PDB Short entry for 3PHY HEADER PHOTORECEPTOR 06-FEB-98 3PHY TITLE PHOTOACTIVE YELLOW PROTEIN, DARK STATE (UNBLEACHED), SOLUTION TITLE 2 STRUCTURE, NMR, 26 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOTOACTIVE YELLOW PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HALORHODOSPIRA HALOPHILA; SOURCE 3 ORGANISM_TAXID: 1053; SOURCE 4 STRAIN: BN9626 KEYWDS PHOTORECEPTOR, LIGHT SENSOR FOR NEGATIVE PHOTOTAXIS EXPDTA SOLUTION NMR NUMMDL 26 AUTHOR P.DUX,G.RUBINSTENN,G.W.VUISTER,R.BOELENS,F.A.A.MULDER,K.HARD, AUTHOR 2 W.D.HOFF,A.KROON,W.CRIELAARD,K.J.HELLINGWERF,R.KAPTEIN REVDAT 3 16-MAR-22 3PHY 1 REMARK LINK REVDAT 2 24-FEB-09 3PHY 1 VERSN REVDAT 1 27-MAY-98 3PHY 0 JRNL AUTH P.DUX,G.RUBINSTENN,G.W.VUISTER,R.BOELENS,F.A.MULDER,K.HARD, JRNL AUTH 2 W.D.HOFF,A.R.KROON,W.CRIELAARD,K.J.HELLINGWERF,R.KAPTEIN JRNL TITL SOLUTION STRUCTURE AND BACKBONE DYNAMICS OF THE PHOTOACTIVE JRNL TITL 2 YELLOW PROTEIN. JRNL REF BIOCHEMISTRY V. 37 12689 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9737845 JRNL DOI 10.1021/BI9806652 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.D.HOFF,P.DUX,K.HARD,B.DEVREESE,I.M.NUGTEREN-ROODZANT, REMARK 1 AUTH 2 W.CRIELAARD,R.BOELENS,R.KAPTEIN,J.VAN BEEUMEN, REMARK 1 AUTH 3 K.J.HELLINGWERF REMARK 1 TITL THIOL ESTER-LINKED P-COUMARIC ACID AS A NEW PHOTOACTIVE REMARK 1 TITL 2 PROSTHETIC GROUP IN A PROTEIN WITH RHODOPSIN-LIKE REMARK 1 TITL 3 PHOTOCHEMISTRY REMARK 1 REF BIOCHEMISTRY V. 33 13959 1994 REMARK 1 REFN ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TWO CONSTRAINT REFINEMENT STEPS OF 0.47 REMARK 3 AND 0.58 PS, RESPECTIVELY, WITH AN INITIAL TEMPERATURE OF 2000K, REMARK 3 EXCLUDING ELECTROSTATIC INTERACTIONS, WERE DONE. REMARK 4 REMARK 4 3PHY 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_1000179108. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 311 REMARK 210 PH : 5.8 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; TOCSY; COSY; HSQC-NOESY; REMARK 210 HSQC-TOCSY; HNHA; HNHB REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AMX600; AMX500; UNITY-PLUS500; REMARK 210 UNITY-PLUS750 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 26 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOW ENERGY 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 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HC4 A 126 DBREF 3PHY A 1 125 UNP P16113 PYP_ECTHA 1 125 SEQRES 1 A 125 MET GLU HIS VAL ALA PHE GLY SER GLU ASP ILE GLU ASN SEQRES 2 A 125 THR LEU ALA LYS MET ASP ASP GLY GLN LEU ASP GLY LEU SEQRES 3 A 125 ALA PHE GLY ALA ILE GLN LEU ASP GLY ASP GLY ASN ILE SEQRES 4 A 125 LEU GLN TYR ASN ALA ALA GLU GLY ASP ILE THR GLY ARG SEQRES 5 A 125 ASP PRO LYS GLN VAL ILE GLY LYS ASN PHE PHE LYS ASP SEQRES 6 A 125 VAL ALA PRO CYS THR ASP SER PRO GLU PHE TYR GLY LYS SEQRES 7 A 125 PHE LYS GLU GLY VAL ALA SER GLY ASN LEU ASN THR MET SEQRES 8 A 125 PHE GLU TYR THR PHE ASP TYR GLN MET THR PRO THR LYS SEQRES 9 A 125 VAL LYS VAL HIS MET LYS LYS ALA LEU SER GLY ASP SER SEQRES 10 A 125 TYR TRP VAL PHE VAL LYS ARG VAL HET HC4 A 126 17 HETNAM HC4 4'-HYDROXYCINNAMIC ACID HETSYN HC4 PARA-COUMARIC ACID FORMUL 2 HC4 C9 H8 O3 HELIX 1 A-1 ILE A 11 LEU A 15 1 5 HELIX 2 A-3 ASN A 43 THR A 50 1 8 HELIX 3 A-4 ASP A 53 ILE A 58 1 6 HELIX 4 A-5 PHE A 75 GLY A 86 1 12 SHEET 1 B-1 6 LYS A 60 PHE A 62 0 SHEET 2 B-1 6 ASN A 38 LEU A 40 -1 SHEET 3 B-1 6 ALA A 27 ASP A 34 -1 SHEET 4 B-1 6 TRP A 119 VAL A 125 -1 SHEET 5 B-1 6 THR A 103 LYS A 111 -1 SHEET 6 B-1 6 LEU A 88 PHE A 96 -1 LINK SG CYS A 69 C1 HC4 A 126 1555 1555 1.80 SITE 1 AC1 7 TYR A 42 THR A 50 ARG A 52 ALA A 67 SITE 2 AC1 7 CYS A 69 PHE A 96 TYR A 98 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