HEADER APOPTOSIS, ISOMERASE 30-OCT-07 2JWX OBSLTE 06-NOV-13 2JWX 2MF9 TITLE SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF HUMAN FKBP38 TITLE 2 (FKBP38NTD) COMPND MOL_ID: 1; COMPND 2 MOLECULE: FK506-BINDING PROTEIN 8 VARIANT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 17-165; COMPND 5 SYNONYM: FKBP38NTD; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 STRAIN: MCF-7; SOURCE 6 GENE: FKBP8; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PACYC184 KEYWDS PROTEIN, APOPTOSIS, BETA BARREL, CENTRAL HELIX, WITH FLEXIBLE N- KEYWDS 2 TERMINAL EXTENSION, ISOMERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.KANG,H.YE,B.SIMON,M.SATTLER,H.YOON REVDAT 3 06-NOV-13 2JWX 1 OBSLTE VERSN REVDAT 2 24-FEB-09 2JWX 1 VERSN REVDAT 1 04-NOV-08 2JWX 0 JRNL AUTH C.KANG,T.DAVIS,H.YE,J.CHIA,B.CHOI,J.WALKER,B.SIMON, JRNL AUTH 2 M.SATTLER,S.DHE-PAGANON,H.YOON JRNL TITL STRUCTURAL AND BIOCHEMICAL STUDIES OF FKBP38 REVEAL A NOVEL JRNL TITL 2 MECHANISM OF ACTIVATION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 1.2, CNS 1.1 REMARK 3 AUTHORS : LINGE, O'DONOGHUE, NILGES (ARIA), BRUNGER, ADAMS, REMARK 3 CLORE, GROS, NILGES, READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JWX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-NOV-07. REMARK 100 THE RCSB ID CODE IS RCSB100393. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-1MM [U-15N] FKBP38NTD, 20MM REMARK 210 SODIUM PHOSPHATE, 1MM DTT, 50MM REMARK 210 SODIUM CHLORIDE, 0.1MM EDTA, 90% REMARK 210 H2O/10% D2O; 0.5-1MM [U-13C; U- REMARK 210 15N] FKBP38NTD, 20MM SODIUM REMARK 210 PHOSPHATE, 1MM DTT, 50MM SODIUM REMARK 210 CHLORIDE, 0.1MM EDTA, 90% H2O/10% REMARK 210 D2O; 0.5-1MM [U-13C; U-15N] REMARK 210 FKBP38NTD, 20MM SODIUM PHOSPHATE, REMARK 210 1MM DTT, 50MM SODIUM CHLORIDE, REMARK 210 0.1MM EDTA, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCO; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HCCH-TOCSY; 3D REMARK 210 H(CCO)NH; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 1.3, NMRPIPE 2.3, FELIX REMARK 210 FELIX2004, NMRVIEW 5.2.2 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 LOWEST ENERGY 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 HD13 LEU A 90 HD3 PRO A 104 1.21 REMARK 500 O SER A 118 H GLY A 123 1.51 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 6 TYR A 120 CE1 TYR A 120 CZ 0.079 REMARK 500 7 TYR A 122 CE1 TYR A 122 CZ 0.085 REMARK 500 7 TYR A 122 CZ TYR A 122 CE2 -0.086 REMARK 500 12 TYR A 131 CE1 TYR A 131 CZ 0.098 REMARK 500 12 TYR A 131 CZ TYR A 131 CE2 -0.101 REMARK 500 15 TYR A 131 CZ TYR A 131 CE2 -0.084 REMARK 500 18 TYR A 122 CE1 TYR A 122 CZ 0.091 REMARK 500 18 TYR A 122 CZ TYR A 122 CE2 -0.094 REMARK 500 19 TYR A 131 CE1 TYR A 131 CZ 0.078 REMARK 500 19 TYR A 131 CZ TYR A 131 CE2 -0.085 REMARK 500 20 TYR A 122 CE1 TYR A 122 CZ 0.086 REMARK 500 20 TYR A 122 CZ TYR A 122 CE2 -0.095 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 ALA A 6 88.51 66.45 REMARK 500 1 GLU A 8 149.15 71.46 REMARK 500 1 GLN A 11 -56.61 -143.59 REMARK 500 1 ALA A 14 -81.35 -98.36 REMARK 500 1 LEU A 15 95.65 -177.04 REMARK 500 1 ALA A 16 -90.95 61.99 REMARK 500 1 ARG A 17 -135.36 43.15 REMARK 500 1 GLU A 18 172.69 64.96 REMARK 500 1 LEU A 20 -59.59 -132.23 REMARK 500 1 ALA A 21 -72.50 -176.42 REMARK 500 1 ALA A 22 97.04 -164.88 REMARK 500 1 PRO A 25 65.10 -67.87 REMARK 500 1 PRO A 27 -168.25 -63.45 REMARK 500 1 ALA A 30 -52.67 -169.13 REMARK 500 1 GLU A 35 20.38 -157.70 REMARK 500 1 TRP A 36 108.32 56.86 REMARK 500 1 PRO A 55 101.27 -28.95 REMARK 500 1 SER A 57 -103.27 44.65 REMARK 500 1 LYS A 62 99.89 -43.47 REMARK 500 1 GLU A 85 85.23 91.09 REMARK 500 1 VAL A 95 -145.15 -133.52 REMARK 500 1 CYS A 121 -76.86 -127.33 REMARK 500 1 PRO A 133 113.03 -35.34 REMARK 500 1 HIS A 135 2.70 81.84 REMARK 500 1 LEU A 150 34.19 -155.93 REMARK 500 1 GLU A 151 -174.04 -69.31 REMARK 500 1 HIS A 154 -43.67 -134.24 REMARK 500 1 HIS A 155 101.09 -160.53 REMARK 500 1 HIS A 156 -53.62 69.76 REMARK 500 2 GLU A 10 -81.41 65.44 REMARK 500 2 PRO A 12 36.32 -96.42 REMARK 500 2 GLU A 18 -149.18 41.75 REMARK 500 2 ALA A 30 74.86 -118.32 REMARK 500 2 PRO A 31 39.95 -65.71 REMARK 500 2 PRO A 33 98.19 -68.50 REMARK 500 2 GLU A 34 -3.88 69.32 REMARK 500 2 TRP A 36 138.63 56.13 REMARK 500 2 SER A 57 -97.06 45.31 REMARK 500 2 LYS A 62 104.38 -45.32 REMARK 500 2 ARG A 79 109.73 -58.04 REMARK 500 2 GLU A 85 102.62 -169.29 REMARK 500 2 VAL A 95 -147.28 -126.32 REMARK 500 2 CYS A 121 -76.43 -128.38 REMARK 500 2 PRO A 133 105.91 -38.60 REMARK 500 2 HIS A 135 -4.10 82.15 REMARK 500 2 HIS A 153 -11.32 80.01 REMARK 500 3 GLU A 10 -66.12 -164.00 REMARK 500 3 PRO A 12 98.55 -26.88 REMARK 500 3 ALA A 14 -66.71 -92.88 REMARK 500 3 ARG A 17 -138.31 -147.85 REMARK 500 REMARK 500 THIS ENTRY HAS 446 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 4 TYR A 120 0.05 SIDE CHAIN REMARK 500 6 TYR A 120 0.07 SIDE CHAIN REMARK 500 13 TYR A 120 0.05 SIDE CHAIN REMARK 500 14 TYR A 122 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AWG RELATED DB: PDB REMARK 900 WITHOUT N-TERMINAL EXTENSION OF 32 RESIDUES, SIMILAR REMARK 900 CONSTRUCT FOR CATALYTIC DOMAIN BUT WITHOUT S127, X-RAY REMARK 900 STRUCTURE REMARK 900 RELATED ID: 2F2D RELATED DB: PDB REMARK 900 WITHOUT N-TERMINAL EXTENSION OF 32 RESIDUES, SIMILAR REMARK 900 CONSTRUCT FOR CATALYTIC DOMAIN BUT WITHOUT S127, NMR REMARK 900 STRUCTURE REMARK 900 RELATED ID: 2D9F RELATED DB: PDB REMARK 900 WITHOUT N-TERMINAL EXTENSION OF 32 RESIDUES, SIMILAR REMARK 900 CONSTRUCT FOR CATALYTIC DOMAIN, NMR STRUCTURE DBREF 2JWX A 1 149 UNP Q53GU3 Q53GU3_HUMAN 17 165 SEQADV 2JWX LEU A 150 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX GLU A 151 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 152 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 153 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 154 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 155 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 156 UNP Q53GU3 EXPRESSION TAG SEQADV 2JWX HIS A 157 UNP Q53GU3 EXPRESSION TAG SEQRES 1 A 157 MET GLY GLN PRO PRO ALA GLU GLU ALA GLU GLN PRO GLY SEQRES 2 A 157 ALA LEU ALA ARG GLU PHE LEU ALA ALA MET GLU PRO GLU SEQRES 3 A 157 PRO ALA PRO ALA PRO ALA PRO GLU GLU TRP LEU ASP ILE SEQRES 4 A 157 LEU GLY ASN GLY LEU LEU ARG LYS LYS THR LEU VAL PRO SEQRES 5 A 157 GLY PRO PRO GLY SER SER ARG PRO VAL LYS GLY GLN VAL SEQRES 6 A 157 VAL THR VAL HIS LEU GLN THR SER LEU GLU ASN GLY THR SEQRES 7 A 157 ARG VAL GLN GLU GLU PRO GLU LEU VAL PHE THR LEU GLY SEQRES 8 A 157 ASP CYS ASP VAL ILE GLN ALA LEU ASP LEU SER VAL PRO SEQRES 9 A 157 LEU MET ASP VAL GLY GLU THR ALA MET VAL THR ALA ASP SEQRES 10 A 157 SER LYS TYR CYS TYR GLY PRO GLN GLY SER ARG SER PRO SEQRES 11 A 157 TYR ILE PRO PRO HIS ALA ALA LEU CYS LEU GLU VAL THR SEQRES 12 A 157 LEU LYS THR ALA VAL ASP LEU GLU HIS HIS HIS HIS HIS SEQRES 13 A 157 HIS HELIX 1 1 ILE A 96 VAL A 103 1 8 HELIX 2 2 SER A 118 CYS A 121 5 4 SHEET 1 A 6 LEU A 37 ASP A 38 0 SHEET 2 A 6 LEU A 45 VAL A 51 -1 O LYS A 47 N LEU A 37 SHEET 3 A 6 THR A 111 ALA A 116 -1 O THR A 111 N VAL A 51 SHEET 4 A 6 LEU A 138 ASP A 149 -1 O LEU A 140 N VAL A 114 SHEET 5 A 6 GLN A 64 SER A 73 -1 N SER A 73 O CYS A 139 SHEET 6 A 6 ARG A 79 THR A 89 -1 O GLU A 83 N LEU A 70 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