HEADER HYDROLASE 04-SEP-98 1BUJ TITLE STRUCTURE OF BINASE IN SOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (BINASE); COMPND 3 CHAIN: A; COMPND 4 EC: 3.1.27.-; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: G-SPECIFIC ENDORIBONUCLEASE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS INTERMEDIUS; SOURCE 3 ORGANISM_TAXID: 1400; SOURCE 4 STRAIN: 7P; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)(PLYSS); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEMEX1; SOURCE 10 EXPRESSION_SYSTEM_GENE: BINASE KEYWDS MICROBIAL RIBONUCLEASE, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.Y.REIBARKH,D.E.NOLDE,L.I.VASILIEVA,A.S.ARSENIEV REVDAT 5 16-FEB-22 1BUJ 1 REMARK REVDAT 4 24-FEB-09 1BUJ 1 VERSN REVDAT 3 01-APR-03 1BUJ 1 JRNL REVDAT 2 29-DEC-99 1BUJ 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 09-SEP-98 1BUJ 0 JRNL AUTH M.Y.A.REIBARKH,D.E.NOLDE,L.I.VASILIEVA,E.V.BOCHAROV, JRNL AUTH 2 A.A.SHULGA,M.P.KIRPICHNIKOV,A.S.ARSENIEV JRNL TITL THREE-DIMENSIONAL STRUCTURE OF BINASE IN SOLUTION. JRNL REF FEBS LETT. V. 431 250 1998 JRNL REFN ISSN 0014-5793 JRNL PMID 9708913 JRNL DOI 10.1016/S0014-5793(98)00765-0 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FANTOM 4.0 REMARK 3 AUTHORS : FRAICZKIEWICZ, R., MUMENTHALER, C., FREYBERG, B., REMARK 3 SCHAUMANN, T., BRAUN, W. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE REMARK 4 REMARK 4 1BUJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB. REMARK 100 THE DEPOSITION ID IS D_1000008320. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.7 REMARK 210 IONIC STRENGTH : 0.04 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; COSY; TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : WWDYANA 1.5 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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: 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 VAL A 2 57.77 -146.13 REMARK 500 1 ASN A 4 43.08 -159.17 REMARK 500 1 LYS A 38 -167.36 -78.01 REMARK 500 1 SER A 56 -65.25 81.13 REMARK 500 1 ASN A 57 121.26 63.64 REMARK 500 1 ARG A 58 32.31 -95.67 REMARK 500 1 GLU A 59 80.79 58.04 REMARK 500 1 SER A 66 -58.04 75.95 REMARK 500 1 ASN A 76 84.43 52.79 REMARK 500 1 ALA A 84 -49.54 -146.41 REMARK 500 1 TRP A 93 57.10 71.32 REMARK 500 1 HIS A 101 71.08 56.75 REMARK 500 2 ASN A 4 39.83 -159.20 REMARK 500 2 SER A 37 -49.57 -175.47 REMARK 500 2 ARG A 61 -5.95 84.95 REMARK 500 2 SER A 64 120.00 72.87 REMARK 500 2 TYR A 77 102.24 -172.19 REMARK 500 2 TRP A 93 67.29 68.15 REMARK 500 2 TYR A 102 61.10 28.65 REMARK 500 3 ASN A 4 39.66 -159.43 REMARK 500 3 ALA A 36 -57.24 80.81 REMARK 500 3 SER A 56 -53.42 87.74 REMARK 500 3 ASN A 57 -172.19 65.59 REMARK 500 3 GLU A 59 -54.73 -151.93 REMARK 500 3 ARG A 61 -81.33 -120.92 REMARK 500 3 ASN A 76 125.74 61.21 REMARK 500 3 TRP A 93 49.59 73.17 REMARK 500 4 ASN A 4 37.32 -159.21 REMARK 500 4 SER A 37 -54.86 -175.41 REMARK 500 4 SER A 56 121.00 72.56 REMARK 500 4 ARG A 61 -65.51 -107.26 REMARK 500 4 ASN A 76 -76.39 63.97 REMARK 500 4 TYR A 77 81.34 34.78 REMARK 500 4 ASN A 83 107.59 -55.05 REMARK 500 4 HIS A 101 72.92 60.85 REMARK 500 5 ASN A 4 39.60 -159.23 REMARK 500 5 SER A 37 -63.05 -166.03 REMARK 500 5 SER A 56 -54.03 86.87 REMARK 500 5 ASN A 57 131.54 70.34 REMARK 500 5 GLU A 59 98.98 61.91 REMARK 500 5 ASN A 76 -53.27 81.20 REMARK 500 5 TYR A 77 88.94 47.17 REMARK 500 5 HIS A 101 73.44 58.74 REMARK 500 6 ASN A 4 39.34 -159.36 REMARK 500 6 ALA A 36 -56.60 81.76 REMARK 500 6 ARG A 58 41.36 -160.09 REMARK 500 6 ARG A 61 -74.56 -73.31 REMARK 500 6 ASN A 76 88.09 56.29 REMARK 500 6 SER A 79 -177.03 -65.35 REMARK 500 6 PHE A 81 173.77 -55.51 REMARK 500 REMARK 500 THIS ENTRY HAS 192 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 61 LEU A 62 5 148.47 REMARK 500 GLY A 80 PHE A 81 12 -149.11 REMARK 500 PHE A 81 ARG A 82 14 -145.18 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 A 109 0.12 SIDE CHAIN REMARK 500 5 ARG A 61 0.08 SIDE CHAIN REMARK 500 5 ARG A 82 0.09 SIDE CHAIN REMARK 500 10 ARG A 109 0.08 SIDE CHAIN REMARK 500 11 ARG A 58 0.10 SIDE CHAIN REMARK 500 13 ARG A 82 0.12 SIDE CHAIN REMARK 500 15 ARG A 86 0.08 SIDE CHAIN REMARK 500 17 ARG A 86 0.17 SIDE CHAIN REMARK 500 17 ARG A 107 0.11 SIDE CHAIN REMARK 500 18 ARG A 82 0.08 SIDE CHAIN REMARK 500 19 ARG A 82 0.10 SIDE CHAIN REMARK 500 20 ARG A 86 0.15 SIDE CHAIN REMARK 500 20 ARG A 107 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1BUJ A 1 109 UNP P00649 RN_BACIN 54 162 SEQRES 1 A 109 ALA VAL ILE ASN THR PHE ASP GLY VAL ALA ASP TYR LEU SEQRES 2 A 109 ILE ARG TYR LYS ARG LEU PRO ASP ASN TYR ILE THR LYS SEQRES 3 A 109 SER GLN ALA SER ALA LEU GLY TRP VAL ALA SER LYS GLY SEQRES 4 A 109 ASN LEU ALA GLU VAL ALA PRO GLY LYS SER ILE GLY GLY SEQRES 5 A 109 ASP VAL PHE SER ASN ARG GLU GLY ARG LEU PRO SER ALA SEQRES 6 A 109 SER GLY ARG THR TRP ARG GLU ALA ASP ILE ASN TYR VAL SEQRES 7 A 109 SER GLY PHE ARG ASN ALA ASP ARG LEU VAL TYR SER SER SEQRES 8 A 109 ASP TRP LEU ILE TYR LYS THR THR ASP HIS TYR ALA THR SEQRES 9 A 109 PHE THR ARG ILE ARG HELIX 1 H1 PHE A 6 TYR A 16 1 11 HELIX 2 H2 LYS A 26 LEU A 32 1 7 HELIX 3 H3 LEU A 41 VAL A 44 1 4 SHEET 1 S1 5 GLY A 51 PHE A 55 0 SHEET 2 S1 5 TRP A 70 ILE A 75 -1 N GLU A 72 O ASP A 53 SHEET 3 S1 5 ARG A 86 SER A 90 -1 N LEU A 87 O ALA A 73 SHEET 4 S1 5 LEU A 94 THR A 99 -1 N TYR A 96 O VAL A 88 SHEET 5 S1 5 THR A 104 ILE A 108 -1 N THR A 106 O LYS A 97 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