PDB Short entry for 2DMM HEADER ISOMERASE 22-APR-06 2DMM TITLE THE SOLUTION STRUCTURE OF THE SECOND THIOREDOXIN DOMAIN OF HUMAN TITLE 2 PROTEIN DISULFIDE-ISOMERASE A3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN DISULFIDE-ISOMERASE A3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THIOREDOXIN DOMAIN; COMPND 5 SYNONYM: DISULFIDE ISOMERASE ER-60, ERP60, 58 KDA MICROSOMAL PROTEIN, COMPND 6 P58, ERP57, 58 KDA GLUCOSE-REGULATED PROTEIN; COMPND 7 EC: 5.3.4.1; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PDIA3, ERP60, GRP58; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050627-10; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS DISULFIDE ISOMERASE ER-60, ERP60, 58 KDA MICROSOMAL PROTEIN, P58, KEYWDS 2 ERP57, 58 KDA GLUCOSE-REGULATED PROTEIN, STRUCTURAL GENOMICS, KEYWDS 3 NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL KEYWDS 4 ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 5 ISOMERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.TOCHIO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DMM 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DMM 1 VERSN REVDAT 1 22-OCT-06 2DMM 0 JRNL AUTH N.TOCHIO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA JRNL TITL THE SOLUTION STRUCTURE OF THE SECOND THIOREDOXIN DOMAIN OF JRNL TITL 2 HUMAN PROTEIN DISULFIDE-ISOMERASE A3 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DMM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000025593. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.3MM THIOREDOXIN DOMAIN U REMARK 210 -15N,13C; 20MM D-TRIS-HCL; 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; 10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20031121, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.955, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION,STRUCTURES WITH REMARK 210 THE LEAST 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: 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 8 133.14 -170.39 REMARK 500 1 LEU A 12 95.18 -64.13 REMARK 500 1 ASN A 25 54.81 -110.75 REMARK 500 1 ASN A 43 106.00 -175.25 REMARK 500 1 PRO A 93 -163.81 -69.74 REMARK 500 1 TYR A 96 121.14 -34.35 REMARK 500 1 ASN A 110 25.59 49.31 REMARK 500 1 PRO A 115 -163.85 -69.74 REMARK 500 1 ARG A 122 47.58 -81.10 REMARK 500 1 ALA A 135 107.18 -45.72 REMARK 500 2 ASN A 43 110.37 -173.75 REMARK 500 2 PRO A 78 0.15 -69.82 REMARK 500 2 PRO A 93 -167.76 -69.74 REMARK 500 2 TYR A 96 126.40 -33.98 REMARK 500 2 LEU A 113 -36.84 -35.41 REMARK 500 2 PRO A 115 -178.44 -69.72 REMARK 500 2 ARG A 122 45.59 -79.00 REMARK 500 2 ALA A 135 105.79 -49.00 REMARK 500 2 SER A 140 113.87 -174.14 REMARK 500 3 ARG A 14 136.56 -170.56 REMARK 500 3 ASN A 43 108.86 -175.59 REMARK 500 3 ALA A 87 -70.73 -68.89 REMARK 500 3 PRO A 93 -163.86 -69.73 REMARK 500 3 TYR A 96 125.70 -33.27 REMARK 500 3 ASN A 110 27.89 48.14 REMARK 500 3 PRO A 115 -163.90 -69.82 REMARK 500 3 ARG A 122 43.22 -87.28 REMARK 500 3 GLN A 132 -36.89 -35.62 REMARK 500 3 THR A 136 -74.01 -33.99 REMARK 500 4 LEU A 12 40.12 -93.35 REMARK 500 4 ARG A 14 118.91 -173.55 REMARK 500 4 ASP A 26 48.31 -83.05 REMARK 500 4 ASN A 43 111.10 -167.28 REMARK 500 4 HIS A 59 -37.12 -39.65 REMARK 500 4 PRO A 93 -168.21 -69.76 REMARK 500 4 TYR A 96 123.08 -34.14 REMARK 500 4 ARG A 99 -50.05 -131.03 REMARK 500 4 ASN A 110 25.08 46.11 REMARK 500 4 LEU A 113 -38.85 -33.66 REMARK 500 4 ARG A 122 45.78 -83.67 REMARK 500 4 ALA A 135 105.81 -39.20 REMARK 500 5 PHE A 8 -58.89 -122.80 REMARK 500 5 ASN A 43 105.50 -173.87 REMARK 500 5 GLU A 44 38.74 -87.24 REMARK 500 5 ASN A 45 -40.83 -131.27 REMARK 500 5 SER A 75 -29.71 -37.98 REMARK 500 5 THR A 88 -35.88 -36.34 REMARK 500 5 ASP A 91 155.61 -41.22 REMARK 500 5 PRO A 93 -164.94 -69.84 REMARK 500 5 TYR A 96 125.15 -33.05 REMARK 500 REMARK 500 THIS ENTRY HAS 257 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002014276.1 RELATED DB: TARGETDB DBREF 2DMM A 8 136 UNP P30101 PDIA3_HUMAN 357 485 SEQADV 2DMM GLY A 1 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 2 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 3 UNP P30101 CLONING ARTIFACT SEQADV 2DMM GLY A 4 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 5 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 6 UNP P30101 CLONING ARTIFACT SEQADV 2DMM GLY A 7 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 137 UNP P30101 CLONING ARTIFACT SEQADV 2DMM GLY A 138 UNP P30101 CLONING ARTIFACT SEQADV 2DMM PRO A 139 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 140 UNP P30101 CLONING ARTIFACT SEQADV 2DMM SER A 141 UNP P30101 CLONING ARTIFACT SEQADV 2DMM GLY A 142 UNP P30101 CLONING ARTIFACT SEQRES 1 A 142 GLY SER SER GLY SER SER GLY PHE ASP GLY ASN LEU LYS SEQRES 2 A 142 ARG TYR LEU LYS SER GLU PRO ILE PRO GLU SER ASN ASP SEQRES 3 A 142 GLY PRO VAL LYS VAL VAL VAL ALA GLU ASN PHE ASP GLU SEQRES 4 A 142 ILE VAL ASN ASN GLU ASN LYS ASP VAL LEU ILE GLU PHE SEQRES 5 A 142 TYR ALA PRO TRP CYS GLY HIS CYS LYS ASN LEU GLU PRO SEQRES 6 A 142 LYS TYR LYS GLU LEU GLY GLU LYS LEU SER LYS ASP PRO SEQRES 7 A 142 ASN ILE VAL ILE ALA LYS MET ASP ALA THR ALA ASN ASP SEQRES 8 A 142 VAL PRO SER PRO TYR GLU VAL ARG GLY PHE PRO THR ILE SEQRES 9 A 142 TYR PHE SER PRO ALA ASN LYS LYS LEU ASN PRO LYS LYS SEQRES 10 A 142 TYR GLU GLY GLY ARG GLU LEU SER ASP PHE ILE SER TYR SEQRES 11 A 142 LEU GLN ARG GLU ALA THR SER GLY PRO SER SER GLY HELIX 1 1 VAL A 33 GLU A 35 5 3 HELIX 2 2 ASN A 36 VAL A 41 1 6 HELIX 3 3 CYS A 57 ASN A 62 1 6 HELIX 4 4 LEU A 63 LEU A 74 1 12 HELIX 5 5 SER A 75 ASP A 77 5 3 HELIX 6 6 GLU A 123 ALA A 135 1 13 SHEET 1 A 4 LYS A 30 VAL A 31 0 SHEET 2 A 4 ILE A 80 MET A 85 1 O LYS A 84 N LYS A 30 SHEET 3 A 4 ASP A 47 PHE A 52 1 N LEU A 49 O ALA A 83 SHEET 4 A 4 THR A 103 SER A 107 -1 O TYR A 105 N ILE A 50 CISPEP 1 SER A 94 PRO A 95 1 -0.07 CISPEP 2 PHE A 101 PRO A 102 1 -0.01 CISPEP 3 SER A 94 PRO A 95 2 -0.06 CISPEP 4 PHE A 101 PRO A 102 2 0.03 CISPEP 5 SER A 94 PRO A 95 3 -0.03 CISPEP 6 PHE A 101 PRO A 102 3 0.05 CISPEP 7 SER A 94 PRO A 95 4 -0.03 CISPEP 8 PHE A 101 PRO A 102 4 -0.04 CISPEP 9 SER A 94 PRO A 95 5 -0.01 CISPEP 10 PHE A 101 PRO A 102 5 0.01 CISPEP 11 SER A 94 PRO A 95 6 -0.10 CISPEP 12 PHE A 101 PRO A 102 6 -0.08 CISPEP 13 SER A 94 PRO A 95 7 -0.01 CISPEP 14 PHE A 101 PRO A 102 7 -0.10 CISPEP 15 SER A 94 PRO A 95 8 -0.03 CISPEP 16 PHE A 101 PRO A 102 8 0.03 CISPEP 17 SER A 94 PRO A 95 9 0.02 CISPEP 18 PHE A 101 PRO A 102 9 -0.01 CISPEP 19 SER A 94 PRO A 95 10 -0.08 CISPEP 20 PHE A 101 PRO A 102 10 0.07 CISPEP 21 SER A 94 PRO A 95 11 -0.07 CISPEP 22 PHE A 101 PRO A 102 11 -0.02 CISPEP 23 SER A 94 PRO A 95 12 -0.07 CISPEP 24 PHE A 101 PRO A 102 12 -0.04 CISPEP 25 SER A 94 PRO A 95 13 0.08 CISPEP 26 PHE A 101 PRO A 102 13 0.02 CISPEP 27 SER A 94 PRO A 95 14 -0.04 CISPEP 28 PHE A 101 PRO A 102 14 -0.08 CISPEP 29 SER A 94 PRO A 95 15 -0.14 CISPEP 30 PHE A 101 PRO A 102 15 0.00 CISPEP 31 SER A 94 PRO A 95 16 0.05 CISPEP 32 PHE A 101 PRO A 102 16 -0.05 CISPEP 33 SER A 94 PRO A 95 17 0.00 CISPEP 34 PHE A 101 PRO A 102 17 0.00 CISPEP 35 SER A 94 PRO A 95 18 0.01 CISPEP 36 PHE A 101 PRO A 102 18 -0.01 CISPEP 37 SER A 94 PRO A 95 19 -0.05 CISPEP 38 PHE A 101 PRO A 102 19 -0.06 CISPEP 39 SER A 94 PRO A 95 20 0.02 CISPEP 40 PHE A 101 PRO A 102 20 0.02 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