 97 C PRO A 98 N 0.122 REMARK 500 1 LYS A 105 N LYS A 105 CA 0.129 REMARK 500 1 ARG A 104 C LYS A 105 N 0.141 REMARK 500 9 SER A 26 C PRO A 27 N 0.129 REMARK 500 9 LYS A 66 C PRO A 67 N 0.115 REMARK 500 9 ILE A 83 C PRO A 84 N 0.124 REMARK 500 9 CYS A 87 C PRO A 88 N 0.136 REMARK 500 REMARK 500 REMARK: NULL 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 12 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 ARG A 13 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 ARG A 58 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 ARG A 71 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 ARG A 86 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 ARG A 99 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 ARG A 104 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 9 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 9 ARG A 13 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 9 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 9 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 9 ARG A 58 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 9 ARG A 71 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 9 ARG A 86 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 9 ARG A 99 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 9 ARG A 104 NE - CZ - NH1 ANGL. DEV. = 3.3 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 LEU A 34 -160.41 153.66 REMARK 500 1 ARG A 37 -72.79 63.97 REMARK 500 1 ILE A 81 -87.18 -99.96 REMARK 500 1 CYS A 90 -130.56 -98.29 REMARK 500 1 LYS A 91 -14.57 -149.25 REMARK 500 2 HIS A 6 116.45 62.27 REMARK 500 2 ILE A 81 -80.00 -103.59 REMARK 500 2 LYS A 89 -61.27 -92.14 REMARK 500 2 CYS A 90 -106.26 -137.10 REMARK 500 2 SER A 92 76.77 -174.71 REMARK 500 3 ARG A 37 98.35 58.47 REMARK 500 3 ILE A 81 -81.10 -104.27 REMARK 500 3 LYS A 89 -70.60 -93.47 REMARK 500 3 SER A 92 77.24 -171.19 REMARK 500 4 LEU A 34 -172.38 162.33 REMARK 500 4 ILE A 81 -81.04 -102.59 REMARK 500 4 LYS A 89 -72.58 -94.52 REMARK 500 4 CYS A 90 -104.45 -133.46 REMARK 500 4 SER A 92 80.98 -163.67 REMARK 500 4 GLU A 93 -53.36 -146.06 REMARK 500 5 LEU A 34 -22.31 -166.90 REMARK 500 5 ILE A 81 -83.59 -103.14 REMARK 500 5 LYS A 89 -62.22 -99.70 REMARK 500 5 LYS A 91 150.24 42.70 REMARK 500 5 SER A 92 -135.61 173.55 REMARK 500 5 GLU A 93 -36.17 -142.86 REMARK 500 6 HIS A 6 119.71 63.44 REMARK 500 6 LYS A 39 74.72 -112.07 REMARK 500 6 ILE A 81 -83.03 -100.72 REMARK 500 6 CYS A 90 -101.86 -141.83 REMARK 500 6 GLU A 93 -50.89 -149.22 REMARK 500 7 LEU A 34 -161.83 152.67 REMARK 500 7 ARG A 37 -79.69 66.52 REMARK 500 7 MET A 61 115.54 -37.97 REMARK 500 7 ILE A 81 46.30 -103.63 REMARK 500 7 CYS A 90 -117.81 -118.42 REMARK 500 7 LYS A 91 2.36 -165.34 REMARK 500 7 SER A 92 174.91 -45.36 REMARK 500 7 GLU A 93 -30.63 -137.95 REMARK 500 8 LEU A 34 -8.99 -172.19 REMARK 500 8 ILE A 81 -80.82 -106.58 REMARK 500 8 CYS A 90 -169.11 -120.53 REMARK 500 9 HIS A 6 134.20 67.29 REMARK 500 9 LEU A 34 169.74 171.13 REMARK 500 9 ALA A 79 109.80 -55.18 REMARK 500 9 ILE A 81 -88.30 -100.72 REMARK 500 9 CYS A 90 131.17 68.97 REMARK 500 10 LEU A 34 -178.96 167.77 REMARK 500 10 MET A 61 115.76 -39.54 REMARK 500 10 ILE A 81 -82.37 -105.64 REMARK 500 REMARK 500 THIS ENTRY HAS 51 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 2 ARG A 58 0.13 SIDE CHAIN REMARK 500 2 ARG A 71 0.13 SIDE CHAIN REMARK 500 2 ARG A 86 0.10 SIDE CHAIN REMARK 500 3 ARG A 58 0.13 SIDE CHAIN REMARK 500 3 ARG A 71 0.13 SIDE CHAIN REMARK 500 3 ARG A 86 0.10 SIDE CHAIN REMARK 500 4 ARG A 58 0.13 SIDE CHAIN REMARK 500 4 ARG A 71 0.13 SIDE CHAIN REMARK 500 4 ARG A 86 0.10 SIDE CHAIN REMARK 500 5 ARG A 58 0.14 SIDE CHAIN REMARK 500 5 ARG A 71 0.13 SIDE CHAIN REMARK 500 5 ARG A 86 0.10 SIDE CHAIN REMARK 500 6 ARG A 58 0.13 SIDE CHAIN REMARK 500 6 ARG A 71 0.13 SIDE CHAIN REMARK 500 6 ARG A 86 0.10 SIDE CHAIN REMARK 500 7 ARG A 58 0.13 SIDE CHAIN REMARK 500 7 ARG A 71 0.13 SIDE CHAIN REMARK 500 7 ARG A 86 0.10 SIDE CHAIN REMARK 500 8 ARG A 58 0.13 SIDE CHAIN REMARK 500 8 ARG A 71 0.13 SIDE CHAIN REMARK 500 8 ARG A 86 0.10 SIDE CHAIN REMARK 500 10 ARG A 58 0.13 SIDE CHAIN REMARK 500 10 ARG A 71 0.13 SIDE CHAIN REMARK 500 10 ARG A 86 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: PFG3 RELATED DB: TARGETDB DBREF 2GMG A 10 105 UNP Q8U362 Q8U362_PYRFU 2 97 SEQADV 2GMG ALA A 1 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 2 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 3 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 4 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 5 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 6 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG HIS A 7 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG GLY A 8 UNP Q8U362 EXPRESSION TAG SEQADV 2GMG SER A 9 UNP Q8U362 EXPRESSION TAG SEQRES 1 A 105 ALA HIS HIS HIS HIS HIS HIS GLY SER ALA THR ARG ARG SEQRES 2 A 105 GLU LYS ILE ILE GLU LEU LEU LEU GLU GLY ASP TYR SER SEQRES 3 A 105 PRO SER GLU LEU ALA ARG ILE LEU ASP MET ARG GLY LYS SEQRES 4 A 105 GLY SER LYS LYS VAL ILE LEU GLU ASP LEU LYS VAL ILE SEQRES 5 A 105 SER LYS ILE ALA LYS ARG GLU GLY MET VAL LEU LEU ILE SEQRES 6 A 105 LYS PRO ALA GLN CYS ARG LYS CYS GLY PHE VAL PHE LYS SEQRES 7 A 105 ALA GLU ILE ASN ILE PRO SER ARG CYS PRO LYS CYS LYS SEQRES 8 A 105 SER GLU TRP ILE GLU GLU PRO ARG PHE LYS LEU GLU ARG SEQRES 9 A 105 LYS HELIX 1 1 GLY A 8 LEU A 20 1 13 HELIX 2 2 SER A 28 ILE A 33 1 6 HELIX 3 3 SER A 41 LYS A 57 1 17 SHEET 1 A 2 MET A 61 ILE A 65 0 SHEET 2 A 2 PHE A 100 ARG A 104 -1 O GLU A 103 N VAL A 62 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