HEADER PHOSPHOTRANSFERASE 07-MAR-94 1PKT TITLE STRUCTURE OF THE PI3K SH3 DOMAIN AND ANALYSIS OF THE SH3 FAMILY COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 3-KINASE P85-ALPHA SUBUNIT SH3 DOMAIN; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.1.137; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606 KEYWDS PHOSPHOTRANSFERASE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR S.KOYAMA,H.YU,D.C.DALGARNO,T.B.SHIN,L.D.ZYDOWSKY,S.L.SCHREIBER REVDAT 4 01-MAY-24 1PKT 1 REMARK REVDAT 3 29-NOV-17 1PKT 1 REMARK HELIX REVDAT 2 24-FEB-09 1PKT 1 VERSN REVDAT 1 31-MAY-94 1PKT 0 JRNL AUTH S.KOYAMA,H.YU,D.C.DALGARNO,T.B.SHIN,L.D.ZYDOWSKY, JRNL AUTH 2 S.L.SCHREIBER JRNL TITL STRUCTURE OF THE PI3K SH3 DOMAIN AND ANALYSIS OF THE SH3 JRNL TITL 2 FAMILY. JRNL REF CELL(CAMBRIDGE,MASS.) V. 72 945 1993 JRNL REFN ISSN 0092-8674 JRNL PMID 7681364 JRNL DOI 10.1016/0092-8674(93)90582-B REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.KOYAMA,H.YU,D.C.DALGARNO,T.B.SHIN,L.D.ZYDOWSKY, REMARK 1 AUTH 2 S.L.SCHREIBER REMARK 1 TITL 1H AND 15N ASSIGNMENTS AND SECONDARY STRUCTURE OF THE PI3L REMARK 1 TITL 2 SH3 DOMAIN REMARK 1 REF FEBS LETT. V. 324 93 1993 REMARK 1 REFN ISSN 0014-5793 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PKT COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175716. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-30 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ALA A 3 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 1 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 2 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 3 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 4 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 4 TRP A 55 CG TRP A 55 CD2 -0.102 REMARK 500 5 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 5 TRP A 55 CG TRP A 55 CD2 -0.102 REMARK 500 6 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 7 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 8 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 9 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 10 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 11 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 12 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 13 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 14 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 15 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 16 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 17 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 18 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 19 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 19 TRP A 55 CG TRP A 55 CD2 -0.102 REMARK 500 20 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 21 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 22 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 23 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 24 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 25 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 26 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 27 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 28 HIS A 25 CG HIS A 25 ND1 -0.101 REMARK 500 29 HIS A 25 CG HIS A 25 ND1 -0.100 REMARK 500 30 HIS A 25 CG HIS A 25 ND1 -0.102 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 1 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 1 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 1 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES REMARK 500 1 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 2 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 2 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.0 DEGREES REMARK 500 2 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 2 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 3 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 3 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 3 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 3 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 4 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.6 DEGREES REMARK 500 4 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 4 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.6 DEGREES REMARK 500 4 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 5 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.6 DEGREES REMARK 500 5 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.2 DEGREES REMARK 500 5 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.6 DEGREES REMARK 500 5 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 6 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 6 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 6 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 6 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 7 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 7 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.2 DEGREES REMARK 500 7 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES REMARK 500 7 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 8 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.6 DEGREES REMARK 500 8 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 8 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES REMARK 500 8 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 9 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.6 DEGREES REMARK 500 9 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 9 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 9 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 10 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 10 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 10 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 10 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 11 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.6 DEGREES REMARK 500 11 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 11 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES REMARK 500 11 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 12 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 12 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 12 TRP A 55 NE1 - CE2 - CZ2 ANGL. DEV. = 8.4 DEGREES REMARK 500 12 TRP A 55 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 13 TRP A 55 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 13 TRP A 55 CD1 - NE1 - CE2 ANGL. DEV. = 6.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 120 ANGLE DEVIATIONS. 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 LYS A 16 95.71 153.68 REMARK 500 1 GLU A 19 25.85 -74.38 REMARK 500 1 GLU A 20 13.98 -149.05 REMARK 500 1 ASP A 23 109.68 -49.15 REMARK 500 1 ARG A 49 75.80 -119.14 REMARK 500 1 GLU A 52 50.48 -114.12 REMARK 500 1 ILE A 53 -45.71 -134.91 REMARK 500 2 TYR A 12 -169.02 -129.75 REMARK 500 2 TYR A 14 118.17 -173.42 REMARK 500 2 LYS A 16 109.26 -42.70 REMARK 500 2 LYS A 34 53.84 -90.47 REMARK 500 2 PHE A 42 -172.76 -59.94 REMARK 500 2 GLU A 52 47.06 -98.64 REMARK 500 2 ILE A 53 -42.21 -146.89 REMARK 500 3 ALA A 10 85.36 -61.94 REMARK 500 3 TYR A 14 115.58 179.75 REMARK 500 3 LYS A 16 93.23 -39.69 REMARK 500 3 PHE A 42 -168.32 -67.26 REMARK 500 3 GLU A 52 51.53 -113.75 REMARK 500 3 ILE A 53 -39.58 -141.49 REMARK 500 3 TYR A 76 113.39 -37.56 REMARK 500 4 TYR A 12 -158.72 -128.18 REMARK 500 4 TYR A 14 113.79 -171.49 REMARK 500 4 LYS A 16 93.16 -55.08 REMARK 500 4 ASN A 33 -165.68 -61.22 REMARK 500 4 LYS A 34 -70.98 -89.08 REMARK 500 4 PHE A 42 -168.13 -67.21 REMARK 500 4 GLU A 52 34.06 -99.28 REMARK 500 4 GLU A 75 87.15 -154.84 REMARK 500 5 LYS A 16 88.87 -55.80 REMARK 500 5 ASN A 33 -171.97 -56.21 REMARK 500 5 PHE A 42 -168.28 -69.66 REMARK 500 5 THR A 62 -79.76 -41.26 REMARK 500 5 TYR A 76 110.58 -37.67 REMARK 500 6 ALA A 10 99.12 -66.02 REMARK 500 6 TYR A 12 -163.59 -127.94 REMARK 500 6 LYS A 16 92.13 64.19 REMARK 500 6 GLU A 17 -80.06 -86.02 REMARK 500 6 ASN A 33 178.48 -47.79 REMARK 500 6 LYS A 34 -71.31 -87.40 REMARK 500 6 PHE A 42 -168.92 -53.81 REMARK 500 6 GLU A 52 43.92 -90.70 REMARK 500 6 ILE A 53 -40.19 -136.68 REMARK 500 6 TYR A 76 115.78 -37.75 REMARK 500 6 ILE A 77 28.47 -149.37 REMARK 500 7 ALA A 10 103.31 -44.92 REMARK 500 7 GLU A 17 -84.26 -68.23 REMARK 500 7 LEU A 26 151.07 -42.81 REMARK 500 7 PHE A 42 -168.42 -55.75 REMARK 500 7 ASP A 44 95.77 -57.80 REMARK 500 REMARK 500 THIS ENTRY HAS 246 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PKS RELATED DB: PDB DBREF 1PKT A 1 79 UNP P27986 P85A_HUMAN 1 79 SEQRES 1 A 79 MET SER ALA GLU GLY TYR GLN TYR ARG ALA LEU TYR ASP SEQRES 2 A 79 TYR LYS LYS GLU ARG GLU GLU ASP ILE ASP LEU HIS LEU SEQRES 3 A 79 GLY ASP ILE LEU THR VAL ASN LYS GLY SER LEU VAL ALA SEQRES 4 A 79 LEU GLY PHE SER ASP GLY GLN GLU ALA ARG PRO GLU GLU SEQRES 5 A 79 ILE GLY TRP LEU ASN GLY TYR ASN GLU THR THR GLY GLU SEQRES 6 A 79 ARG GLY ASP PHE PRO GLY THR TYR VAL GLU TYR ILE GLY SEQRES 7 A 79 ARG HELIX 1 H1 LYS A 34 ALA A 39 1RIGHT-HANDED ALPHA HELIX 6 HELIX 2 H2 GLN A 46 ARG A 49 1RIGHT-HANDED 3=10= HELIX 4 HELIX 3 H3 PRO A 50 ILE A 53 1RIGHT-HANDED 3=10= HELIX 4 HELIX 4 H4 GLY A 71 VAL A 74 1RIGHT-HANDED 3=10= HELIX 4 SHEET 1 S1 5 GLU A 65 PRO A 70 0 SHEET 2 S1 5 TRP A 55 ASN A 60 -1 N GLY A 58 O GLY A 67 SHEET 3 S1 5 ASP A 28 VAL A 32 -1 N THR A 31 O TYR A 59 SHEET 4 S1 5 TYR A 6 LEU A 11 -1 N TYR A 8 O LEU A 30 SHEET 5 S1 5 VAL A 74 GLY A 78 -1 N GLU A 75 O ARG A 9 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