HEADER CELL ADHESION 10-JAN-05 1YHP TITLE SOLUTION STRUCTURE OF CA2+-FREE DDCAD-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCIUM-DEPENDENT CELL ADHESION MOLECULE-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DDCAD-1, GP24; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICTYOSTELIUM DISCOIDEUM; SOURCE 3 ORGANISM_TAXID: 44689; SOURCE 4 GENE: CADA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-M KEYWDS DDCAD-1, CELL ADHESION, CALCIUM EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR Z.LIN,H.B.HUANG,C.H.SIU,D.W.YANG REVDAT 6 29-MAY-24 1YHP 1 REMARK REVDAT 5 02-MAR-22 1YHP 1 REMARK REVDAT 4 24-FEB-09 1YHP 1 VERSN REVDAT 3 01-JAN-08 1YHP 1 JRNL REVDAT 2 24-OCT-06 1YHP 1 JRNL REMARK REVDAT 1 31-JAN-06 1YHP 0 JRNL AUTH Z.LIN,S.SRISKANTHADEVAN,H.B.HUANG,C.H.SIU,D.W.YANG JRNL TITL SOLUTION STRUCTURES OF THE ADHESION MOLECULE DDCAD-1 REVEAL JRNL TITL 2 NEW INSIGHTS INTO CA(2+)-DEPENDENT CELL-CELL ADHESION JRNL REF NAT.STRUCT.MOL.BIOL. V. 13 1016 2006 JRNL REFN ISSN 1545-9993 JRNL PMID 17057715 JRNL DOI 10.1038/NSMB1162 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Z.LIN,H.B.HUANG,C.H.SIU,D.W.YANG REMARK 1 TITL (1)H, (13)C AND (15)N RESONANCE ASSIGNMENTS OF CA(2+)-FREE REMARK 1 TITL 2 DDCAD-1: A CA(2+)-DEPENDENT CELL-CELL ADHESION MOLECULE REMARK 1 REF J.BIOMOL.NMR V. 30 375 2004 REMARK 1 REFN ISSN 0925-2738 REMARK 1 PMID 15756470 REMARK 1 DOI 10.1007/S10858-005-2336-5 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 1.0.5, CYANA 1.0.5 REMARK 3 AUTHORS : PETER GUNTERT (CYANA), PETER GUNTERT (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 4847 RESTRAINTS, 4481 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 212 REMARK 3 DIHEDRAL ANGLE RESTRAINTS,154 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS REMARK 4 REMARK 4 1YHP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031523. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 10MM PIPES, 0.05MM SODIUM AZIDE REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.8MM DDCAD-1 U-15N, 13C; 10MM REMARK 210 PIPES BUFFER; 1MM EGTA, 1MM DTT, REMARK 210 0.05MM SODIUM AZIDE, 90% H2O, 10% REMARK 210 D2O; 0.8MM DDCAD-1 U-15N, 13C; REMARK 210 10MM PIPES BUFFER; 1MM EGTA, 1MM REMARK 210 DTT, 0.05MM SODIUM AZIDE, 99% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; REMARK 210 4D_13C/15N-SEPARATED_NOESY; 4D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 1, NMRVIEW 5.04 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 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: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 2 TYR A 115 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 9 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES 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 PHE A 12 48.73 -93.78 REMARK 500 1 ASN A 15 40.14 72.56 REMARK 500 1 MET A 42 -31.46 -149.65 REMARK 500 1 SER A 48 -25.68 -168.17 REMARK 500 1 ILE A 60 51.31 -147.68 REMARK 500 1 ASP A 61 -31.64 -177.48 REMARK 500 1 SER A 75 169.33 179.37 REMARK 500 1 LEU A 80 26.04 -140.30 REMARK 500 1 ASN A 84 39.97 82.29 REMARK 500 1 SER A 87 -35.96 -144.58 REMARK 500 1 PRO A 93 32.00 -78.95 REMARK 500 1 ASN A 106 103.08 -58.96 REMARK 500 1 VAL A 108 -35.78 -143.82 REMARK 500 1 ALA A 112 -44.38 69.93 REMARK 500 1 TYR A 122 98.96 -33.90 REMARK 500 1 GLN A 123 51.12 39.68 REMARK 500 1 ASP A 134 55.16 -95.56 REMARK 500 1 PHE A 135 93.10 60.33 REMARK 500 1 LEU A 143 -175.42 55.21 REMARK 500 1 ASN A 168 76.52 -150.12 REMARK 500 1 THR A 178 -40.22 -130.08 REMARK 500 1 THR A 179 30.03 -149.22 REMARK 500 1 THR A 190 -43.14 -145.12 REMARK 500 1 ASN A 194 -32.41 -148.31 REMARK 500 1 THR A 203 12.68 53.66 REMARK 500 1 GLU A 212 57.44 -150.48 REMARK 500 2 PHE A 12 43.12 -78.17 REMARK 500 2 ASN A 33 2.23 -67.61 REMARK 500 2 PHE A 41 31.19 -67.00 REMARK 500 2 SER A 48 -22.63 -156.47 REMARK 500 2 GLU A 56 -63.02 -95.27 REMARK 500 2 ILE A 60 45.72 -142.40 REMARK 500 2 ASP A 61 -26.00 -169.82 REMARK 500 2 SER A 87 -63.77 -125.25 REMARK 500 2 SER A 110 -42.82 65.72 REMARK 500 2 ALA A 112 176.11 50.69 REMARK 500 2 SER A 114 30.58 -140.78 REMARK 500 2 TYR A 122 106.43 -42.46 REMARK 500 2 ASP A 125 109.67 -55.23 REMARK 500 2 ASP A 131 108.36 -51.94 REMARK 500 2 PHE A 135 90.49 63.37 REMARK 500 2 ASP A 147 0.09 -69.60 REMARK 500 2 THR A 161 133.77 -39.79 REMARK 500 2 THR A 179 28.52 -156.28 REMARK 500 2 THR A 190 -47.54 -142.91 REMARK 500 2 PRO A 192 -96.87 -78.36 REMARK 500 2 LYS A 193 -36.36 -179.68 REMARK 500 3 MET A 42 -73.76 -62.45 REMARK 500 3 SER A 48 -21.86 -166.95 REMARK 500 3 SER A 75 158.36 176.05 REMARK 500 REMARK 500 THIS ENTRY HAS 204 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 3 TYR A 23 0.07 SIDE CHAIN REMARK 500 9 TYR A 23 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6159 RELATED DB: BMRB REMARK 900 1H, 13C AND 15N RESONANCE ASSIGNMENTS OF CA2+-FREE DDCAD-1 DBREF 1YHP A 2 213 UNP P54657 CAD1_DICDI 2 213 SEQRES 1 A 212 SER VAL ASP ALA ASN LYS VAL LYS PHE PHE PHE GLY LYS SEQRES 2 A 212 ASN CYS THR GLY GLU SER PHE GLU TYR ASN LYS GLY GLU SEQRES 3 A 212 THR VAL ARG PHE ASN ASN GLY ASP LYS TRP ASN ASP LYS SEQRES 4 A 212 PHE MET SER CYS LEU VAL GLY SER ASN VAL ARG CYS ASN SEQRES 5 A 212 ILE TRP GLU HIS ASN GLU ILE ASP THR PRO THR PRO GLY SEQRES 6 A 212 LYS PHE GLN GLU LEU ALA GLN GLY SER THR ASN ASN ASP SEQRES 7 A 212 LEU THR SER ILE ASN GLY LEU SER LYS PHE GLN VAL LEU SEQRES 8 A 212 PRO GLY ALA PHE GLN TRP ALA VAL ASP VAL LYS ILE VAL SEQRES 9 A 212 ASN LYS VAL ASN SER THR ALA GLY SER TYR GLU MET THR SEQRES 10 A 212 ILE THR PRO TYR GLN VAL ASP LYS VAL ALA CYS LYS ASP SEQRES 11 A 212 GLY ASP ASP PHE VAL GLN LEU PRO ILE PRO LYS LEU THR SEQRES 12 A 212 PRO PRO ASP SER GLU ILE VAL SER HIS LEU THR VAL ARG SEQRES 13 A 212 GLN THR HIS THR PRO TYR ASP TYR VAL VAL ASN GLY SER SEQRES 14 A 212 VAL TYR PHE LYS TYR SER PRO THR THR GLY GLN VAL THR SEQRES 15 A 212 VAL ILE LYS LYS ASP GLU THR PHE PRO LYS ASN MET THR SEQRES 16 A 212 VAL THR GLN ASP ASP ASN THR SER PHE ILE PHE ASN LEU SEQRES 17 A 212 ASN SER GLU LYS HELIX 1 1 ASP A 35 LYS A 40 1 6 HELIX 2 2 LEU A 80 ASN A 84 5 5 SHEET 1 A 4 SER A 20 TYR A 23 0 SHEET 2 A 4 VAL A 8 PHE A 11 -1 N VAL A 8 O TYR A 23 SHEET 3 A 4 SER A 43 VAL A 46 -1 O LEU A 45 N LYS A 9 SHEET 4 A 4 SER A 75 ASN A 77 -1 O ASN A 77 N CYS A 44 SHEET 1 B 4 GLU A 27 ARG A 30 0 SHEET 2 B 4 LYS A 88 LEU A 92 -1 O VAL A 91 N GLU A 27 SHEET 3 B 4 ARG A 51 TRP A 55 -1 N TRP A 55 O LYS A 88 SHEET 4 B 4 PHE A 68 LEU A 71 -1 O GLN A 69 N ILE A 54 SHEET 1 C 4 VAL A 136 ILE A 140 0 SHEET 2 C 4 TRP A 98 ASN A 106 -1 N VAL A 100 O LEU A 138 SHEET 3 C 4 SER A 204 LEU A 209 1 O PHE A 207 N LYS A 103 SHEET 4 C 4 MET A 195 ASP A 201 -1 N THR A 196 O ASN A 208 SHEET 1 D 5 VAL A 127 LYS A 130 0 SHEET 2 D 5 TYR A 115 PRO A 121 -1 N MET A 117 O CYS A 129 SHEET 3 D 5 ILE A 150 GLN A 158 -1 O THR A 155 N THR A 118 SHEET 4 D 5 TYR A 165 SER A 176 -1 O GLY A 169 N LEU A 154 SHEET 5 D 5 GLN A 181 ILE A 185 -1 O GLN A 181 N SER A 176 CISPEP 1 THR A 144 PRO A 145 1 -9.83 CISPEP 2 THR A 161 PRO A 162 1 5.50 CISPEP 3 THR A 144 PRO A 145 2 -6.85 CISPEP 4 THR A 161 PRO A 162 2 3.84 CISPEP 5 THR A 144 PRO A 145 3 -6.47 CISPEP 6 THR A 161 PRO A 162 3 -7.36 CISPEP 7 THR A 144 PRO A 145 4 -5.76 CISPEP 8 THR A 161 PRO A 162 4 3.80 CISPEP 9 THR A 144 PRO A 145 5 -4.63 CISPEP 10 THR A 161 PRO A 162 5 -9.03 CISPEP 11 THR A 144 PRO A 145 6 -3.53 CISPEP 12 THR A 161 PRO A 162 6 -9.57 CISPEP 13 THR A 144 PRO A 145 7 -7.58 CISPEP 14 THR A 161 PRO A 162 7 3.86 CISPEP 15 THR A 144 PRO A 145 8 -7.45 CISPEP 16 THR A 161 PRO A 162 8 -5.04 CISPEP 17 THR A 144 PRO A 145 9 -5.94 CISPEP 18 THR A 161 PRO A 162 9 1.02 CISPEP 19 THR A 144 PRO A 145 10 -5.61 CISPEP 20 THR A 161 PRO A 162 10 2.90 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