HEADER ANTIFREEZE PROTEIN 04-MAY-00 1C8A TITLE NMR STRUCTURE OF INTRAMOLECULAR DIMER ANTIFREEZE PROTEIN RD3, 40 SA TITLE 2 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (ANTIFREEZE PROTEIN TYPE III); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RD3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PACHYCARA BRACHYCEPHALUM; SOURCE 3 ORGANISM_TAXID: 36221; SOURCE 4 VARIANT: RD3; SOURCE 5 TISSUE: BLOOD PLASMA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM105; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PKK223-3UC; SOURCE 12 OTHER_DETAILS: SYNTHETIC GENE KEYWDS ANTIFREEZE, ANTIFREEZE PROTEIN, THERMAL HYSTERESIS PROTEIN, ICE KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR AUTHOR K.MIURA,S.TSUDA REVDAT 4 27-DEC-23 1C8A 1 REMARK REVDAT 3 16-FEB-22 1C8A 1 REMARK REVDAT 2 24-FEB-09 1C8A 1 VERSN REVDAT 1 28-FEB-01 1C8A 0 JRNL AUTH K.MIURA,S.OHGIYA,T.HOSHINO,N.NEMOTO,T.SUETAKE,A.MIURA, JRNL AUTH 2 L.SPYRACOPOULOS,H.KONDO,S.TSUDA JRNL TITL NMR ANALYSIS OF TYPE III ANTIFREEZE PROTEIN INTRAMOLECULAR JRNL TITL 2 DIMER. STRUCTURAL BASIS FOR ENHANCED ACTIVITY. JRNL REF J.BIOL.CHEM. V. 276 1304 2001 JRNL REFN ISSN 0021-9258 JRNL PMID 11010977 JRNL DOI 10.1074/JBC.M007902200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.MIURA,S.OHGIYA,T.HOSHINO,N.NEMOTO,M.ODAIRA,K.NITTA,S.TSUDA REMARK 1 TITL DETERMINATION OF THE SOLUTION STRUCTURE OF THE N-DOMAIN PLUS REMARK 1 TITL 2 LINKER OF ANTARCTIC EEL POUT ANTIFREEZE PROTEIN RD3 REMARK 1 REF J.BIOCHEM.(TOKYO) V. 126 387 1999 REMARK 1 REFN ISSN 0021-924X REMARK 1 REFERENCE 2 REMARK 1 AUTH Z.JIA,C.I.DELUCA,H.CHAO,P.L.DAVIES REMARK 1 TITL STRUCTURAL BASIS FOR THE BINDING OF A GLOBULAR ANTIFREEZE REMARK 1 TITL 2 PROTEIN TO ICE REMARK 1 REF NATURE V. 384 285 1996 REMARK 1 REFN ISSN 0028-0836 REMARK 1 DOI 10.1038/384285A0 REMARK 1 REFERENCE 3 REMARK 1 AUTH F.D.SONNICHSEN,C.I.DELUCA,P.L.DAVIES,B.D.SYKES REMARK 1 TITL REFINED SOLUTION STRUCTURE OF TYPE III ANTIFREEZE PROTEIN: REMARK 1 TITL 2 HYDROPHOBIC GROUPS MAY BE INVOLVED IN THE ENERGETICS OF THE REMARK 1 TITL 3 PROTEIN-ICE INTERACTION REMARK 1 REF STRUCTURE V. 4 1325 1996 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 4 REMARK 1 AUTH X.WANG,A.L.DEVRIES,C.H.CHENG REMARK 1 TITL ANTIFREEZE PEPTIDE HETEROGENEITY IN AN ANTARCTIC EEL POUT REMARK 1 TITL 2 INCLUDES AN UNUSUALLY LARGE MAJOR VARIANT COMPRISED OF TWO 7 REMARK 1 TITL 3 KDA TYPE III AFPS LINKED IN TANDEM REMARK 1 REF BIOCHIM.BIOPHYS.ACTA V.1247 163 1995 REMARK 1 REFN ISSN 0006-3002 REMARK 1 DOI 10.1016/0167-4838(94)00205-U REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1C8A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAY-00. REMARK 100 THE DEPOSITION ID IS D_1000001459. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 277 REMARK 210 PH : 6.7 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; 15N-1H HSQC; 13C-1H HSQC REMARK 210 15N-TOCSYHSQC; 15N-NOESYHSQC; REMARK 210 15N-HNHA; HNCA; HNCACB; CBCA(CO) REMARK 210 NH; C(CO)NH; HC(CO)NH; HCCH- REMARK 210 TOCSY; MOTHER-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851 REMARK 210 METHOD USED : SA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : AVERAGE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C/15N-LABELED RD3 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: 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 PRO A 12 -164.71 -78.44 REMARK 500 GLU A 36 46.01 -96.01 REMARK 500 LYS A 61 -97.73 -71.27 REMARK 500 THR A 68 -68.52 -90.05 REMARK 500 PRO A 70 -98.09 -73.42 REMARK 500 ASN A 84 71.34 53.39 REMARK 500 ALA A 86 91.94 -65.57 REMARK 500 THR A 88 -169.92 -118.97 REMARK 500 SER A 104 37.25 -95.24 REMARK 500 TYR A 120 -159.03 -101.05 REMARK 500 LEU A 121 -153.25 -65.84 REMARK 500 ASP A 122 84.30 -45.74 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 ARG A 47 0.31 SIDE CHAIN REMARK 500 ARG A 117 0.32 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: IC1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ICE BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: IC2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ICE BINDING SITE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C89 RELATED DB: PDB REMARK 900 40 STRUCTURES DBREF 1C8A A 1 134 UNP P35753 ANP3_RHIDE 1 134 SEQRES 1 A 134 ASN LYS ALA SER VAL VAL ALA ASN GLN LEU ILE PRO ILE SEQRES 2 A 134 ASN THR ALA LEU THR LEU ILE MET MET LYS ALA GLU VAL SEQRES 3 A 134 VAL THR PRO MET GLY ILE PRO ALA GLU GLU ILE PRO ASN SEQRES 4 A 134 LEU VAL GLY MET GLN VAL ASN ARG ALA VAL PRO LEU GLY SEQRES 5 A 134 THR THR LEU MET PRO ASP MET VAL LYS ASN TYR GLU ASP SEQRES 6 A 134 GLY THR THR SER PRO GLY LEU LYS SER VAL VAL ALA ASN SEQRES 7 A 134 GLN LEU ILE PRO ILE ASN THR ALA LEU THR LEU VAL MET SEQRES 8 A 134 MET LYS ALA GLU GLU VAL SER PRO LYS GLY ILE PRO SER SEQRES 9 A 134 GLU GLU ILE SER LYS LEU VAL GLY MET GLN VAL ASN ARG SEQRES 10 A 134 ALA VAL TYR LEU ASP GLN THR LEU MET PRO ASP MET VAL SEQRES 11 A 134 LYS ASN TYR GLU HELIX 1 1 GLU A 36 VAL A 41 1 6 HELIX 2 2 GLU A 106 VAL A 111 1 6 SHEET 1 A 3 MET A 22 GLU A 25 0 SHEET 2 A 3 SER A 4 ALA A 7 -1 N SER A 4 O GLU A 25 SHEET 3 A 3 THR A 53 THR A 54 -1 O THR A 53 N ALA A 7 SHEET 1 B 3 MET A 92 GLU A 96 0 SHEET 2 B 3 LYS A 73 ALA A 77 -1 N SER A 74 O GLU A 95 SHEET 3 B 3 GLN A 123 THR A 124 -1 O GLN A 123 N ALA A 77 SHEET 1 C 2 ALA A 86 LEU A 87 0 SHEET 2 C 2 MET A 113 GLN A 114 -1 O MET A 113 N LEU A 87 CISPEP 1 THR A 28 PRO A 29 0 -0.07 CISPEP 2 SER A 98 PRO A 99 0 -0.30 SITE 1 IC1 6 GLN A 9 ASN A 14 THR A 15 ALA A 16 SITE 2 IC1 6 THR A 18 GLN A 44 SITE 1 IC2 6 GLN A 79 ASN A 84 THR A 85 ALA A 86 SITE 2 IC2 6 THR A 88 GLN A 114 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