HEADER SPLICING 02-FEB-09 2KEQ TITLE SOLUTION STRUCTURE OF DNAE INTEIN FROM NOSTOC PUNCTIFORME COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III ALPHA SUBUNIT, NUCLEIC ACID BINDING OB- COMPND 3 FOLD TRNA/HELICASE-TYPE; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: FUSION PROTEIN OF N-INTEIN PART FROM DNA POLYMERASE COMPND 8 III ALPHA SUBUNIT (RESIDUES 1-102) AND C-INTEIN PART FROM NUCLEIC COMPND 9 ACID BINDING OB-FOLD, TRNA/HELICASE-TYPE (RESIDUES 103-137) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC PUNCTIFORME PCC 73102; SOURCE 3 ORGANISM_TAXID: 63737; SOURCE 4 GENE: DNAE, NPUN_F4872; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ER2566; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PJDJRSF05 KEYWDS INTEIN, DNAE INTEIN, PROTEIN SPLICING, PROTEIN TRANS SPLICING, KEYWDS 2 SPLICING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.S.OEEMIG,A.S.ARANKO,J.B.DJUPSJ,H.IWAI REVDAT 2 10-NOV-21 2KEQ 1 REMARK SEQADV REVDAT 1 19-MAY-09 2KEQ 0 JRNL AUTH J.S.OEEMIG,A.S.ARANKO,J.DJUPSJOBACKA,K.HEINAMAKI,H.IWAI JRNL TITL SOLUTION STRUCTURE OF DNAE INTEIN FROM NOSTOC PUNCTIFORME: JRNL TITL 2 STRUCTURAL BASIS FOR THE DESIGN OF A NEW SPLIT INTEIN JRNL TITL 3 SUITABLE FOR SITE-SPECIFIC CHEMICAL MODIFICATION. JRNL REF FEBS LETT. V. 583 1451 2009 JRNL REFN ISSN 0014-5793 JRNL PMID 19344715 JRNL DOI 10.1016/J.FEBSLET.2009.03.058 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1, AMBER 8 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), CASE, REMARK 3 DARDEN, CHEATHAM, III, SIMMERLING, WANG, DUKE, LUO, REMARK 3 KOLLM (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KEQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000101029. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM [U-99% 13C; U-99% 15N] REMARK 210 NPUDNAE-1, 10 MM SODIUM REMARK 210 PHOSPHATE-2, 90% H2O/10% D2O; 2 REMARK 210 MM [U-20% 13C; U-99% 15N] REMARK 210 NPUDNAE-3, 10 MM SODIUM REMARK 210 PHOSPHATE-4, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL 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: 3D 1H-15N NOESY AND 3D 1H-13C NOESY SPECTRA WERE RECORDED REMARK 210 WITH A MIXING TIME OF 80 AND 70 MSEC, RESPECTIVELY. 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 3 ARG A 67 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 ARG A 96 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 4 ARG A 108 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 ARG A 96 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 12 ARG A 67 NE - CZ - NH1 ANGL. DEV. = 3.8 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 TYR A 13 -50.61 -140.13 REMARK 500 1 GLU A 52 111.31 -166.68 REMARK 500 2 TYR A 13 -62.92 -143.86 REMARK 500 2 GLU A 52 96.51 -173.15 REMARK 500 2 LEU A 100 154.82 -43.90 REMARK 500 2 ARG A 123 -53.28 -144.52 REMARK 500 2 HIS A 125 34.92 -66.61 REMARK 500 3 TYR A 13 -54.28 -141.24 REMARK 500 3 GLU A 52 101.25 -171.75 REMARK 500 3 ASN A 99 19.77 46.39 REMARK 500 3 GLU A 122 -177.01 -62.74 REMARK 500 3 HIS A 125 53.50 -66.19 REMARK 500 4 TYR A 13 -48.71 -140.33 REMARK 500 4 GLU A 52 99.55 -171.04 REMARK 500 4 GLU A 54 97.67 -67.35 REMARK 500 4 HIS A 125 57.74 -104.01 REMARK 500 5 TYR A 13 -44.97 -139.93 REMARK 500 5 GLU A 52 98.46 -170.97 REMARK 500 5 ARG A 123 16.72 56.43 REMARK 500 5 HIS A 125 21.06 -142.92 REMARK 500 6 TYR A 13 -56.55 -142.56 REMARK 500 6 GLU A 52 101.51 -170.09 REMARK 500 6 MET A 81 74.24 -116.86 REMARK 500 7 TYR A 13 -53.85 -137.88 REMARK 500 7 GLU A 52 102.75 177.21 REMARK 500 7 HIS A 125 47.41 -71.75 REMARK 500 8 TYR A 13 -49.45 -140.46 REMARK 500 8 LEU A 15 96.31 -66.78 REMARK 500 8 GLU A 52 105.54 -170.76 REMARK 500 8 HIS A 125 23.82 -151.87 REMARK 500 9 TYR A 13 -52.84 -144.57 REMARK 500 9 GLU A 52 88.15 -178.69 REMARK 500 9 HIS A 125 39.23 -143.69 REMARK 500 10 TYR A 13 -50.53 -141.68 REMARK 500 10 GLU A 52 98.26 176.83 REMARK 500 10 HIS A 125 24.10 -143.98 REMARK 500 11 TYR A 13 -50.03 -141.28 REMARK 500 11 GLU A 52 104.91 -171.85 REMARK 500 11 ARG A 123 -40.19 -158.26 REMARK 500 11 ASP A 124 79.50 -100.60 REMARK 500 12 TYR A 13 -51.79 -140.10 REMARK 500 12 GLU A 52 107.55 -173.46 REMARK 500 12 GLU A 54 104.78 -59.26 REMARK 500 12 ASN A 131 18.84 52.54 REMARK 500 13 TYR A 13 -59.59 -140.97 REMARK 500 13 GLU A 52 109.20 178.32 REMARK 500 13 ARG A 123 -168.10 -75.60 REMARK 500 13 SER A 136 79.87 -109.56 REMARK 500 14 THR A 6 105.25 -59.64 REMARK 500 14 TYR A 13 -44.76 -141.49 REMARK 500 REMARK 500 THIS ENTRY HAS 77 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16009 RELATED DB: BMRB REMARK 900 ENTRY CONTAINS THE SPECIFIC RESONANCE ASSIGNMENT OF NPUDNAE INTEIN REMARK 900 FROM NOSTOC PUNCTIFORME REMARK 999 REMARK 999 SEQUENCE REMARK 999 FUSION PROTEIN OF N-INTEIN PART FROM DNA POLYMERASE III ALPHA REMARK 999 SUBUNIT (RESIDUES 1-102) AND C-INTEIN PART FROM NUCLEIC ACID REMARK 999 BINDING OB-FOLD, TRNA/HELICASE-TYPE (RESIDUES 103-137) DBREF 2KEQ A 1 102 UNP B2J066 B2J066_NOSP7 775 876 DBREF 2KEQ A 103 137 UNP B2J821 B2J821_NOSP7 2 36 SEQADV 2KEQ GLY A -1 UNP B2J066 EXPRESSION TAG SEQADV 2KEQ GLY A 0 UNP B2J066 EXPRESSION TAG SEQADV 2KEQ ALA A 1 UNP B2J066 CYS 775 ENGINEERED MUTATION SEQRES 1 A 139 GLY GLY ALA LEU SER TYR GLU THR GLU ILE LEU THR VAL SEQRES 2 A 139 GLU TYR GLY LEU LEU PRO ILE GLY LYS ILE VAL GLU LYS SEQRES 3 A 139 ARG ILE GLU CYS THR VAL TYR SER VAL ASP ASN ASN GLY SEQRES 4 A 139 ASN ILE TYR THR GLN PRO VAL ALA GLN TRP HIS ASP ARG SEQRES 5 A 139 GLY GLU GLN GLU VAL PHE GLU TYR CYS LEU GLU ASP GLY SEQRES 6 A 139 SER LEU ILE ARG ALA THR LYS ASP HIS LYS PHE MET THR SEQRES 7 A 139 VAL ASP GLY GLN MET LEU PRO ILE ASP GLU ILE PHE GLU SEQRES 8 A 139 ARG GLU LEU ASP LEU MET ARG VAL ASP ASN LEU PRO ASN SEQRES 9 A 139 ILE LYS ILE ALA THR ARG LYS TYR LEU GLY LYS GLN ASN SEQRES 10 A 139 VAL TYR ASP ILE GLY VAL GLU ARG ASP HIS ASN PHE ALA SEQRES 11 A 139 LEU LYS ASN GLY PHE ILE ALA SER ASN HELIX 1 1 ILE A 18 LYS A 24 1 7 HELIX 2 2 ILE A 84 GLU A 91 1 8 SHEET 1 A 3 LEU A 2 SER A 3 0 SHEET 2 A 3 VAL A 116 GLY A 120 -1 O TYR A 117 N LEU A 2 SHEET 3 A 3 GLN A 46 ASP A 49 -1 N GLN A 46 O GLY A 120 SHEET 1 B 2 GLU A 7 LEU A 9 0 SHEET 2 B 2 LEU A 15 PRO A 17 -1 O LEU A 16 N ILE A 8 SHEET 1 C 2 THR A 29 VAL A 33 0 SHEET 2 C 2 ILE A 39 PRO A 43 -1 O TYR A 40 N SER A 32 SHEET 1 D 3 LEU A 65 THR A 69 0 SHEET 2 D 3 GLN A 53 LEU A 60 -1 N TYR A 58 O ILE A 66 SHEET 3 D 3 ILE A 105 GLN A 114 -1 O GLY A 112 N VAL A 55 SHEET 1 E 4 MET A 81 PRO A 83 0 SHEET 2 E 4 LYS A 73 MET A 75 -1 N PHE A 74 O LEU A 82 SHEET 3 E 4 ILE A 134 SER A 136 -1 O SER A 136 N LYS A 73 SHEET 4 E 4 ASN A 126 ALA A 128 -1 N PHE A 127 O ALA A 135 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