HEADER ANTIFREEZE PROTEIN, CELL ADHESION 23-MAR-16 5IX9 TITLE CELL SURFACE ANCHORING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTIFREEZE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 12-187; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MARINOMONAS PRIMORYENSIS; SOURCE 3 ORGANISM_TAXID: 178399; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BIOFILM-ASSOCIATED PROTEIN, ICE-BINDING PROTEIN, ANTIFREEZE PROTEIN, KEYWDS 2 CELL ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.GUO,D.LANGELAAN REVDAT 5 01-MAY-24 5IX9 1 REMARK REVDAT 4 08-JAN-20 5IX9 1 REMARK REVDAT 3 20-SEP-17 5IX9 1 REMARK REVDAT 2 06-SEP-17 5IX9 1 JRNL REVDAT 1 28-JUN-17 5IX9 0 JRNL AUTH S.GUO,C.A.STEVENS,T.D.R.VANCE,L.L.C.OLIJVE,L.A.GRAHAM, JRNL AUTH 2 R.L.CAMPBELL,S.R.YAZDI,C.ESCOBEDO,M.BAR-DOLEV,V.YASHUNSKY, JRNL AUTH 3 I.BRASLAVSKY,D.N.LANGELAAN,S.P.SMITH,J.S.ALLINGHAM, JRNL AUTH 4 I.K.VOETS,P.L.DAVIES JRNL TITL STRUCTURE OF A 1.5-MDA ADHESIN THAT BINDS ITS ANTARCTIC JRNL TITL 2 BACTERIUM TO DIATOMS AND ICE. JRNL REF SCI ADV V. 3 01440 2017 JRNL REFN ESSN 2375-2548 JRNL PMID 28808685 JRNL DOI 10.1126/SCIADV.1701440 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5IX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219361. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 30 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 20 MM TRIS, 50 MM SODIUM REMARK 210 CHLORIDE, 2 MM CACL2, 2 MM MGCL2, REMARK 210 3 MM 13C MPAFP_RINM, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY ALIPHATIC; 3D 1H REMARK 210 -13C NOESY AROMATIC; 2D 1H-15N REMARK 210 HSQC; 3D HNCACB; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HCCH-TOCSY; 3D HCCH- REMARK 210 COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS, ANALYSIS, VNMR, NMRPIPE REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 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 : 1 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MET A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 ASN A -7 REMARK 465 GLN A -6 REMARK 465 PHE A -5 REMARK 465 PRO A -4 REMARK 465 PHE A -3 REMARK 465 ALA A -2 REMARK 465 THR A -1 REMARK 465 LEU A 0 REMARK 465 GLU A 77 REMARK 465 ASP A 78 REMARK 465 LEU A 79 REMARK 465 VAL A 80 REMARK 465 ALA A 81 REMARK 465 ASP A 82 REMARK 465 SER A 83 REMARK 465 SER A 84 REMARK 465 SER A 85 REMARK 465 GLU A 86 REMARK 465 ILE A 87 REMARK 465 ASP A 88 REMARK 465 ALA A 89 REMARK 465 LEU A 90 REMARK 465 GLN A 91 REMARK 465 ASN A 92 REMARK 465 ALA A 93 REMARK 465 ILE A 94 REMARK 465 LEU A 95 REMARK 465 ALA A 96 REMARK 465 GLY A 97 REMARK 465 ASP A 98 REMARK 465 ASP A 99 REMARK 465 PRO A 100 REMARK 465 THR A 101 REMARK 465 LEU A 102 REMARK 465 ILE A 103 REMARK 465 GLN A 104 REMARK 465 ASP A 105 REMARK 465 ALA A 106 REMARK 465 PRO A 107 REMARK 465 ALA A 108 REMARK 465 ALA A 109 REMARK 465 GLY A 110 REMARK 465 ASN A 111 REMARK 465 THR A 112 REMARK 465 LEU A 113 REMARK 465 ALA A 114 REMARK 465 ASP A 115 REMARK 465 GLN A 116 REMARK 465 GLN A 117 REMARK 465 ARG A 118 REMARK 465 VAL A 119 REMARK 465 ASP A 120 REMARK 465 VAL A 121 REMARK 465 SER A 122 REMARK 465 ILE A 123 REMARK 465 GLU A 124 REMARK 465 ARG A 125 REMARK 465 ASN A 126 REMARK 465 ASP A 127 REMARK 465 ASN A 128 REMARK 465 SER A 129 REMARK 465 ALA A 130 REMARK 465 GLN A 131 REMARK 465 ALA A 132 REMARK 465 GLY A 133 REMARK 465 PHE A 134 REMARK 465 GLY A 135 REMARK 465 VAL A 136 REMARK 465 ASP A 137 REMARK 465 THR A 138 REMARK 465 GLN A 139 REMARK 465 SER A 140 REMARK 465 SER A 141 REMARK 465 LEU A 142 REMARK 465 PRO A 143 REMARK 465 THR A 144 REMARK 465 TYR A 145 REMARK 465 GLY A 146 REMARK 465 TYR A 147 REMARK 465 ASP A 148 REMARK 465 THR A 149 REMARK 465 ASP A 150 REMARK 465 ASN A 151 REMARK 465 GLY A 152 REMARK 465 ASN A 153 REMARK 465 GLY A 154 REMARK 465 GLY A 155 REMARK 465 GLN A 156 REMARK 465 ALA A 157 REMARK 465 THR A 158 REMARK 465 GLU A 159 REMARK 465 ARG A 160 REMARK 465 GLU A 161 REMARK 465 TYR A 162 REMARK 465 SER A 163 REMARK 465 ALA A 164 REMARK 465 PRO A 165 REMARK 465 SER A 166 REMARK 465 LEU A 167 REMARK 465 SER A 168 REMARK 465 ARG A 169 REMARK 465 THR A 170 REMARK 465 LEU A 171 REMARK 465 ASN A 172 REMARK 465 GLN A 173 REMARK 465 SER A 174 REMARK 465 PRO A 175 REMARK 465 LEU A 176 REMARK 465 LEU A 177 REMARK 465 GLU A 178 REMARK 465 HIS A 179 REMARK 465 HIS A 180 REMARK 465 HIS A 181 REMARK 465 HIS A 182 REMARK 465 HIS A 183 REMARK 465 HIS A 184 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: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 3 TYR A 71 CZ TYR A 71 CE2 -0.090 REMARK 500 4 TYR A 71 CZ TYR A 71 CE2 -0.091 REMARK 500 7 TYR A 71 CE1 TYR A 71 CZ 0.096 REMARK 500 7 TYR A 71 CZ TYR A 71 CE2 -0.113 REMARK 500 20 TYR A 71 CZ TYR A 71 CE2 -0.090 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 MET A 66 89.20 -69.19 REMARK 500 1 THR A 67 -164.90 -115.95 REMARK 500 1 TYR A 71 79.72 -104.88 REMARK 500 1 ASP A 75 -79.56 -81.63 REMARK 500 2 ASN A 2 147.83 69.16 REMARK 500 2 THR A 67 -166.77 -111.05 REMARK 500 3 ASN A 2 152.68 69.35 REMARK 500 3 MET A 66 89.15 -68.18 REMARK 500 3 THR A 67 -166.99 -116.55 REMARK 500 4 SER A 43 34.31 -97.61 REMARK 500 4 THR A 67 -165.19 -117.06 REMARK 500 5 ASP A 61 47.07 38.30 REMARK 500 5 THR A 67 -162.42 -117.62 REMARK 500 5 TYR A 71 72.77 -111.41 REMARK 500 6 THR A 67 -164.71 -119.02 REMARK 500 7 SER A 18 -179.39 -63.75 REMARK 500 7 MET A 66 89.45 -66.28 REMARK 500 7 THR A 67 -166.47 -110.81 REMARK 500 8 MET A 66 89.88 -67.13 REMARK 500 8 THR A 67 -162.99 -117.77 REMARK 500 8 TYR A 71 76.78 -108.42 REMARK 500 8 ASP A 75 -37.20 -139.43 REMARK 500 9 SER A 43 80.74 69.96 REMARK 500 9 MET A 66 89.24 -64.32 REMARK 500 9 THR A 67 -168.22 -121.59 REMARK 500 9 TYR A 71 73.86 -113.27 REMARK 500 10 ASN A 2 162.73 67.22 REMARK 500 10 MET A 66 89.58 -67.72 REMARK 500 10 THR A 67 -167.45 -121.37 REMARK 500 10 ASN A 72 88.26 -69.52 REMARK 500 10 ASP A 75 -32.81 73.72 REMARK 500 11 MET A 66 89.93 -65.80 REMARK 500 11 THR A 67 -166.39 -116.54 REMARK 500 12 MET A 66 90.48 -62.94 REMARK 500 12 THR A 67 -169.10 -126.13 REMARK 500 12 TYR A 71 77.14 -113.18 REMARK 500 13 MET A 66 89.54 -67.06 REMARK 500 13 THR A 67 -165.98 -115.02 REMARK 500 14 MET A 66 89.62 -64.19 REMARK 500 15 SER A 43 45.31 -95.04 REMARK 500 15 MET A 66 89.56 -66.67 REMARK 500 15 THR A 67 -165.34 -115.46 REMARK 500 15 TYR A 71 79.48 -110.48 REMARK 500 16 THR A 67 -163.67 -111.08 REMARK 500 16 TYR A 71 76.41 -109.40 REMARK 500 17 ASP A 61 17.13 59.10 REMARK 500 17 MET A 66 89.05 -69.13 REMARK 500 17 THR A 67 -164.21 -112.73 REMARK 500 17 ASP A 75 -37.61 -176.77 REMARK 500 18 MET A 66 90.29 -65.46 REMARK 500 REMARK 500 THIS ENTRY HAS 56 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30040 RELATED DB: BMRB DBREF 5IX9 A 1 176 UNP A1YIY2 A1YIY2_9GAMM 12 187 SEQADV 5IX9 MET A -10 UNP A1YIY2 INITIATING METHIONINE SEQADV 5IX9 SER A -9 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 ASP A -8 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 ASN A -7 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 GLN A -6 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 PHE A -5 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 PRO A -4 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 PHE A -3 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 ALA A -2 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 THR A -1 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 LEU A 0 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 ASN A 20 UNP A1YIY2 ASP 31 ENGINEERED MUTATION SEQADV 5IX9 LEU A 177 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 GLU A 178 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 179 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 180 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 181 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 182 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 183 UNP A1YIY2 EXPRESSION TAG SEQADV 5IX9 HIS A 184 UNP A1YIY2 EXPRESSION TAG SEQRES 1 A 195 MET SER ASP ASN GLN PHE PRO PHE ALA THR LEU GLY ASN SEQRES 2 A 195 ALA ILE GLY PHE ILE THR LYS LEU ASP GLY SER VAL THR SEQRES 3 A 195 VAL GLN SER ILE ASN GLY GLN GLU ARG VAL LEU LYS LEU SEQRES 4 A 195 GLY ASP PRO ILE PHE PHE GLY GLU THR VAL LEU THR GLY SEQRES 5 A 195 GLY SER GLY SER VAL THR ILE ALA PHE VAL ASP GLY THR SEQRES 6 A 195 ASP VAL VAL ILE GLY GLY ASP SER ILE VAL GLU MET THR SEQRES 7 A 195 ASP GLU ILE TYR ASN THR GLY ASP ASN GLU ASP LEU VAL SEQRES 8 A 195 ALA ASP SER SER SER GLU ILE ASP ALA LEU GLN ASN ALA SEQRES 9 A 195 ILE LEU ALA GLY ASP ASP PRO THR LEU ILE GLN ASP ALA SEQRES 10 A 195 PRO ALA ALA GLY ASN THR LEU ALA ASP GLN GLN ARG VAL SEQRES 11 A 195 ASP VAL SER ILE GLU ARG ASN ASP ASN SER ALA GLN ALA SEQRES 12 A 195 GLY PHE GLY VAL ASP THR GLN SER SER LEU PRO THR TYR SEQRES 13 A 195 GLY TYR ASP THR ASP ASN GLY ASN GLY GLY GLN ALA THR SEQRES 14 A 195 GLU ARG GLU TYR SER ALA PRO SER LEU SER ARG THR LEU SEQRES 15 A 195 ASN GLN SER PRO LEU LEU GLU HIS HIS HIS HIS HIS HIS SHEET 1 AA1 4 GLU A 23 VAL A 25 0 SHEET 2 AA1 4 ALA A 3 GLN A 17 -1 N VAL A 16 O ARG A 24 SHEET 3 AA1 4 THR A 37 PHE A 50 -1 O LEU A 39 N THR A 15 SHEET 4 AA1 4 VAL A 57 ILE A 58 -1 O ILE A 58 N VAL A 46 SHEET 1 AA2 4 PRO A 31 PHE A 33 0 SHEET 2 AA2 4 ALA A 3 GLN A 17 -1 N GLY A 5 O ILE A 32 SHEET 3 AA2 4 THR A 37 PHE A 50 -1 O LEU A 39 N THR A 15 SHEET 4 AA2 4 ILE A 63 GLU A 65 -1 O VAL A 64 N VAL A 38 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