HEADER CELL ADHESION 27-FEB-13 3ZPD TITLE SOLUTION STRUCTURE OF THE FIMH ADHESIN CARBOHYDRATE-BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIMH; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARBOHYDRATE-BINDING DOMAIN, RESIDUES 10-167; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 1206108; SOURCE 4 STRAIN: J96; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: C43; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS CELL ADHESION, BACTERIAL ADHESIN, URINARY TRACT INFECTION, KEYWDS 2 CARBOHYDRATE EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR N.A.J.VAN NULAND,S.VANWETSWINKEL,W.F.VRANKEN,L.BUTS REVDAT 3 14-JUN-23 3ZPD 1 REMARK ATOM REVDAT 2 12-MAR-14 3ZPD 1 JRNL REVDAT 1 12-FEB-14 3ZPD 0 JRNL AUTH S.VANWETSWINKEL,A.N.VOLKOV,Y.G.J.STERCKX,A.GARCIA-PINO, JRNL AUTH 2 L.BUTS,W.F.VRANKEN,J.BOUCKAERT,R.ROY,L.WYNS,N.A.J.VAN NULAND JRNL TITL STUDY OF THE STRUCTURAL AND DYNAMIC EFFECTS IN THE FIMH JRNL TITL 2 ADHESIN UPON ALPHA-D-HEPTYL MANNOSE BINDING. JRNL REF J.MED.CHEM. V. 57 1416 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 24476493 JRNL DOI 10.1021/JM401666C REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,READ, RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RECOORD PROTOCOL REMARK 4 REMARK 4 3ZPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1290055996. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0; 298.0; 298.0 REMARK 210 PH : 6.0; 6.0; 6.0 REMARK 210 IONIC STRENGTH : NULL; NULL; NULL REMARK 210 PRESSURE : 1.0 ATM; 1.0 ATM; 1.0 ATM REMARK 210 SAMPLE CONTENTS : 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : DIRECT DRIVE; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS 2.1, CING ANY, REMARK 210 NMRPIPE ANY, CYANA 1, DANGLE 1.1, REMARK 210 TALOS+ ANY, CCPNMR ANALYSIS ANY, REMARK 210 NMRDRAW ANY REMARK 210 METHOD USED : RECOORD REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST OVERALL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: NONE 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 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 H3 PHE A 1 OD1 ASP A 47 1.57 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 SER A 88 N SER A 88 CA -0.142 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 SER A 81 97.57 -160.25 REMARK 500 1 THR A 86 -177.06 -68.16 REMARK 500 1 SER A 88 -124.33 -152.05 REMARK 500 1 GLU A 89 -169.15 -126.90 REMARK 500 1 ASN A 96 45.25 -97.72 REMARK 500 1 ARG A 98 64.02 -102.22 REMARK 500 1 VAL A 112 -117.68 -67.74 REMARK 500 1 SER A 114 30.35 -78.73 REMARK 500 1 VAL A 118 105.80 -54.51 REMARK 500 1 TYR A 137 -67.58 -97.81 REMARK 500 2 PRO A 49 3.56 -69.97 REMARK 500 2 SER A 72 119.88 -160.88 REMARK 500 2 THR A 87 -39.09 -131.74 REMARK 500 2 SER A 88 -69.45 -102.29 REMARK 500 2 GLU A 89 -176.20 -178.58 REMARK 500 2 ASN A 96 55.05 -117.73 REMARK 500 2 ARG A 98 55.58 -142.93 REMARK 500 2 VAL A 112 -155.45 -84.56 REMARK 500 2 SER A 114 30.02 -84.13 REMARK 500 2 VAL A 118 98.72 -60.56 REMARK 500 2 SER A 139 32.30 -96.37 REMARK 500 3 THR A 87 -35.87 -131.77 REMARK 500 3 SER A 88 -162.21 -110.10 REMARK 500 3 ASN A 96 55.12 -92.29 REMARK 500 3 ARG A 98 63.70 -104.51 REMARK 500 3 THR A 99 -179.50 -170.41 REMARK 500 3 VAL A 112 -116.43 -68.46 REMARK 500 3 VAL A 118 96.62 -59.24 REMARK 500 4 THR A 86 -178.59 -62.81 REMARK 500 4 SER A 88 -80.04 -133.21 REMARK 500 4 GLU A 89 -170.44 179.85 REMARK 500 4 ARG A 98 30.18 -144.74 REMARK 500 4 VAL A 112 -115.05 -69.53 REMARK 500 4 SER A 114 31.18 -86.10 REMARK 500 4 VAL A 118 94.48 -58.67 REMARK 500 4 TYR A 137 -61.41 -98.51 REMARK 500 4 SER A 139 40.78 -88.25 REMARK 500 5 GLN A 32 -177.38 -65.98 REMARK 500 5 THR A 86 -178.00 -58.36 REMARK 500 5 SER A 88 -82.47 -141.95 REMARK 500 5 GLU A 89 -172.87 -170.89 REMARK 500 5 ARG A 98 34.76 -163.23 REMARK 500 5 VAL A 112 -123.08 -70.30 REMARK 500 5 ASN A 135 -168.71 -128.53 REMARK 500 5 TYR A 137 -68.13 -122.16 REMARK 500 5 ASP A 140 45.51 -94.85 REMARK 500 6 SER A 72 134.21 -179.95 REMARK 500 6 SER A 81 107.45 -167.30 REMARK 500 6 THR A 86 -177.03 -66.84 REMARK 500 6 THR A 87 -46.23 -130.19 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 6 ARG A 92 0.08 SIDE CHAIN REMARK 500 20 ARG A 92 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19066 RELATED DB: BMRB DBREF 3ZPD A 1 158 UNP A2IC68 A2IC68_ECOLX 10 167 SEQRES 1 A 158 PHE ALA CYS LYS THR ALA ASN GLY THR ALA ILE PRO ILE SEQRES 2 A 158 GLY GLY GLY SER ALA ASN VAL TYR VAL ASN LEU ALA PRO SEQRES 3 A 158 VAL VAL ASN VAL GLY GLN ASN LEU VAL VAL ASP LEU SER SEQRES 4 A 158 THR GLN ILE PHE CYS HIS ASN ASP TYR PRO GLU THR ILE SEQRES 5 A 158 THR ASP TYR VAL THR LEU GLN ARG GLY SER ALA TYR GLY SEQRES 6 A 158 GLY VAL LEU SER ASN PHE SER GLY THR VAL LYS TYR SER SEQRES 7 A 158 GLY SER SER TYR PRO PHE PRO THR THR SER GLU THR PRO SEQRES 8 A 158 ARG VAL VAL TYR ASN SER ARG THR ASP LYS PRO TRP PRO SEQRES 9 A 158 VAL ALA LEU TYR LEU THR PRO VAL SER SER ALA GLY GLY SEQRES 10 A 158 VAL ALA ILE LYS ALA GLY SER LEU ILE ALA VAL LEU ILE SEQRES 11 A 158 LEU ARG GLN THR ASN ASN TYR ASN SER ASP ASP PHE GLN SEQRES 12 A 158 PHE VAL TRP ASN ILE TYR ALA ASN ASN ASP VAL VAL VAL SEQRES 13 A 158 PRO THR SHEET 1 AA 4 ALA A 10 ILE A 11 0 SHEET 2 AA 4 ALA A 2 THR A 5 -1 O CYS A 3 N ILE A 11 SHEET 3 AA 4 ILE A 42 HIS A 45 -1 O PHE A 43 N LYS A 4 SHEET 4 AA 4 LYS A 101 PRO A 102 -1 O LYS A 101 N CYS A 44 SHEET 1 AB 5 GLY A 16 VAL A 22 0 SHEET 2 AB 5 GLN A 143 ALA A 150 1 O GLN A 143 N GLY A 16 SHEET 3 AB 5 LEU A 125 GLN A 133 -1 N ILE A 126 O ILE A 148 SHEET 4 AB 5 TYR A 55 ALA A 63 -1 O THR A 57 N ARG A 132 SHEET 5 AB 5 VAL A 93 VAL A 94 -1 O VAL A 93 N VAL A 56 SHEET 1 AC 3 VAL A 36 ASP A 37 0 SHEET 2 AC 3 VAL A 105 PRO A 111 -1 O LEU A 107 N VAL A 36 SHEET 3 AC 3 PHE A 71 TYR A 77 -1 O SER A 72 N THR A 110 SHEET 1 AD 2 GLY A 117 ILE A 120 0 SHEET 2 AD 2 VAL A 154 VAL A 156 -1 O VAL A 154 N ALA A 119 SSBOND 1 CYS A 3 CYS A 44 1555 1555 2.05 CISPEP 1 PHE A 84 PRO A 85 1 -2.33 CISPEP 2 PHE A 84 PRO A 85 2 -2.31 CISPEP 3 PHE A 84 PRO A 85 3 -3.26 CISPEP 4 PHE A 84 PRO A 85 4 -0.79 CISPEP 5 PHE A 84 PRO A 85 5 -1.60 CISPEP 6 PHE A 84 PRO A 85 6 -0.90 CISPEP 7 PHE A 84 PRO A 85 7 -1.49 CISPEP 8 PHE A 84 PRO A 85 8 -3.32 CISPEP 9 PHE A 84 PRO A 85 9 0.21 CISPEP 10 PHE A 84 PRO A 85 10 -1.53 CISPEP 11 PHE A 84 PRO A 85 11 -2.44 CISPEP 12 PHE A 84 PRO A 85 12 -1.49 CISPEP 13 PHE A 84 PRO A 85 13 -2.50 CISPEP 14 PHE A 84 PRO A 85 14 -4.85 CISPEP 15 PHE A 84 PRO A 85 15 -1.34 CISPEP 16 PHE A 84 PRO A 85 16 -0.96 CISPEP 17 PHE A 84 PRO A 85 17 -2.03 CISPEP 18 PHE A 84 PRO A 85 18 -3.69 CISPEP 19 PHE A 84 PRO A 85 19 -0.87 CISPEP 20 PHE A 84 PRO A 85 20 -1.30 CISPEP 21 PHE A 84 PRO A 85 21 -0.39 CISPEP 22 PHE A 84 PRO A 85 22 -1.86 CISPEP 23 PHE A 84 PRO A 85 23 -0.84 CISPEP 24 PHE A 84 PRO A 85 24 -1.37 CISPEP 25 PHE A 84 PRO A 85 25 -1.21 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