HEADER ANTIFREEZE PROTEIN 14-DEC-98 2AFP TITLE THE SOLUTION STRUCTURE OF TYPE II ANTIFREEZE PROTEIN REVEALS A NEW TITLE 2 MEMBER OF THE LECTIN FAMILY COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (SEA RAVEN TYPE II ANTIFREEZE PROTEIN); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: SIX AMINO ACID HIS TAG WAS ADDED AT THE C-TERMINAL END COMPND 6 TO FACILITATE RECOVERY OF THE SECRETED AFP FROM THE MEDIUM USING COMPND 7 AFFINITY CHROMATOGRAPHY. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEMITRIPTERUS AMERICANUS; SOURCE 3 ORGANISM_COMMON: SEA RAVEN; SOURCE 4 ORGANISM_TAXID: 8094; SOURCE 5 ORGAN: BLOOD; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPIC9-SRM-CTHT; SOURCE 10 EXPRESSION_SYSTEM_GENE: SRAFP GENE KEYWDS RECOMBINANT SEA RAVEN PROTEIN, SOLUTION BACKBONE FOLD, C-TYPE LECTIN, KEYWDS 2 ANTIFREEZE PROTEIN EXPDTA SOLUTION NMR NUMMDL 5 AUTHOR W.GRONWALD,M.C.LOEWEN,B.LIX,A.J.DAUGULIS,F.D.SONNICHSEN,P.L.DAVIES, AUTHOR 2 B.D.SYKES REVDAT 5 27-DEC-23 2AFP 1 REMARK REVDAT 4 09-MAR-22 2AFP 1 REMARK REVDAT 3 24-FEB-09 2AFP 1 VERSN REVDAT 2 29-DEC-99 2AFP 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 23-DEC-98 2AFP 0 JRNL AUTH W.GRONWALD,M.C.LOEWEN,B.LIX,A.J.DAUGULIS,F.D.SONNICHSEN, JRNL AUTH 2 P.L.DAVIES,B.D.SYKES JRNL TITL THE SOLUTION STRUCTURE OF TYPE II ANTIFREEZE PROTEIN REVEALS JRNL TITL 2 A NEW MEMBER OF THE LECTIN FAMILY. JRNL REF BIOCHEMISTRY V. 37 4712 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9537986 JRNL DOI 10.1021/BI972788C 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: REMARK 3 IN THE CURRENT STRUCTURES ONLY THE GLOBAL FOLD OF THE MOLECULE IS REMARK 3 PRESENTED. REMARK 3 REFINED HIGH RESOLUTION SOLUTION STRUCTURES ARE NOT AVAILABLE AT REMARK 3 THE MOMENT. REMARK 4 REMARK 4 2AFP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-98. REMARK 100 THE DEPOSITION ID IS D_1000000287. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 5.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY; 2D-TOCSY; 2D-NOESY; REMARK 210 3D-TOCSY-HSQC; 3D-NOESY-HSQC; 3D REMARK 210 HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY600 AND UNITYPLUS600 REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR, NMRPIPE, PIPP, X-PLOR 3.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 5 REMARK 210 CONFORMERS, SELECTION CRITERIA : GLOBAL ENERGY AND LEAST REMARK 210 RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: REMARK 210 THE STRUCTURE WAS DETERMINED USING TWO AND THREE DIMENSIONAL NMR REMARK 210 SPECTROSCOPY REMARK 210 ON 15N-LABELED AND ON THE NATIVE SEA RAVEN ANTIFREEZE. 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-5 REMARK 470 RES CSSEQI ATOMS REMARK 470 PHE A 129 O 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 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 ASN A 6 -70.67 -159.85 REMARK 500 1 ASP A 16 -51.97 -136.09 REMARK 500 1 ARG A 17 -161.18 -71.06 REMARK 500 1 THR A 23 -45.36 -140.12 REMARK 500 1 TRP A 28 -56.68 -24.76 REMARK 500 1 HIS A 41 -175.47 -179.93 REMARK 500 1 ALA A 43 171.75 -55.75 REMARK 500 1 HIS A 46 -47.97 -148.11 REMARK 500 1 GLN A 48 -59.47 74.40 REMARK 500 1 ASN A 58 111.29 60.32 REMARK 500 1 ALA A 59 33.39 -167.62 REMARK 500 1 CYS A 69 29.54 -161.87 REMARK 500 1 LEU A 70 30.91 -154.61 REMARK 500 1 TRP A 77 -171.99 -64.60 REMARK 500 1 ASP A 79 35.32 -158.29 REMARK 500 1 MET A 83 -157.70 -116.05 REMARK 500 1 PHE A 85 109.58 62.29 REMARK 500 1 ARG A 86 89.41 176.63 REMARK 500 1 SER A 90 172.80 -56.94 REMARK 500 1 ASP A 94 175.10 60.04 REMARK 500 1 ASP A 95 38.39 -175.33 REMARK 500 1 THR A 105 166.01 -44.97 REMARK 500 1 ALA A 108 -32.15 94.38 REMARK 500 1 CYS A 111 166.91 65.34 REMARK 500 1 ASP A 113 118.65 -172.86 REMARK 500 1 CYS A 117 -43.61 106.19 REMARK 500 1 ALA A 119 72.14 -175.22 REMARK 500 1 SER A 120 95.89 -44.44 REMARK 500 1 LYS A 122 165.14 -46.25 REMARK 500 2 ASN A 6 125.03 63.56 REMARK 500 2 ALA A 9 -42.88 -171.17 REMARK 500 2 ALA A 25 98.73 -60.32 REMARK 500 2 TRP A 28 -56.88 -25.64 REMARK 500 2 ALA A 31 -71.63 -67.99 REMARK 500 2 HIS A 41 -174.52 -179.61 REMARK 500 2 SER A 44 -47.67 -135.76 REMARK 500 2 ILE A 45 162.72 63.59 REMARK 500 2 LEU A 57 -75.83 -114.14 REMARK 500 2 ASN A 58 -99.76 -64.78 REMARK 500 2 ALA A 59 -167.57 171.36 REMARK 500 2 ILE A 64 63.50 -157.05 REMARK 500 2 ALA A 68 84.21 -156.14 REMARK 500 2 ALA A 74 87.13 -153.25 REMARK 500 2 TRP A 75 -158.60 -171.03 REMARK 500 2 TRP A 77 -166.60 -67.79 REMARK 500 2 ASP A 79 32.41 -155.08 REMARK 500 2 MET A 83 -77.91 -54.88 REMARK 500 2 SER A 90 84.72 62.27 REMARK 500 2 THR A 91 -175.09 -60.56 REMARK 500 2 LYS A 92 -53.29 176.27 REMARK 500 REMARK 500 THIS ENTRY HAS 173 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 2 0.29 SIDE CHAIN REMARK 500 1 ARG A 17 0.20 SIDE CHAIN REMARK 500 1 ARG A 86 0.24 SIDE CHAIN REMARK 500 2 ARG A 2 0.30 SIDE CHAIN REMARK 500 2 ARG A 17 0.29 SIDE CHAIN REMARK 500 2 ARG A 86 0.27 SIDE CHAIN REMARK 500 3 ARG A 2 0.29 SIDE CHAIN REMARK 500 3 ARG A 17 0.31 SIDE CHAIN REMARK 500 3 ARG A 86 0.22 SIDE CHAIN REMARK 500 4 ARG A 2 0.24 SIDE CHAIN REMARK 500 4 ARG A 17 0.24 SIDE CHAIN REMARK 500 4 ARG A 86 0.21 SIDE CHAIN REMARK 500 5 ARG A 2 0.30 SIDE CHAIN REMARK 500 5 ARG A 17 0.27 SIDE CHAIN REMARK 500 5 ARG A 86 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2AFP A 1 129 UNP P05140 ANP_HEMAM 35 163 SEQRES 1 A 129 GLN ARG ALA GLY PRO ASN CYS PRO ALA GLY TRP GLN PRO SEQRES 2 A 129 LEU GLY ASP ARG CYS ILE TYR TYR GLU THR THR ALA MET SEQRES 3 A 129 THR TRP ALA LEU ALA GLU THR ASN CYS MET LYS LEU GLY SEQRES 4 A 129 GLY HIS LEU ALA SER ILE HIS SER GLN GLU GLU HIS SER SEQRES 5 A 129 PHE ILE GLN THR LEU ASN ALA GLY VAL VAL TRP ILE GLY SEQRES 6 A 129 GLY SER ALA CYS LEU GLN ALA GLY ALA TRP THR TRP SER SEQRES 7 A 129 ASP GLY THR PRO MET ASN PHE ARG SER TRP CYS SER THR SEQRES 8 A 129 LYS PRO ASP ASP VAL LEU ALA ALA CYS CYS MET GLN MET SEQRES 9 A 129 THR ALA ALA ALA ASP GLN CYS TRP ASP ASP LEU PRO CYS SEQRES 10 A 129 PRO ALA SER HIS LYS SER VAL CYS ALA MET THR PHE HELIX 1 H1 LEU A 30 LEU A 38 1 9 HELIX 2 H2 SER A 47 LEU A 57 1 11 SHEET 1 S1 1 ARG A 17 GLU A 22 0 SHEET 1 S2 1 SER A 123 PHE A 129 0 SHEET 1 S3 1 GLY A 39 LEU A 42 0 SHEET 1 S4 1 ALA A 74 TRP A 77 0 SHEET 1 S5 1 VAL A 61 ILE A 64 0 SHEET 1 S6 1 GLY A 66 CYS A 69 0 SHEET 1 S7 1 CYS A 100 ALA A 106 0 SHEET 1 S8 1 GLN A 110 LEU A 115 0 SHEET 1 S9 1 ALA A 25 TRP A 28 0 SSBOND 1 CYS A 7 CYS A 18 1555 1555 2.02 SSBOND 2 CYS A 35 CYS A 125 1555 1555 2.02 SSBOND 3 CYS A 69 CYS A 100 1555 1555 2.02 SSBOND 4 CYS A 89 CYS A 111 1555 1555 2.02 SSBOND 5 CYS A 101 CYS A 117 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 MODEL 1