HEADER SIGNALING PROTEIN 24-JUL-00 1FF1 TITLE STRUCTURE OF THE SECOND EPS15 HOMOLOGY DOMAIN OF HUMAN EPS15 IN TITLE 2 COMPLEX WITH PTGSSSTNPFL COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPIDERMAL GROWTH FACTOR RECEPTOR SUBSTRATE 15; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SECOND EH DOMAIN; COMPND 5 SYNONYM: EPS15; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PTGSSSTNPFL PEPTIDE; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PRSETA; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: CHEMICALLY SYNTHESIZED PEPTIDE KEYWDS COMPLEX, EH DOMAIN, NPF, HRB, CALCIUM BINDING, SIGNALING DOMAIN, EF- KEYWDS 2 HAND, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.DE BEER,A.N.HOOFNAGLE,J.L.ENMON,R.C.BOWERS,M.YAMABHAI,B.K.KAY, AUTHOR 2 M.OVERDUIN REVDAT 4 23-FEB-22 1FF1 1 REMARK LINK REVDAT 3 24-FEB-09 1FF1 1 VERSN REVDAT 2 01-APR-03 1FF1 1 JRNL REVDAT 1 01-NOV-00 1FF1 0 JRNL AUTH T.DE BEER,A.N.HOOFNAGLE,J.L.ENMON,R.C.BOWERS,M.YAMABHAI, JRNL AUTH 2 B.K.KAY,M.OVERDUIN JRNL TITL MOLECULAR MECHANISM OF NPF RECOGNITION BY EH DOMAINS. JRNL REF NAT.STRUCT.BIOL. V. 7 1018 2000 JRNL REFN ISSN 1072-8368 JRNL PMID 11062555 JRNL DOI 10.1038/80924 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1, X-PLOR 3.85 REMARK 3 AUTHORS : VARIAN (VNMR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE R-6 SUMMATION METHOD WAS USED REMARK 3 WITHIN A SIMULATED ANNEALING PROTOCOL. ALTHOUGH THE NMR DATA WAS REMARK 3 COLLECTED ON AN 11-MER, PTGSSSTNPFL, NOES WERE ABSENT FOR THE N- REMARK 3 TERMINAL 6 RESIDUES. THE STRUCTURES WERE THEREFORE CALCULATED REMARK 3 WITH THE PEPTIDE FRAGMENT STNPFL. REMARK 4 REMARK 4 1FF1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-AUG-00. REMARK 100 THE DEPOSITION ID IS D_1000011530. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.00 REMARK 210 PH : 7.00 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM {15N}-EH2 AND 5 MM PEPTIDE, REMARK 210 20 MM PERDEUTERATED TRIS, 100 MM REMARK 210 POTASSIUM CHLORIDE, 1 MM REMARK 210 PERDEUTERATED DTT, 1 MM SODIUM REMARK 210 AZIDE, 2 MM CALCIUM CHLORIDE; 1 REMARK 210 MM {15N}-EH2 AND 5 MM PEPTIDE, REMARK 210 20 MM PERDEUTERATED TRIS, 100 MM REMARK 210 POTASSIUM CHLORIDE, 1 MM REMARK 210 PERDEUTERATED DTT, 1 MM SODIUM REMARK 210 AZIDE, 2 MM CALCIUM CHLORIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 1, X-PLOR 3.85 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : 20 LOWEST NOE ENERGIES REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: DATA WAS COLLECTED ON A 15N-LABELLED EH2 SAMPLE IN THE REMARK 210 PRESENCE OF SYNTHETIC UNLABELLED PTGSSSTNPFL AND CALCIUM 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 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 PRO B 102 REMARK 465 THR B 103 REMARK 465 GLY B 104 REMARK 465 SER B 105 REMARK 465 SER B 106 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 O SER A 32 H LYS A 35 1.45 REMARK 500 H ALA A 8 O ALA A 93 1.45 REMARK 500 O LEU A 31 H LEU A 65 1.52 REMARK 500 O ASP A 66 H PHE A 70 1.54 REMARK 500 O TRP A 54 H ASP A 58 1.54 REMARK 500 O ILE A 49 H VAL A 53 1.56 REMARK 500 OD1 ASP A 66 H GLU A 69 1.57 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 SER A 25 92.05 84.80 REMARK 500 1 ASN A 28 19.80 52.14 REMARK 500 1 LYS A 83 -76.98 -127.17 REMARK 500 1 LEU A 90 106.96 -54.63 REMARK 500 1 LEU A 94 19.87 -152.31 REMARK 500 1 THR B 108 -30.06 179.04 REMARK 500 2 SER A 25 93.07 85.12 REMARK 500 2 VAL A 77 -60.36 -91.91 REMARK 500 2 LYS A 83 -25.95 177.73 REMARK 500 2 LEU A 90 107.48 -54.57 REMARK 500 3 SER A 25 97.19 142.46 REMARK 500 3 ASN A 28 17.04 56.78 REMARK 500 3 VAL A 77 -61.52 -91.78 REMARK 500 3 LYS A 83 -21.80 177.26 REMARK 500 3 LEU A 90 107.17 -55.28 REMARK 500 4 SER A 25 90.32 142.55 REMARK 500 4 ASP A 58 87.07 -69.01 REMARK 500 4 HIS A 61 51.98 39.58 REMARK 500 4 LYS A 83 -74.37 -103.99 REMARK 500 4 LEU A 90 107.09 -52.39 REMARK 500 4 LEU A 94 36.19 -145.52 REMARK 500 4 SER A 98 -45.52 77.43 REMARK 500 4 THR B 108 -136.24 -149.55 REMARK 500 5 SER A 25 94.75 88.31 REMARK 500 5 LYS A 83 -27.24 178.01 REMARK 500 5 THR B 108 -70.99 -54.17 REMARK 500 6 ALA A 8 -30.17 -37.71 REMARK 500 6 SER A 25 94.55 82.73 REMARK 500 6 LYS A 83 -86.88 -111.42 REMARK 500 6 PRO A 85 -160.32 -68.58 REMARK 500 6 LEU A 90 108.11 -55.76 REMARK 500 7 SER A 25 91.28 87.20 REMARK 500 7 ASN A 28 16.91 57.37 REMARK 500 7 LYS A 83 68.72 177.50 REMARK 500 7 GLU A 84 107.00 -177.54 REMARK 500 7 PRO A 85 -178.73 -66.39 REMARK 500 7 LEU A 90 107.92 -53.34 REMARK 500 8 SER A 25 95.67 85.38 REMARK 500 8 VAL A 77 -64.81 -91.28 REMARK 500 8 LYS A 83 35.98 177.74 REMARK 500 8 PRO A 85 -166.12 -70.76 REMARK 500 8 SER A 89 20.18 -162.86 REMARK 500 8 LEU A 90 120.78 59.94 REMARK 500 9 SER A 25 95.76 79.81 REMARK 500 9 ASN A 28 18.39 57.40 REMARK 500 9 LYS A 83 -27.57 177.22 REMARK 500 9 PRO A 85 -176.13 -69.94 REMARK 500 9 LEU A 90 104.99 -54.89 REMARK 500 9 THR B 108 80.58 -63.43 REMARK 500 10 SER A 25 97.15 140.36 REMARK 500 REMARK 500 THIS ENTRY HAS 113 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 52 0.14 SIDE CHAIN REMARK 500 1 ARG A 67 0.31 SIDE CHAIN REMARK 500 2 ARG A 52 0.27 SIDE CHAIN REMARK 500 2 ARG A 67 0.28 SIDE CHAIN REMARK 500 2 ARG A 100 0.30 SIDE CHAIN REMARK 500 3 ARG A 52 0.32 SIDE CHAIN REMARK 500 3 ARG A 67 0.32 SIDE CHAIN REMARK 500 3 ARG A 100 0.19 SIDE CHAIN REMARK 500 4 ARG A 52 0.31 SIDE CHAIN REMARK 500 4 ARG A 67 0.23 SIDE CHAIN REMARK 500 4 ARG A 100 0.31 SIDE CHAIN REMARK 500 5 ARG A 52 0.15 SIDE CHAIN REMARK 500 5 ARG A 67 0.30 SIDE CHAIN REMARK 500 5 ARG A 100 0.31 SIDE CHAIN REMARK 500 6 ARG A 52 0.12 SIDE CHAIN REMARK 500 6 ARG A 67 0.19 SIDE CHAIN REMARK 500 6 ARG A 100 0.31 SIDE CHAIN REMARK 500 7 ARG A 52 0.31 SIDE CHAIN REMARK 500 7 ARG A 67 0.29 SIDE CHAIN REMARK 500 7 ARG A 100 0.31 SIDE CHAIN REMARK 500 8 ARG A 52 0.32 SIDE CHAIN REMARK 500 8 ARG A 67 0.31 SIDE CHAIN REMARK 500 8 ARG A 100 0.27 SIDE CHAIN REMARK 500 9 ARG A 52 0.31 SIDE CHAIN REMARK 500 9 ARG A 67 0.31 SIDE CHAIN REMARK 500 9 ARG A 100 0.32 SIDE CHAIN REMARK 500 10 ARG A 67 0.25 SIDE CHAIN REMARK 500 10 ARG A 100 0.30 SIDE CHAIN REMARK 500 11 ARG A 52 0.21 SIDE CHAIN REMARK 500 11 ARG A 67 0.29 SIDE CHAIN REMARK 500 11 ARG A 100 0.20 SIDE CHAIN REMARK 500 12 ARG A 52 0.19 SIDE CHAIN REMARK 500 12 ARG A 67 0.29 SIDE CHAIN REMARK 500 12 ARG A 100 0.16 SIDE CHAIN REMARK 500 13 ARG A 52 0.32 SIDE CHAIN REMARK 500 13 ARG A 67 0.31 SIDE CHAIN REMARK 500 13 ARG A 100 0.24 SIDE CHAIN REMARK 500 14 ARG A 52 0.30 SIDE CHAIN REMARK 500 14 ARG A 67 0.23 SIDE CHAIN REMARK 500 15 ARG A 52 0.32 SIDE CHAIN REMARK 500 15 ARG A 67 0.24 SIDE CHAIN REMARK 500 15 ARG A 100 0.27 SIDE CHAIN REMARK 500 16 ARG A 52 0.32 SIDE CHAIN REMARK 500 16 ARG A 67 0.31 SIDE CHAIN REMARK 500 16 ARG A 100 0.17 SIDE CHAIN REMARK 500 17 ARG A 52 0.18 SIDE CHAIN REMARK 500 17 ARG A 67 0.19 SIDE CHAIN REMARK 500 17 ARG A 100 0.32 SIDE CHAIN REMARK 500 18 ARG A 52 0.29 SIDE CHAIN REMARK 500 18 ARG A 67 0.27 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 57 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 113 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 58 OD1 REMARK 620 2 ASP A 60 N 87.0 REMARK 620 3 ASP A 60 OD2 154.6 67.8 REMARK 620 4 ASP A 62 OD1 80.8 110.8 110.6 REMARK 620 5 MET A 64 O 52.8 135.6 148.0 83.4 REMARK 620 6 GLU A 69 OE1 123.8 101.0 61.3 141.1 89.4 REMARK 620 7 GLU A 69 OE2 110.6 53.8 51.8 158.4 118.2 47.5 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 113 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EH2 RELATED DB: PDB REMARK 900 1EH2 IS THE FREE STATE OF EH2 REMARK 900 RELATED ID: 1F8H RELATED DB: PDB REMARK 900 1F8H IS EH2 COMPLEXED WITH STNPFR DBREF 1FF1 A 6 100 UNP P42566 EP15_HUMAN 121 215 DBREF 1FF1 B 102 112 PDB 1FF1 1FF1 102 112 SEQRES 1 A 95 PRO TRP ALA VAL LYS PRO GLU ASP LYS ALA LYS TYR ASP SEQRES 2 A 95 ALA ILE PHE ASP SER LEU SER PRO VAL ASN GLY PHE LEU SEQRES 3 A 95 SER GLY ASP LYS VAL LYS PRO VAL LEU LEU ASN SER LYS SEQRES 4 A 95 LEU PRO VAL ASP ILE LEU GLY ARG VAL TRP GLU LEU SER SEQRES 5 A 95 ASP ILE ASP HIS ASP GLY MET LEU ASP ARG ASP GLU PHE SEQRES 6 A 95 ALA VAL ALA MET PHE LEU VAL TYR CYS ALA LEU GLU LYS SEQRES 7 A 95 GLU PRO VAL PRO MET SER LEU PRO PRO ALA LEU VAL PRO SEQRES 8 A 95 PRO SER LYS ARG SEQRES 1 B 11 PRO THR GLY SER SER SER THR ASN PRO PHE LEU HET CA A 113 1 HETNAM CA CALCIUM ION FORMUL 3 CA CA 2+ HELIX 1 1 LYS A 10 ASP A 22 1 13 HELIX 2 2 SER A 32 ASN A 42 1 11 HELIX 3 3 PRO A 46 LEU A 56 1 11 HELIX 4 4 ASP A 66 LYS A 83 1 18 HELIX 5 5 PRO A 96 ARG A 100 5 5 LINK OD1 ASP A 58 CA CA A 113 1555 1555 2.82 LINK N ASP A 60 CA CA A 113 1555 1555 3.40 LINK OD2 ASP A 60 CA CA A 113 1555 1555 2.82 LINK OD1 ASP A 62 CA CA A 113 1555 1555 2.68 LINK O MET A 64 CA CA A 113 1555 1555 2.75 LINK OE1 GLU A 69 CA CA A 113 1555 1555 2.82 LINK OE2 GLU A 69 CA CA A 113 1555 1555 2.46 SITE 1 AC1 5 ASP A 58 ASP A 60 ASP A 62 MET A 64 SITE 2 AC1 5 GLU A 69 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