HEADER HYDROLASE 23-FEB-01 1I4V TITLE SOLUTION STRUCTURE OF THE UMUD' HOMODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: UMUD' PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.21.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: UMUD; 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: PET5A KEYWDS SOS RESPONSE, SOS MUTAGENESIS, DNA REPAIR, DNA POLYMERASE V, DNA KEYWDS 2 POLYMERASE ACCESSORY PROTEIN, LEXA REPRESSOR, LAMBDA CI, SIGNAL KEYWDS 3 PEPTIDASE, SERINE-LYSINE DYAD, AUTOCATALYTIC CLEAVAGE, SERINE KEYWDS 4 PROTEASE, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.E.FERENTZ,G.C.WALKER,G.WAGNER REVDAT 3 27-OCT-21 1I4V 1 REMARK SEQADV REVDAT 2 24-FEB-09 1I4V 1 VERSN REVDAT 1 22-AUG-01 1I4V 0 JRNL AUTH A.E.FERENTZ,G.C.WALKER,G.WAGNER JRNL TITL CONVERTING A DNA DAMAGE CHECKPOINT EFFECTOR (UMUD2C) INTO A JRNL TITL 2 LESION BYPASS POLYMERASE (UMUD'2C). JRNL REF EMBO J. V. 20 4287 2001 JRNL REFN ISSN 0261-4189 JRNL PMID 11483531 JRNL DOI 10.1093/EMBOJ/20.15.4287 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 97.0, X-PLOR 3.851 REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. (FELIX), BRUNGER (X REMARK 3 -PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1I4V COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-FEB-01. REMARK 100 THE DEPOSITION ID IS D_1000012906. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 150 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.9 MM UMUD' U-15N; 150 MM NACL, REMARK 210 10 MM PHOSPHATE, PH 6.0, 1MM DTT, REMARK 210 0.1 MM EDTA; 1.3 MM UMUD' U-15N, REMARK 210 13C; 150 MM NACL, 20 MM REMARK 210 PHOSPHATE, PH 6.0, 1 MM DTT, 0.1 REMARK 210 MM EDTA; 1.5 MM UMUD' UNLABELED; REMARK 210 150 MM NACL, 20 MM PHOSPHATE, PH REMARK 210 6.0, 1 MM DTT, 0.1 MM EDTA; 1.4 REMARK 210 MM UMUD' UNLABELED; 150 MM NACL, REMARK 210 20 MM PHOSPHATE, PH 6.0, 1 MM REMARK 210 DTT, 0.1 MM EDTA; 0.5 MM UMUD' U- REMARK 210 10% 13C; 150 MM NACL, 20 MM REMARK 210 PHOSPHATE, PH 6.0, 1 MM DTT, 0.1 REMARK 210 MM EDTA; 2.7 MM UMUD' U-100% 2H, REMARK 210 15N AND 2.7 MM UNLABELED UMUD'; REMARK 210 150 MM NACL, 20 MM PHOSPHATE, PH REMARK 210 6.0, 1 MM DTT, 0.1 MM EDTA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNHA; 3D_15N-SEPARATED_NOESY; REMARK 210 2D_NOESY; 3D_13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 400 MHZ; 600 MHZ; 500 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS; AMX; VXR REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3.9 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 PRO A 27 84.57 -61.86 REMARK 500 1 ALA A 30 -80.07 -154.80 REMARK 500 1 GLU A 35 88.09 -156.06 REMARK 500 1 ILE A 38 78.85 -103.74 REMARK 500 1 ILE A 45 -151.93 -116.74 REMARK 500 1 GLN A 46 33.22 -175.49 REMARK 500 1 SER A 49 73.14 -175.96 REMARK 500 1 ALA A 50 38.44 -147.80 REMARK 500 1 ASP A 59 55.08 -173.68 REMARK 500 1 SER A 67 66.05 -119.35 REMARK 500 1 ASP A 70 -174.15 -174.40 REMARK 500 1 ALA A 77 -49.29 -175.25 REMARK 500 1 ALA A 80 -153.97 -61.15 REMARK 500 1 LYS A 97 153.72 176.26 REMARK 500 1 SER A 112 -35.73 -176.19 REMARK 500 1 PRO A 116 108.09 -59.76 REMARK 500 1 ILE A 119 -82.18 -97.98 REMARK 500 1 SER A 120 -159.19 -134.49 REMARK 500 1 ASP A 123 -77.68 -79.20 REMARK 500 1 VAL A 130 16.59 -150.04 REMARK 500 1 ILE A 132 82.46 -152.44 REMARK 500 1 SER B 28 73.55 -174.71 REMARK 500 1 GLN B 36 -153.55 -88.34 REMARK 500 1 ILE B 45 -152.04 -116.93 REMARK 500 1 GLN B 46 33.14 -175.34 REMARK 500 1 SER B 49 72.92 -175.93 REMARK 500 1 ALA B 50 38.35 -147.54 REMARK 500 1 ASP B 59 54.82 -174.10 REMARK 500 1 SER B 67 66.14 -119.32 REMARK 500 1 ASP B 70 -174.09 -174.18 REMARK 500 1 ALA B 77 -49.23 -175.19 REMARK 500 1 ALA B 80 -153.99 -60.89 REMARK 500 1 LYS B 97 141.96 -175.48 REMARK 500 1 SER B 112 -33.39 -176.25 REMARK 500 1 SER B 115 96.60 -171.44 REMARK 500 1 ILE B 119 -74.52 -100.82 REMARK 500 1 ASP B 123 -77.23 -78.94 REMARK 500 1 VAL B 130 16.68 -149.91 REMARK 500 1 ILE B 132 82.57 -152.44 REMARK 500 2 SER A 28 67.19 -157.29 REMARK 500 2 ALA A 30 59.89 -144.51 REMARK 500 2 GLU A 35 -155.14 -173.94 REMARK 500 2 GLN A 36 -159.19 -165.69 REMARK 500 2 ARG A 37 51.89 -164.75 REMARK 500 2 LEU A 40 -86.44 30.20 REMARK 500 2 GLN A 46 -44.87 -130.86 REMARK 500 2 SER A 49 47.75 -148.62 REMARK 500 2 ASP A 59 34.44 -176.68 REMARK 500 2 ASP A 68 96.16 40.39 REMARK 500 2 ALA A 77 -48.39 -174.68 REMARK 500 REMARK 500 THIS ENTRY HAS 829 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 1 ARG A 37 0.20 SIDE CHAIN REMARK 500 1 ARG A 102 0.24 SIDE CHAIN REMARK 500 1 ARG A 139 0.29 SIDE CHAIN REMARK 500 1 ARG B 37 0.32 SIDE CHAIN REMARK 500 1 ARG B 102 0.18 SIDE CHAIN REMARK 500 1 ARG B 139 0.29 SIDE CHAIN REMARK 500 2 ARG A 37 0.26 SIDE CHAIN REMARK 500 2 ARG A 102 0.29 SIDE CHAIN REMARK 500 2 ARG A 139 0.28 SIDE CHAIN REMARK 500 2 ARG B 37 0.21 SIDE CHAIN REMARK 500 2 ARG B 102 0.32 SIDE CHAIN REMARK 500 2 ARG B 139 0.28 SIDE CHAIN REMARK 500 3 ARG A 37 0.23 SIDE CHAIN REMARK 500 3 ARG A 102 0.26 SIDE CHAIN REMARK 500 3 ARG A 139 0.20 SIDE CHAIN REMARK 500 3 ARG B 37 0.31 SIDE CHAIN REMARK 500 3 ARG B 102 0.32 SIDE CHAIN REMARK 500 3 ARG B 139 0.20 SIDE CHAIN REMARK 500 4 ARG A 37 0.22 SIDE CHAIN REMARK 500 4 ARG A 102 0.16 SIDE CHAIN REMARK 500 4 ARG A 139 0.23 SIDE CHAIN REMARK 500 4 ARG B 37 0.32 SIDE CHAIN REMARK 500 4 ARG B 102 0.31 SIDE CHAIN REMARK 500 4 ARG B 139 0.23 SIDE CHAIN REMARK 500 5 ARG A 37 0.23 SIDE CHAIN REMARK 500 5 ARG A 102 0.24 SIDE CHAIN REMARK 500 5 ARG A 139 0.31 SIDE CHAIN REMARK 500 5 ARG B 37 0.31 SIDE CHAIN REMARK 500 5 ARG B 102 0.30 SIDE CHAIN REMARK 500 5 ARG B 139 0.31 SIDE CHAIN REMARK 500 6 ARG A 37 0.32 SIDE CHAIN REMARK 500 6 ARG A 102 0.31 SIDE CHAIN REMARK 500 6 ARG A 139 0.21 SIDE CHAIN REMARK 500 6 ARG B 37 0.29 SIDE CHAIN REMARK 500 6 ARG B 102 0.24 SIDE CHAIN REMARK 500 6 ARG B 139 0.21 SIDE CHAIN REMARK 500 7 ARG A 37 0.32 SIDE CHAIN REMARK 500 7 ARG A 102 0.24 SIDE CHAIN REMARK 500 7 ARG A 139 0.31 SIDE CHAIN REMARK 500 7 ARG B 37 0.27 SIDE CHAIN REMARK 500 7 ARG B 102 0.19 SIDE CHAIN REMARK 500 7 ARG B 139 0.31 SIDE CHAIN REMARK 500 8 ARG A 37 0.20 SIDE CHAIN REMARK 500 8 ARG A 102 0.32 SIDE CHAIN REMARK 500 8 ARG A 139 0.31 SIDE CHAIN REMARK 500 8 ARG B 37 0.30 SIDE CHAIN REMARK 500 8 ARG B 102 0.28 SIDE CHAIN REMARK 500 8 ARG B 139 0.31 SIDE CHAIN REMARK 500 9 ARG A 37 0.29 SIDE CHAIN REMARK 500 9 ARG A 102 0.23 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 120 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1I4V A 25 139 UNP P04153 UMUD_ECOLI 25 139 DBREF 1I4V B 25 139 UNP P04153 UMUD_ECOLI 25 139 SEQADV 1I4V ALA A 25 UNP P04153 GLY 25 ENGINEERED MUTATION SEQADV 1I4V ALA B 25 UNP P04153 GLY 25 ENGINEERED MUTATION SEQRES 1 A 115 ALA PHE PRO SER PRO ALA ALA ASP TYR VAL GLU GLN ARG SEQRES 2 A 115 ILE ASP LEU ASN GLN LEU LEU ILE GLN HIS PRO SER ALA SEQRES 3 A 115 THR TYR PHE VAL LYS ALA SER GLY ASP SER MET ILE ASP SEQRES 4 A 115 GLY GLY ILE SER ASP GLY ASP LEU LEU ILE VAL ASP SER SEQRES 5 A 115 ALA ILE THR ALA SER HIS GLY ASP ILE VAL ILE ALA ALA SEQRES 6 A 115 VAL ASP GLY GLU PHE THR VAL LYS LYS LEU GLN LEU ARG SEQRES 7 A 115 PRO THR VAL GLN LEU ILE PRO MET ASN SER ALA TYR SER SEQRES 8 A 115 PRO ILE THR ILE SER SER GLU ASP THR LEU ASP VAL PHE SEQRES 9 A 115 GLY VAL VAL ILE HIS VAL VAL LYS ALA MET ARG SEQRES 1 B 115 ALA PHE PRO SER PRO ALA ALA ASP TYR VAL GLU GLN ARG SEQRES 2 B 115 ILE ASP LEU ASN GLN LEU LEU ILE GLN HIS PRO SER ALA SEQRES 3 B 115 THR TYR PHE VAL LYS ALA SER GLY ASP SER MET ILE ASP SEQRES 4 B 115 GLY GLY ILE SER ASP GLY ASP LEU LEU ILE VAL ASP SER SEQRES 5 B 115 ALA ILE THR ALA SER HIS GLY ASP ILE VAL ILE ALA ALA SEQRES 6 B 115 VAL ASP GLY GLU PHE THR VAL LYS LYS LEU GLN LEU ARG SEQRES 7 B 115 PRO THR VAL GLN LEU ILE PRO MET ASN SER ALA TYR SER SEQRES 8 B 115 PRO ILE THR ILE SER SER GLU ASP THR LEU ASP VAL PHE SEQRES 9 B 115 GLY VAL VAL ILE HIS VAL VAL LYS ALA MET ARG HELIX 1 1 ASP A 39 ILE A 45 1 7 HELIX 2 2 ASP B 39 ILE B 45 1 7 SHEET 1 A 6 TYR A 52 ALA A 56 0 SHEET 2 A 6 ASP A 70 SER A 76 -1 O ASP A 70 N ALA A 56 SHEET 3 A 6 GLY A 129 LYS A 136 -1 N VAL A 130 O ASP A 75 SHEET 4 A 6 GLY B 129 LYS B 136 -1 O VAL B 134 N LYS A 136 SHEET 5 A 6 ASP B 70 SER B 76 -1 O LEU B 71 N VAL B 135 SHEET 6 A 6 TYR B 52 ALA B 56 -1 N TYR B 52 O VAL B 74 SHEET 1 B 3 THR A 95 LYS A 97 0 SHEET 2 B 3 VAL A 86 ALA A 89 -1 O VAL A 86 N LYS A 97 SHEET 3 B 3 ASP A 126 VAL A 127 -1 O ASP A 126 N ALA A 89 SHEET 1 C 2 GLN A 106 LEU A 107 0 SHEET 2 C 2 ILE A 117 THR A 118 -1 O ILE A 117 N LEU A 107 SHEET 1 D 3 THR B 95 LYS B 97 0 SHEET 2 D 3 VAL B 86 ALA B 89 -1 O VAL B 86 N LYS B 97 SHEET 3 D 3 ASP B 126 VAL B 127 -1 O ASP B 126 N ALA B 89 SHEET 1 E 2 GLN B 106 LEU B 107 0 SHEET 2 E 2 ILE B 117 THR B 118 -1 O ILE B 117 N LEU B 107 CRYST1 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