PDB Short entry for 1TOZ HEADER SIGNALING PROTEIN 15-JUN-04 1TOZ TITLE NMR STRUCTURE OF THE HUMAN NOTCH-1 LIGAND BINDING REGION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUROGENIC LOCUS NOTCH HOMOLOG PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NOTCH-1 EGF 11-13; COMPND 5 SYNONYM: NOTCH 1, HN1, TRANSLOCATION-ASSOCIATED NOTCH PROTEIN TAN-1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: 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 BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS NOTCH, EGF, CALCIUM BINDING, LIGAND BINDING, MODULE, SIGNALING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.HAMBLETON,N.Y.VALEYEV,A.MURANYI,V.KNOTT,J.M.WERNER,A.J.MCMICHAEL, AUTHOR 2 P.A.HANDFORD,A.K.DOWNING REVDAT 4 10-NOV-21 1TOZ 1 REMARK SEQADV REVDAT 3 24-FEB-09 1TOZ 1 VERSN REVDAT 2 28-DEC-04 1TOZ 1 JRNL REVDAT 1 12-OCT-04 1TOZ 0 JRNL AUTH S.HAMBLETON,N.V.VALEYEV,A.MURANYI,V.KNOTT,J.M.WERNER, JRNL AUTH 2 A.J.MCMICHAEL,P.A.HANDFORD,A.K.DOWNING JRNL TITL STRUCTURAL AND FUNCTIONAL PROPERTIES OF THE HUMAN NOTCH-1 JRNL TITL 2 LIGAND BINDING REGION JRNL REF STRUCTURE V. 12 2173 2004 JRNL REFN ISSN 0969-2126 JRNL PMID 15576031 JRNL DOI 10.1016/J.STR.2004.09.012 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.MURANYI,S.HAMBLETON,V.KNOTT,A.MCMICHAEL,P.A.HANDFORD, REMARK 1 AUTH 2 A.K.DOWNING REMARK 1 TITL 1H, 13C, AND 15N RESONANCE ASSIGNMENTS OF HUMAN NOTCH-1 REMARK 1 TITL 2 CALCIUM BINDING EGF DOMAINS 11-13 REMARK 1 REF J.BIOMOL.NMR V. 29 443 2004 REMARK 1 REFN ISSN 0925-2738 REMARK 1 PMID 15213460 REMARK 1 DOI 10.1023/B:JNMR.0000032521.42723.1A REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 1.0.6, CYANA 1.0.6 REMARK 3 AUTHORS : GUNTERT, P. (CYANA), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: INPUT MANUALLY ASSIGNED 15N-EDITED REMARK 3 NOESY PEAKS, UNASSIGNED 13C-EDITED NOESY PEAKS. SEE PUBLICATION REMARK 3 FOR FURTHER DETAILS. REMARK 4 REMARK 4 1TOZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000022805. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.1 REMARK 210 IONIC STRENGTH : 15MM CACL2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-1MM PROTEIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; HMQC-J REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : OMEGA; DRX REMARK 210 SPECTROMETER MANUFACTURER : GE; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 600 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 9 REMARK 210 REMARK 210 REMARK: ADDITIONAL TORSION ANGLE RESTRAINTS DERIVED USING TALOS. REMARK 210 CALCIUM ATOMS INCORPORATED DURING STRUCTURE CALCULATIONS, AND REMARK 210 RESTRAINTS INCORPORATED BASED ON THE CRYSTAL STRUCTURE 1EDM AS REMARK 210 DESCRIBED. 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 H ILE A 430 O GLU A 437 1.43 REMARK 500 H THR A 445 O ILE A 451 1.47 REMARK 500 HD2 ASP A 464 O HIS A 486 1.53 REMARK 500 H ARG A 504 O GLU A 515 1.55 REMARK 500 O ASP A 414 H SER A 417 1.59 REMARK 500 O GLU A 455 HD21 ASN A 459 1.60 REMARK 500 N THR A 445 O ILE A 451 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 1 LEU A 418 -92.94 -73.39 REMARK 500 1 GLU A 424 -106.94 68.61 REMARK 500 1 ALA A 426 90.04 168.08 REMARK 500 1 GLN A 442 -93.80 68.68 REMARK 500 1 THR A 445 -126.64 -101.93 REMARK 500 1 CYS A 449 62.87 87.61 REMARK 500 1 GLU A 450 15.04 -149.39 REMARK 500 1 ASN A 459 56.55 -144.28 REMARK 500 1 GLN A 462 -145.91 86.80 REMARK 500 1 ASP A 464 38.12 -151.19 REMARK 500 1 THR A 491 176.44 48.53 REMARK 500 1 GLU A 493 22.65 -146.20 REMARK 500 1 SER A 497 90.57 -166.50 REMARK 500 1 CYS A 499 -48.67 77.52 REMARK 500 1 LEU A 500 170.90 69.66 REMARK 500 1 HIS A 501 -110.96 67.39 REMARK 500 1 ASN A 510 -48.06 174.84 REMARK 500 1 PRO A 517 -162.95 -75.05 REMARK 500 1 THR A 518 -46.15 -168.28 REMARK 500 1 PHE A 520 -64.38 -95.95 REMARK 500 1 HIS A 523 -79.28 -115.15 REMARK 500 1 LEU A 524 -48.16 -171.55 REMARK 500 1 CYS A 525 97.49 63.97 REMARK 500 2 LEU A 418 -90.07 -73.03 REMARK 500 2 GLU A 424 -99.40 69.50 REMARK 500 2 ALA A 426 97.03 169.47 REMARK 500 2 GLN A 442 -100.01 65.49 REMARK 500 2 THR A 445 -123.90 -103.91 REMARK 500 2 CYS A 449 68.40 97.01 REMARK 500 2 GLU A 450 23.41 -161.42 REMARK 500 2 ASN A 459 51.49 -141.08 REMARK 500 2 GLN A 462 -150.20 86.06 REMARK 500 2 ALA A 465 125.93 -179.54 REMARK 500 2 CYS A 476 86.97 -154.86 REMARK 500 2 THR A 491 161.48 -40.67 REMARK 500 2 GLU A 493 25.34 -158.08 REMARK 500 2 SER A 497 70.68 159.62 REMARK 500 2 CYS A 499 103.13 -47.32 REMARK 500 2 LEU A 500 22.62 -141.64 REMARK 500 2 ASN A 510 -56.70 177.19 REMARK 500 2 GLU A 515 -163.29 -77.11 REMARK 500 2 PRO A 517 -162.31 -75.00 REMARK 500 2 THR A 518 -41.45 -165.92 REMARK 500 2 HIS A 523 72.35 -156.52 REMARK 500 2 CYS A 525 -71.65 -175.61 REMARK 500 3 LEU A 418 -78.22 -65.67 REMARK 500 3 CYS A 423 -19.76 -48.83 REMARK 500 3 GLU A 424 -100.95 69.15 REMARK 500 3 ALA A 426 94.64 -178.09 REMARK 500 3 GLN A 442 -98.86 52.15 REMARK 500 REMARK 500 THIS ENTRY HAS 425 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EMO RELATED DB: PDB REMARK 900 STRUCTURE OF FIBRILLIN CALCIUM BINDING EGF DOMAINS 32-33 REMARK 900 RELATED ID: 1LMJ RELATED DB: PDB REMARK 900 STRUCTURE OF FIBRILLIN CALCIUM BINDING EGF DOMAINS 12-13 REMARK 900 RELATED ID: 1HJ7 RELATED DB: PDB REMARK 900 STRUCTURE OF LDL-RECEPTOR CALCIUM BINDING EGF DOMAINS A-B DBREF 1TOZ A 411 526 UNP P46531 NOTC1_HUMAN 411 526 SEQADV 1TOZ ILE A 477 UNP P46531 MET 477 ENGINEERED MUTATION SEQRES 1 A 116 GLN ASP VAL ASP GLU CYS SER LEU GLY ALA ASN PRO CYS SEQRES 2 A 116 GLU HIS ALA GLY LYS CYS ILE ASN THR LEU GLY SER PHE SEQRES 3 A 116 GLU CYS GLN CYS LEU GLN GLY TYR THR GLY PRO ARG CYS SEQRES 4 A 116 GLU ILE ASP VAL ASN GLU CYS VAL SER ASN PRO CYS GLN SEQRES 5 A 116 ASN ASP ALA THR CYS LEU ASP GLN ILE GLY GLU PHE GLN SEQRES 6 A 116 CYS ILE CYS MET PRO GLY TYR GLU GLY VAL HIS CYS GLU SEQRES 7 A 116 VAL ASN THR ASP GLU CYS ALA SER SER PRO CYS LEU HIS SEQRES 8 A 116 ASN GLY ARG CYS LEU ASP LYS ILE ASN GLU PHE GLN CYS SEQRES 9 A 116 GLU CYS PRO THR GLY PHE THR GLY HIS LEU CYS GLN HELIX 1 1 ASP A 414 GLY A 419 1 6 HELIX 2 2 GLU A 493 SER A 497 5 5 SHEET 1 A 2 GLY A 427 ASN A 431 0 SHEET 2 A 2 PHE A 436 CYS A 440 -1 O GLU A 437 N ILE A 430 SHEET 1 B 2 THR A 466 GLN A 470 0 SHEET 2 B 2 GLU A 473 ILE A 477 -1 O GLU A 473 N GLN A 470 SHEET 1 C 2 ARG A 504 ASP A 507 0 SHEET 2 C 2 PHE A 512 GLU A 515 -1 O GLU A 515 N ARG A 504 SSBOND 1 CYS A 416 CYS A 429 1555 1555 1.92 SSBOND 2 CYS A 423 CYS A 438 1555 1555 1.92 SSBOND 3 CYS A 440 CYS A 449 1555 1555 1.94 SSBOND 4 CYS A 456 CYS A 467 1555 1555 1.94 SSBOND 5 CYS A 461 CYS A 476 1555 1555 2.10 SSBOND 6 CYS A 478 CYS A 487 1555 1555 2.04 SSBOND 7 CYS A 494 CYS A 505 1555 1555 2.04 SSBOND 8 CYS A 499 CYS A 514 1555 1555 2.09 SSBOND 9 CYS A 516 CYS A 525 1555 1555 2.02 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