HEADER STRUCTURAL PROTEIN 18-DEC-03 1RXL TITLE SOLUTION STRUCTURE OF THE ENGINEERED PROTEIN AFAE-DSC COMPND MOL_ID: 1; COMPND 2 MOLECULE: AFIMBRIAL ADHESIN AFA-III; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AFAE-DSC; AFA-III; AFAE-3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: AFAE3; 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: PRSETA KEYWDS AFAE, DAF, AFIMBRIAL SHEATH, DAEC, UPEC, IG-LIKE DOMAIN, DONOR STRAND KEYWDS 2 COMPLEMENTED, STRUCTURAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR K.L.ANDERSON,J.BILLINGTON,D.PETTIGREW,E.COTA,P.ROVERSI,P.SIMPSON, AUTHOR 2 H.A.CHEN,P.URVIL,L.DU MERLE,P.N.BARLOW,M.E.MEDOF,R.A.SMITH, AUTHOR 3 B.NOWICKI,C.LE BOUGUENEC,S.M.LEA,S.MATTHEWS REVDAT 5 06-NOV-24 1RXL 1 REMARK REVDAT 4 05-FEB-20 1RXL 1 REMARK REVDAT 3 08-FEB-17 1RXL 1 AUTHOR JRNL VERSN REVDAT 2 24-FEB-09 1RXL 1 VERSN REVDAT 1 11-JAN-05 1RXL 0 JRNL AUTH K.L.ANDERSON,J.BILLINGTON,D.PETTIGREW,E.COTA,P.SIMPSON, JRNL AUTH 2 P.ROVERSI,H.A.CHEN,P.URVIL,L.DU MERLE,P.N.BARLOW,M.E.MEDOF, JRNL AUTH 3 R.A.SMITH,B.NOWICKI,C.LE BOUGUENEC,S.M.LEA,S.MATTHEWS JRNL TITL AN ATOMIC RESOLUTION MODEL FOR ASSEMBLY, ARCHITECTURE, AND JRNL TITL 2 FUNCTION OF THE DR ADHESINS. JRNL REF MOL.CELL V. 15 647 2004 JRNL REFN ISSN 1097-2765 JRNL PMID 15327779 JRNL DOI 10.1016/J.MOLCEL.2004.08.003 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.1, ARIA 1.2 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), LINGE, O'DONOGHUE, REMARK 3 NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE BASED ON 4099 NOE-BASED REMARK 3 RESTRAINTS (2557 UNAMBIGUOUS, 1542 AMBIGUOUS) AND 116 TORSION REMARK 3 ANGLES (TALOS) REMARK 4 REMARK 4 1RXL COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000021121. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 0.3M REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM AFAE-DSC U-15N,13C; 50MM REMARK 210 ACETATE BUFFER PH5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.1, NMRVIEW 4.0, ARIA REMARK 210 1.2 REMARK 210 METHOD USED : ARIA-IMPLEMENTED DISTANCE REMARK 210 GEOMETRY/SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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 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 1-15 REMARK 465 RES C SSSEQI REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 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 HB2 LEU A 65 HG3 GLN A 104 1.24 REMARK 500 HZ2 LYS A 86 HB2 TRP A 92 1.35 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 2 PHE A 54 CE1 PHE A 54 CZ 0.116 REMARK 500 11 PHE A 54 CE1 PHE A 54 CZ 0.127 REMARK 500 13 PHE A 54 CE1 PHE A 54 CZ 0.134 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 LEU A 19 96.34 -65.99 REMARK 500 1 THR A 20 66.22 -102.95 REMARK 500 1 ASP A 21 -81.87 65.48 REMARK 500 1 GLN A 51 -49.33 73.13 REMARK 500 1 ASP A 73 103.45 -172.97 REMARK 500 1 ASN A 74 -32.01 -177.65 REMARK 500 1 ASP A 101 98.91 -69.23 REMARK 500 1 GLN A 103 99.52 51.98 REMARK 500 1 THR A 105 -56.23 -178.86 REMARK 500 1 ASN A 106 79.24 72.21 REMARK 500 1 PRO A 108 88.41 -21.95 REMARK 500 1 PRO A 109 -157.76 -85.16 REMARK 500 1 LYS A 123 -123.03 169.88 REMARK 500 1 ASP A 124 117.26 -166.31 REMARK 500 1 ASN A 125 -30.86 61.43 REMARK 500 1 GLN A 127 45.85 72.79 REMARK 500 2 THR A 20 70.35 -107.42 REMARK 500 2 ASP A 21 -80.07 67.61 REMARK 500 2 ALA A 22 63.69 -101.34 REMARK 500 2 CYS A 35 -70.38 -87.08 REMARK 500 2 ASN A 36 -61.83 69.25 REMARK 500 2 GLN A 51 -57.62 68.46 REMARK 500 2 ASN A 61 25.77 177.28 REMARK 500 2 SER A 75 179.71 61.18 REMARK 500 2 TRP A 92 -53.86 -126.74 REMARK 500 2 GLN A 103 97.98 57.93 REMARK 500 2 THR A 105 -3.79 74.01 REMARK 500 2 ASN A 106 86.18 63.41 REMARK 500 2 PRO A 108 89.36 -30.50 REMARK 500 2 LYS A 123 -136.01 72.17 REMARK 500 2 ASN A 125 -38.76 67.76 REMARK 500 2 GLN A 127 72.56 65.21 REMARK 500 3 THR A 20 55.42 34.25 REMARK 500 3 ASP A 21 -62.84 70.27 REMARK 500 3 ALA A 37 83.66 -167.76 REMARK 500 3 GLN A 51 -58.56 70.79 REMARK 500 3 ASP A 73 -46.84 74.21 REMARK 500 3 SER A 75 159.48 74.40 REMARK 500 3 TRP A 92 -57.13 -157.68 REMARK 500 3 ASP A 101 97.04 -66.50 REMARK 500 3 GLN A 103 118.35 67.27 REMARK 500 3 ASN A 106 91.51 41.86 REMARK 500 3 PRO A 108 83.14 -12.04 REMARK 500 3 PRO A 109 -157.46 -74.13 REMARK 500 3 LYS A 123 -143.31 74.55 REMARK 500 3 ASN A 125 -22.81 65.53 REMARK 500 3 GLN A 127 79.24 70.37 REMARK 500 4 THR A 20 60.29 -153.80 REMARK 500 4 ASP A 21 -84.76 61.28 REMARK 500 4 PRO A 27 97.89 -60.63 REMARK 500 REMARK 500 THIS ENTRY HAS 233 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 PHE A 49 0.07 SIDE CHAIN REMARK 500 4 PHE A 49 0.06 SIDE CHAIN REMARK 500 4 TYR A 85 0.05 SIDE CHAIN REMARK 500 5 TYR A 85 0.06 SIDE CHAIN REMARK 500 6 TYR A 66 0.07 SIDE CHAIN REMARK 500 11 TYR A 99 0.05 SIDE CHAIN REMARK 500 11 TYR A 112 0.08 SIDE CHAIN REMARK 500 12 PHE A 49 0.07 SIDE CHAIN REMARK 500 13 TYR A 120 0.05 SIDE CHAIN REMARK 500 15 PHE A 49 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5947 RELATED DB: BMRB REMARK 900 CHEMICAL SHIFT ASSIGNMENTS OF AFAE-DSC REMARK 900 RELATED ID: 1SDD RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF AFAE-DSC REMARK 900 RELATED ID: 1UT2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AFAE-3 TRIMER REMARK 900 RELATED ID: 1UT1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DRAE TRIMER REMARK 900 RELATED ID: 1USQ RELATED DB: PDB REMARK 900 COMPLEX OF DRAE WITH CHLORAMPHENICOL REMARK 900 RELATED ID: 1USZ RELATED DB: PDB REMARK 900 SEMET AFAE-3 ADHESIN DBREF 1RXL A 1 123 UNP Q57254 FMA3_ECOLI 38 160 SEQADV 1RXL HIS A -12 UNP Q57254 SEE REMARK 999 SEQADV 1RXL HIS A -11 UNP Q57254 SEE REMARK 999 SEQADV 1RXL HIS A -10 UNP Q57254 SEE REMARK 999 SEQADV 1RXL HIS A -9 UNP Q57254 SEE REMARK 999 SEQADV 1RXL HIS A -8 UNP Q57254 SEE REMARK 999 SEQADV 1RXL HIS A -7 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLY A -6 UNP Q57254 SEE REMARK 999 SEQADV 1RXL LEU A -5 UNP Q57254 SEE REMARK 999 SEQADV 1RXL VAL A -4 UNP Q57254 SEE REMARK 999 SEQADV 1RXL PRO A -3 UNP Q57254 SEE REMARK 999 SEQADV 1RXL ARG A -2 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLY A -1 UNP Q57254 SEE REMARK 999 SEQADV 1RXL SER A 0 UNP Q57254 SEE REMARK 999 SEQADV 1RXL ASP A 124 UNP Q57254 SEE REMARK 999 SEQADV 1RXL ASN A 125 UNP Q57254 SEE REMARK 999 SEQADV 1RXL LYS A 126 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLN A 127 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLY A 128 UNP Q57254 SEE REMARK 999 SEQADV 1RXL PHE A 129 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 130 UNP Q57254 SEE REMARK 999 SEQADV 1RXL PRO A 131 UNP Q57254 SEE REMARK 999 SEQADV 1RXL SER A 132 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLY A 133 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 134 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 135 UNP Q57254 SEE REMARK 999 SEQADV 1RXL GLY A 136 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 137 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 138 UNP Q57254 SEE REMARK 999 SEQADV 1RXL LYS A 139 UNP Q57254 SEE REMARK 999 SEQADV 1RXL LEU A 140 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 141 UNP Q57254 SEE REMARK 999 SEQADV 1RXL VAL A 142 UNP Q57254 SEE REMARK 999 SEQADV 1RXL THR A 143 UNP Q57254 SEE REMARK 999 SEQRES 1 A 156 HIS HIS HIS HIS HIS HIS GLY LEU VAL PRO ARG GLY SER SEQRES 2 A 156 GLU GLU CYS GLN VAL ARG VAL GLY ASP LEU THR VAL ALA SEQRES 3 A 156 LYS THR ARG GLY GLN LEU THR ASP ALA ALA PRO ILE GLY SEQRES 4 A 156 PRO VAL THR VAL GLN ALA LEU GLY CYS ASN ALA ARG GLN SEQRES 5 A 156 VAL ALA LEU LYS ALA ASP THR ASP ASN PHE GLU GLN GLY SEQRES 6 A 156 LYS PHE PHE LEU ILE SER ASP ASN ASN ARG ASP LYS LEU SEQRES 7 A 156 TYR VAL ASN ILE ARG PRO MET ASP ASN SER ALA TRP THR SEQRES 8 A 156 THR ASP ASN GLY VAL PHE TYR LYS ASN ASP VAL GLY SER SEQRES 9 A 156 TRP GLY GLY THR ILE GLY ILE TYR VAL ASP GLY GLN GLN SEQRES 10 A 156 THR ASN THR PRO PRO GLY ASN TYR THR LEU THR LEU THR SEQRES 11 A 156 GLY GLY TYR TRP ALA LYS ASP ASN LYS GLN GLY PHE THR SEQRES 12 A 156 PRO SER GLY THR THR GLY THR THR LYS LEU THR VAL THR SHEET 1 A 8 GLN A 4 ARG A 6 0 SHEET 2 A 8 VAL A 28 LEU A 33 -1 O GLN A 31 N ARG A 6 SHEET 3 A 8 GLY A 94 VAL A 100 -1 O ILE A 96 N VAL A 28 SHEET 4 A 8 LYS A 64 PRO A 71 -1 N ASN A 68 O TYR A 99 SHEET 5 A 8 PHE A 55 SER A 58 -1 N LEU A 56 O LEU A 65 SHEET 6 A 8 ASN A 111 TRP A 121 -1 O THR A 113 N ILE A 57 SHEET 7 A 8 PHE A 129 THR A 141 -1 O GLY A 136 N LEU A 116 SHEET 8 A 8 THR A 11 ALA A 13 1 N VAL A 12 O LYS A 139 SHEET 1 B 9 GLN A 4 ARG A 6 0 SHEET 2 B 9 VAL A 28 LEU A 33 -1 O GLN A 31 N ARG A 6 SHEET 3 B 9 GLY A 94 VAL A 100 -1 O ILE A 96 N VAL A 28 SHEET 4 B 9 LYS A 64 PRO A 71 -1 N ASN A 68 O TYR A 99 SHEET 5 B 9 PHE A 55 SER A 58 -1 N LEU A 56 O LEU A 65 SHEET 6 B 9 ASN A 111 TRP A 121 -1 O THR A 113 N ILE A 57 SHEET 7 B 9 GLN A 39 ALA A 44 -1 N LYS A 43 O THR A 117 SHEET 8 B 9 VAL A 83 LYS A 86 -1 O PHE A 84 N LEU A 42 SHEET 9 B 9 TRP A 77 THR A 79 -1 N THR A 78 O TYR A 85 SSBOND 1 CYS A 3 CYS A 35 1555 1555 2.03 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