PDB Short entry for 2ETZ HEADER TRANSFERASE 27-OCT-05 2ETZ TITLE THE NMR MINIMIZED AVERAGE STRUCTURE OF THE ITK SH2 DOMAIN BOUND TO A TITLE 2 PHOSPHOPEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN KINASE ITK/TSK; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SH2 DOMAIN; COMPND 5 SYNONYM: T-CELL-SPECIFIC KINASE, IL-2-INDUCIBLE T-CELL KINASE, KINASE COMPND 6 EMT, KINASE TLK, ITK; COMPND 7 EC: 2.7.1.112; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: LYMPHOCYTE CYTOSOLIC PROTEIN 2 PHOSPHOPEPTIDE FRAGMENT; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: PHOSPHOPEPTIDE FRAGMENT SEQUENCE DATABASE RESIDUES 143-148; COMPND 13 SYNONYM: SH2 DOMAIN-CONTAINING LEUCOCYTE PROTEIN OF 76 KDA, SLP-76 COMPND 14 TYROSINE PHOSPHOPROTEIN, SLP76; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: ITK, EMT, TLK, TSK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX(2T); SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: THE SEQUENCE OF THE PEPTIDE IS NATURALLY FOUND IN MUS SOURCE 14 MUSCULUS (MOUSE). KEYWDS CIS/TRANS ISOMERIZATION, INTERLEUKIN-2 TYROSINE KINASE, ITK, T-CELL KEYWDS 2 SPECIFIC KINASE, TSK, SRC HOMOLOGY 2, SH2, PROLINE, PHOSPHOTYROSINE KEYWDS 3 BINDING, TRANSFERASE EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR M.SUNDD,E.V.PLETNEVA,D.B.FULTON,A.H.ANDREOTTI REVDAT 5 09-MAR-22 2ETZ 1 REMARK SEQADV LINK REVDAT 4 24-FEB-09 2ETZ 1 VERSN REVDAT 3 21-MAR-06 2ETZ 1 JRNL REVDAT 2 14-FEB-06 2ETZ 1 AUTHOR REVDAT 1 07-FEB-06 2ETZ 0 JRNL AUTH E.V.PLETNEVA,M.SUNDD,D.B.FULTON,A.H.ANDREOTTI JRNL TITL MOLECULAR DETAILS OF ITK ACTIVATION BY PROLYL ISOMERIZATION JRNL TITL 2 AND PHOSPHOLIGAND BINDING: THE NMR STRUCTURE OF THE ITK SH2 JRNL TITL 3 DOMAIN BOUND TO A PHOSPHOPEPTIDE. JRNL REF J.MOL.BIOL. V. 357 550 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16436281 JRNL DOI 10.1016/J.JMB.2005.12.073 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.J.MALLIS,K.N.BRAZIN,D.B.FULTON,A.H.ANDREOTTI REMARK 1 TITL STRUCTURAL CHARACTERIZATION OF A PROLINE-DRIVEN REMARK 1 TITL 2 CONFORMATIONAL SWITCH WITHIN THE ITK SH2 DOMAIN. REMARK 1 REF NAT.STRUCT.BIOL. V. 9 900 2002 REMARK 1 REFN ISSN 1072-8368 REMARK 1 PMID 12402030 REMARK 1 DOI 10.1038/NSB864 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR, CNS 1.0 REMARK 3 AUTHORS : BRUNGER ET AL (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 2486 INTRAMOLECULAR NOE RESTRAINTS, 31 REMARK 3 INTERMOLECULAR NOE RESTRAINTS, 63 DIHEDRAL ANGLES CALCULATED REMARK 3 USING HNHA EXPERIMENT AND TALOS AND 27 HYDROGEN BONDS (D20 REMARK 3 EXCHANGE BASED RESTRAINTS) REMARK 4 REMARK 4 2ETZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035089. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 125MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM ITK SH2 DOMAIN, 20MM REMARK 210 PHOSPHOPEPTIDE, 50MM KH2PO4, REMARK 210 75MM NACL, 2MM DTT, 0.02% NAN3, REMARK 210 PH 7.4; U-15N LABELED, 1MM ITK REMARK 210 SH2 DOMAIN, 20MM PHOSPHOPEPTIDE, REMARK 210 50MM KH2PO4, 75MM NACL, 2MM DTT, REMARK 210 0.02% NAN3, PH 7.4; U-15N, 13-C REMARK 210 LABELED, 1MM ITK SH2 DOMAIN, REMARK 210 20MM PHOSPHOPEPTIDE, 50MM KH2PO4, REMARK 210 75MM NACL, 2MM DTT, 0.02% NAN3, REMARK 210 PH 7.4; 5MM PHOSPHOPEPTIDE, 50MM REMARK 210 KH2PO4, 75MM NACL, 2MM DTT, 0.02% REMARK 210 NAN3, PH 7.4; 1MM ITK SH2 REMARK 210 DOMAIN, 20MM PHOSPHOPEPTIDE, REMARK 210 50MM KH2PO4, 75MM NACL, 2MM DTT, REMARK 210 0.02% NAN3, PH 7.4 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; HNHA; 3D_13C- REMARK 210 SEPARATED_NOESY; 3D_13C_ REMARK 210 SEPARATED_AROMATIC_NOESY; HNCACB; REMARK 210 CBCA(CO)NH; HCCH_TOCSY; CCONH; REMARK 210 13C EDITED_13C/15_N FILTERED REMARK 210 NOESY; 15N_EDITED_13C/15N_ REMARK 210 FILTERED NOESY; 2D TOCSY; D2O REMARK 210 EXCHANGE EXPERIMENT REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW 4.1.3 REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING WAS USED FOR REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : AVERAGE STRUCTURE 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: 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 HD1 TRP A 11 HB3 PRO A 108 1.30 REMARK 500 O TYR A 76 H PHE A 84 1.30 REMARK 500 O LYS A 74 HH21 ARG A 75 1.37 REMARK 500 H TYR A 76 O PHE A 84 1.39 REMARK 500 H VAL A 47 O TYR A 64 1.41 REMARK 500 O GLY A 32 H TYR A 107 1.44 REMARK 500 OG1 THR A 69 H ASN A 70 1.45 REMARK 500 O VAL A 49 H LYS A 62 1.46 REMARK 500 O LEU A 101 H ARG A 104 1.48 REMARK 500 O LYS A 67 H TYR A 77 1.51 REMARK 500 O MET A 35 H SER A 48 1.51 REMARK 500 O ILE A 87 H ILE A 91 1.51 REMARK 500 OG1 THR A 69 HH22 ARG A 75 1.51 REMARK 500 O PRO A 73 HE ARG A 75 1.51 REMARK 500 H MET A 35 O SER A 48 1.52 REMARK 500 H VAL A 49 O LYS A 62 1.52 REMARK 500 H PHE A 34 O TYR A 107 1.53 REMARK 500 O ALA A 21 H LEU A 25 1.53 REMARK 500 O LYS A 20 H LEU A 24 1.53 REMARK 500 H ARG A 37 O THR A 46 1.53 REMARK 500 O ARG A 37 H THR A 46 1.53 REMARK 500 O ASP A 19 H LYS A 23 1.53 REMARK 500 O LEU A 89 H TYR A 93 1.53 REMARK 500 O PRO A 88 H GLN A 92 1.54 REMARK 500 O GLU A 22 H LEU A 26 1.54 REMARK 500 O TRP A 11 H VAL A 36 1.54 REMARK 500 H LYS A 67 O TYR A 77 1.55 REMARK 500 O ARG A 18 H GLU A 22 1.55 REMARK 500 O SER A 86 H LEU A 90 1.55 REMARK 500 O VAL A 47 H TYR A 64 1.56 REMARK 500 O THR A 69 HH12 ARG A 75 1.56 REMARK 500 H ALA A 33 O PHE A 50 1.57 REMARK 500 O ALA A 33 H PHE A 50 1.60 REMARK 500 OG SER A 39 O1P PTR B 121 2.10 REMARK 500 O GLY A 32 O TYR A 107 2.11 REMARK 500 O ALA A 33 N PHE A 50 2.13 REMARK 500 O LYS A 30 O PHE A 50 2.16 REMARK 500 O LEU A 24 OG1 THR A 28 2.16 REMARK 500 O GLY A 32 N TYR A 107 2.19 REMARK 500 N TYR A 76 O PHE A 84 2.19 REMARK 500 NE ARG A 18 O2P PTR B 121 2.19 REMARK 500 O TRP A 11 N VAL A 36 2.19 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 ASN A 5 30.66 32.05 REMARK 500 TYR A 9 -162.88 -54.15 REMARK 500 TRP A 11 -8.42 -157.55 REMARK 500 SER A 15 10.02 53.86 REMARK 500 SER A 17 142.08 92.89 REMARK 500 ARG A 18 -24.13 -38.31 REMARK 500 GLU A 31 70.94 -56.97 REMARK 500 SER A 39 -162.34 -45.65 REMARK 500 THR A 44 -126.20 -165.27 REMARK 500 THR A 51 -150.62 -89.16 REMARK 500 ILE A 54 -88.23 -47.92 REMARK 500 SER A 56 -76.29 50.63 REMARK 500 GLU A 57 -38.37 -35.27 REMARK 500 ASN A 58 154.22 80.90 REMARK 500 CYS A 60 51.15 -118.42 REMARK 500 ILE A 66 87.93 -62.85 REMARK 500 THR A 69 -144.63 -124.90 REMARK 500 ASN A 70 57.99 -146.29 REMARK 500 ASP A 71 -141.51 -124.00 REMARK 500 SER A 72 109.48 -176.37 REMARK 500 LYS A 74 88.69 1.95 REMARK 500 ALA A 79 -143.32 -144.38 REMARK 500 LYS A 81 -22.37 157.67 REMARK 500 ASP A 85 34.87 -96.15 REMARK 500 SER A 86 77.45 -159.52 REMARK 500 HIS A 94 25.14 -78.24 REMARK 500 GLN A 95 -36.84 -146.02 REMARK 500 VAL A 102 104.60 -24.35 REMARK 500 THR A 103 36.08 26.89 REMARK 500 ARG A 104 168.03 44.68 REMARK 500 ARG A 106 -68.66 -154.27 REMARK 500 VAL A 109 24.80 -79.32 REMARK 500 CYS A 110 104.50 -32.54 REMARK 500 GLU B 122 89.31 -17.99 REMARK 500 PRO B 123 101.53 -57.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACE A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACE B 118 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 B 125 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LUI RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE ITK SH2 DOMAIN, PRO287CIS, 20 LOW ENERGY REMARK 900 STRUCTURES REMARK 900 RELATED ID: 1LUK RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE ITK SH2 DOMAIN, PRO287CIS, ENERGY MINIMIZED REMARK 900 AVERAGE STRUCTURE REMARK 900 RELATED ID: 1LUM RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE ITK SH2 DOMAIN, PRO287TRANS, 20 LOW ENERGY REMARK 900 STRUCTURES REMARK 900 RELATED ID: 1LUN RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE ITK SH2 DOMAIN, PRO287TRANS, ENERGY MINIMIZED REMARK 900 AVERAGE STRUCTURE REMARK 900 RELATED ID: 2EU0 RELATED DB: PDB REMARK 900 THE NMR ENSEMBLE STRUCTURE OF THE ITK SH2 DOMAIN BOUND TO A REMARK 900 PHOSPHOPEPTIDE DBREF 2ETZ A 4 110 UNP Q03526 ITK_MOUSE 238 344 DBREF 2ETZ B 119 124 UNP Q60787 LCP2_MOUSE 143 148 SEQADV 2ETZ GLY A 111 UNP Q03526 CLONING ARTIFACT SEQADV 2ETZ PTR B 121 UNP Q60787 TYR 145 MODIFIED RESIDUE SEQRES 1 A 109 ACE ASN ASN LEU GLU THR TYR GLU TRP TYR ASN LYS SER SEQRES 2 A 109 ILE SER ARG ASP LYS ALA GLU LYS LEU LEU LEU ASP THR SEQRES 3 A 109 GLY LYS GLU GLY ALA PHE MET VAL ARG ASP SER ARG THR SEQRES 4 A 109 PRO GLY THR TYR THR VAL SER VAL PHE THR LYS ALA ILE SEQRES 5 A 109 ILE SER GLU ASN PRO CYS ILE LYS HIS TYR HIS ILE LYS SEQRES 6 A 109 GLU THR ASN ASP SER PRO LYS ARG TYR TYR VAL ALA GLU SEQRES 7 A 109 LYS TYR VAL PHE ASP SER ILE PRO LEU LEU ILE GLN TYR SEQRES 8 A 109 HIS GLN TYR ASN GLY GLY GLY LEU VAL THR ARG LEU ARG SEQRES 9 A 109 TYR PRO VAL CYS GLY SEQRES 1 B 8 ACE ALA ASP PTR GLU PRO PRO NH2 MODRES 2ETZ PTR B 121 TYR O-PHOSPHOTYROSINE HET ACE A 3 6 HET ACE B 118 6 HET PTR B 121 24 HET NH2 B 125 1 HETNAM ACE ACETYL GROUP HETNAM PTR O-PHOSPHOTYROSINE HETNAM NH2 AMINO GROUP HETSYN PTR PHOSPHONOTYROSINE FORMUL 1 ACE 2(C2 H4 O) FORMUL 2 PTR C9 H12 N O6 P FORMUL 2 NH2 H2 N HELIX 1 1 SER A 17 GLY A 29 1 13 HELIX 2 2 SER A 86 ASN A 97 1 12 SHEET 1 A 5 ALA A 33 ARG A 37 0 SHEET 2 A 5 TYR A 45 PHE A 50 -1 O THR A 46 N ARG A 37 SHEET 3 A 5 LYS A 62 GLU A 68 -1 O LYS A 62 N VAL A 49 SHEET 4 A 5 TYR A 76 TYR A 77 -1 O TYR A 77 N LYS A 67 SHEET 5 A 5 VAL A 83 PHE A 84 -1 O PHE A 84 N TYR A 76 LINK C ACE A 3 N ASN A 4 1555 1555 1.33 LINK C ACE B 118 N ALA B 119 1555 1555 1.33 LINK C ASP B 120 N PTR B 121 1555 1555 1.33 LINK C PTR B 121 N GLU B 122 1555 1555 1.33 LINK C PRO B 124 N NH2 B 125 1555 1555 1.33 CISPEP 1 SER A 72 PRO A 73 0 0.30 SITE 1 AC1 1 ASN A 5 SITE 1 AC2 3 ASP B 120 PTR B 121 PRO B 123 SITE 1 AC3 1 PRO B 124 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 HETATM 1 C ACE A 3 181.001 12.420 -8.810 1.00 3.08 C HETATM 2 O ACE A 3 180.536 11.886 -7.802 1.00 3.61 O HETATM 3 CH3 ACE A 3 180.181 13.394 -9.616 1.00 3.64 C HETATM 4 H1 ACE A 3 180.706 14.333 -9.692 1.00 3.94 H HETATM 5 H2 ACE A 3 179.227 13.549 -9.127 1.00 4.04 H HETATM 6 H3 ACE A 3 180.021 13.000 -10.607 1.00 3.79 H