HEADER CELL ADHESION 11-JAN-21 7BHD TITLE FIMH IN COMPLEX WITH ALPHA1,6 CORE-FUCOSYLATED OLIGOMANNOSE-3, TITLE 2 CRYSTALLIZED IN THE TRIGONAL SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE 1 FIMBRIN D-MANNOSE SPECIFIC ADHESIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTEIN FIMH; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: FIMH, B4320, JW4283; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS ADHESIN, FIMH, CORE FUCOSE, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR C.BRIDOT,J.BOUCKAERT,E.-M.KRAMMER REVDAT 3 07-FEB-24 7BHD 1 REMARK REVDAT 2 10-MAY-23 7BHD 1 JRNL REVDAT 1 20-JUL-22 7BHD 0 JRNL AUTH E.M.KRAMMER,C.BRIDOT,S.SERNA,B.ECHEVERRIA,S.SEMWAL, JRNL AUTH 2 B.ROUBINET,K.VAN NOORT,R.H.P.WILBERS,G.BOURENKOV,J.DE RUYCK, JRNL AUTH 3 L.LANDEMARRE,N.REICHARDT,J.BOUCKAERT JRNL TITL STRUCTURAL INSIGHTS INTO A COOPERATIVE SWITCH BETWEEN ONE JRNL TITL 2 AND TWO FIMH BACTERIAL ADHESINS BINDING PAUCI- AND JRNL TITL 3 HIGH-MANNOSE TYPE N-GLYCAN RECEPTORS. JRNL REF J.BIOL.CHEM. V. 299 04627 2023 JRNL REFN ESSN 1083-351X JRNL PMID 36944399 JRNL DOI 10.1016/J.JBC.2023.104627 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.WELLENS,C.GAROFALO,H.NGUYEN,N.VAN GERVEN,R.SLATTEGARD, REMARK 1 AUTH 2 J.P.HERNALSTEENS,L.WYNS,S.OSCARSON,H.DE GREVE,S.HULTGREN, REMARK 1 AUTH 3 J.BOUCKAERT REMARK 1 TITL INTERVENING WITH URINARY TRACT INFECTIONS USING REMARK 1 TITL 2 ANTI-ADHESIVES BASED ON THE CRYSTAL STRUCTURE OF THE REMARK 1 TITL 3 FIMH-OLIGOMANNOSE-3 COMPLEX. REMARK 1 REF PLOS ONE V. 3 E2040 2008 REMARK 1 REFN ESSN 1932-6203 REMARK 1 PMID 18446213 REMARK 1 DOI 10.1371/JOURNAL.PONE.0002040 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.TOUAIBIA,E.M.KRAMMER,T.C.SHIAO,N.YAMAKAWA,Q.WANG, REMARK 1 AUTH 2 A.GLINSCHERT,A.PAPADOPOULOS,L.MOUSAVIFAR,E.MAES,S.OSCARSON, REMARK 1 AUTH 3 G.VERGOTEN,M.F.LENSINK,R.ROY,J.BOUCKAERT REMARK 1 TITL SITES FOR DYNAMIC PROTEIN-CARBOHYDRATE INTERACTIONS OF O- REMARK 1 TITL 2 AND C-LINKED MANNOSIDES ON THE E. COLI FIMH ADHESIN. REMARK 1 REF MOLECULES V. 22 2017 REMARK 1 REFN ESSN 1420-3049 REMARK 1 DOI 10.3390/MOLECULES22071101 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.DUMYCH,C.BRIDOT,S.G.GOUIN,M.F.LENSINK,S.PARYZHAK, REMARK 1 AUTH 2 S.SZUNERITS,R.BLOSSEY,R.BILYY,J.BOUCKAERT,E.M.KRAMMER REMARK 1 TITL A NOVEL INTEGRATED WAY FOR DECIPHERING THE GLYCAN CODE FOR REMARK 1 TITL 2 THE FIMH LECTIN. REMARK 1 REF MOLECULES V. 23 2018 REMARK 1 REFN ESSN 1420-3049 REMARK 1 DOI 10.3390/MOLECULES23112794 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 69952 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.650 REMARK 3 FREE R VALUE TEST SET COUNT : 1853 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 78.9900 - 3.2900 1.00 5914 165 0.1433 0.1786 REMARK 3 2 3.2900 - 2.6100 1.00 5744 152 0.1682 0.1822 REMARK 3 3 2.6100 - 2.2800 1.00 5707 151 0.1796 0.1928 REMARK 3 4 2.2800 - 2.0700 1.00 5687 154 0.1742 0.1810 REMARK 3 5 2.0700 - 1.9200 1.00 5646 154 0.1649 0.2204 REMARK 3 6 1.9200 - 1.8100 0.99 5585 150 0.2076 0.2413 REMARK 3 7 1.8100 - 1.7200 0.97 5515 147 0.2012 0.2330 REMARK 3 8 1.7200 - 1.6400 0.95 5394 151 0.2021 0.2674 REMARK 3 9 1.6400 - 1.5800 0.92 5158 142 0.2031 0.2218 REMARK 3 10 1.5800 - 1.5300 0.87 4939 132 0.2353 0.2438 REMARK 3 11 1.5300 - 1.4800 0.82 4611 129 0.2878 0.3582 REMARK 3 12 1.4800 - 1.4400 0.77 4346 125 0.3459 0.4025 REMARK 3 13 1.4400 - 1.4000 0.69 3853 101 0.4175 0.4689 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.218 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.064 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.024 2651 REMARK 3 ANGLE : 2.045 3651 REMARK 3 CHIRALITY : 0.118 455 REMARK 3 PLANARITY : 0.013 447 REMARK 3 DIHEDRAL : 13.885 465 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -33.6803 -22.7769 -5.9485 REMARK 3 T TENSOR REMARK 3 T11: 0.1947 T22: 0.1263 REMARK 3 T33: 0.1923 T12: -0.0112 REMARK 3 T13: 0.0008 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 1.1256 L22: 0.4637 REMARK 3 L33: 1.7032 L12: -0.3009 REMARK 3 L13: -0.3267 L23: 0.3573 REMARK 3 S TENSOR REMARK 3 S11: 0.0647 S12: 0.0548 S13: 0.1614 REMARK 3 S21: -0.0200 S22: -0.0320 S23: -0.0990 REMARK 3 S31: -0.0092 S32: 0.0097 S33: -0.0257 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 1 through 43 or REMARK 3 resid 45 through 158 or resid 200 through REMARK 3 303 or resid 306)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 1 through 43 or REMARK 3 resid 45 through 158 or resid 200 through REMARK 3 303 or resid 306)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7BHD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1292112158. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75457 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 78.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 19.15 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 15.57 REMARK 200 R MERGE FOR SHELL (I) : 4.19200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.420 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2VCO REMARK 200 REMARK 200 REMARK: DIAMOND-SHAPED REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1,1M LITHIUM SULFATE, 0,1M TRIS-HCL REMARK 280 PH=9, 0,01M NICKEL CHLORIDE, PH 9, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 26.55333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 53.10667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 53.10667 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.55333 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 354 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 405 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OE1 GLU A 50 HH22 ARG A 98 1.42 REMARK 500 O HOH B 507 O HOH B 513 2.01 REMARK 500 O6 NAG D 1 O5 FUC D 6 2.06 REMARK 500 OG SER A 113 O3 SO4 A 202 2.07 REMARK 500 O1 SO4 A 202 O HOH A 302 2.08 REMARK 500 O6 BMA C 3 O5 MAN C 5 2.12 REMARK 500 OE1 GLU A 50 NH2 ARG A 98 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 HZ2 LYS B 4 O4 SO4 A 203 3444 1.53 REMARK 500 NZ LYS B 4 O4 SO4 A 203 3444 2.14 REMARK 500 O HOH A 322 O HOH A 564 2455 2.17 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 GLU A 50 CG GLU A 50 CD 0.091 REMARK 500 LYS B 121 CB LYS B 121 CG -0.318 REMARK 500 LYS B 121 CG LYS B 121 CD 0.256 REMARK 500 LYS B 121 CD LYS B 121 CE -0.648 REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 44 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 PHE A 84 CB - CG - CD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 LYS B 76 CA - CB - CG ANGL. DEV. = 28.0 DEGREES REMARK 500 LYS B 76 CB - CG - CD ANGL. DEV. = 43.3 DEGREES REMARK 500 LYS B 76 CG - CD - CE ANGL. DEV. = -25.9 DEGREES REMARK 500 LYS B 121 CB - CA - C ANGL. DEV. = -32.7 DEGREES REMARK 500 LYS B 121 CA - CB - CG ANGL. DEV. = 30.6 DEGREES REMARK 500 LYS B 121 N - CA - C ANGL. DEV. = -25.6 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 ASN A 96 28.59 -141.51 REMARK 500 TYR A 137 -47.70 -131.93 REMARK 500 ASN B 7 54.94 27.50 REMARK 500 ASN B 96 26.05 -145.56 REMARK 500 TYR B 137 -45.01 -133.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN B 7 GLY B 8 -145.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 560 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 562 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A 563 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH A 564 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH A 565 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A 566 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 567 DISTANCE = 8.56 ANGSTROMS REMARK 525 HOH A 568 DISTANCE = 8.64 ANGSTROMS REMARK 525 HOH B 503 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH B 505 DISTANCE = 6.68 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 45 NE2 REMARK 620 2 ASP A 47 OD1 94.7 REMARK 620 3 HOH A 339 O 92.8 91.5 REMARK 620 4 HOH A 357 O 94.5 89.0 172.6 REMARK 620 5 HOH A 398 O 178.3 87.0 87.1 85.5 REMARK 620 6 HOH A 478 O 103.0 154.7 70.0 107.2 75.4 REMARK 620 7 HOH B 496 O 86.0 166.0 102.5 77.0 92.4 36.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 45 NE2 REMARK 620 2 ASP B 47 OD1 104.5 REMARK 620 3 HOH B 323 O 174.6 80.7 REMARK 620 4 HOH B 331 O 90.5 89.2 88.0 REMARK 620 5 HOH B 408 O 96.6 89.8 84.7 172.8 REMARK 620 6 HOH B 439 O 87.5 166.3 87.2 83.9 95.6 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VCO RELATED DB: PDB REMARK 900 2VCO CONTAINS NONE-CORE FUCOSYLATED GLYCAN AS THE LIGAND DBREF 7BHD A 1 158 UNP P08191 FIMH_ECOLI 22 179 DBREF 7BHD B 1 158 UNP P08191 FIMH_ECOLI 22 179 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 SEQRES 1 B 158 PHE ALA CYS LYS THR ALA ASN GLY THR ALA ILE PRO ILE SEQRES 2 B 158 GLY GLY GLY SER ALA ASN VAL TYR VAL ASN LEU ALA PRO SEQRES 3 B 158 VAL VAL ASN VAL GLY GLN ASN LEU VAL VAL ASP LEU SER SEQRES 4 B 158 THR GLN ILE PHE CYS HIS ASN ASP TYR PRO GLU THR ILE SEQRES 5 B 158 THR ASP TYR VAL THR LEU GLN ARG GLY SER ALA TYR GLY SEQRES 6 B 158 GLY VAL LEU SER ASN PHE SER GLY THR VAL LYS TYR SER SEQRES 7 B 158 GLY SER SER TYR PRO PHE PRO THR THR SER GLU THR PRO SEQRES 8 B 158 ARG VAL VAL TYR ASN SER ARG THR ASP LYS PRO TRP PRO SEQRES 9 B 158 VAL ALA LEU TYR LEU THR PRO VAL SER SER ALA GLY GLY SEQRES 10 B 158 VAL ALA ILE LYS ALA GLY SER LEU ILE ALA VAL LEU ILE SEQRES 11 B 158 LEU ARG GLN THR ASN ASN TYR ASN SER ASP ASP PHE GLN SEQRES 12 B 158 PHE VAL TRP ASN ILE TYR ALA ASN ASN ASP VAL VAL VAL SEQRES 13 B 158 PRO THR HET NAG C 1 52 HET NAG C 2 26 HET BMA C 3 11 HET MAN C 4 17 HET MAN C 5 17 HET FUC C 6 20 HET NAG D 1 26 HET NAG D 2 26 HET BMA D 3 11 HET MAN D 4 17 HET MAN D 5 17 HET FUC D 6 10 HET NI A 201 1 HET SO4 A 202 5 HET SO4 A 203 5 HET NI B 201 1 HET SO4 B 202 5 HET SO4 B 203 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM NI NICKEL (II) ION HETNAM SO4 SULFATE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 3 NAG 4(C8 H15 N O6) FORMUL 3 BMA 2(C6 H12 O6) FORMUL 3 MAN 4(C6 H12 O6) FORMUL 3 FUC 2(C6 H12 O5) FORMUL 5 NI 2(NI 2+) FORMUL 6 SO4 4(O4 S 2-) FORMUL 11 HOH *483(H2 O) HELIX 1 AA1 TYR A 64 ASN A 70 1 7 HELIX 2 AA2 TYR B 64 ASN B 70 1 7 SHEET 1 AA1 4 ALA A 10 ILE A 11 0 SHEET 2 AA1 4 ALA A 2 THR A 5 -1 N CYS A 3 O ILE A 11 SHEET 3 AA1 4 ILE A 42 HIS A 45 -1 O PHE A 43 N LYS A 4 SHEET 4 AA1 4 LYS A 101 PRO A 102 -1 O LYS A 101 N CYS A 44 SHEET 1 AA2 5 GLY A 16 VAL A 22 0 SHEET 2 AA2 5 PHE A 142 ALA A 150 1 O ASN A 147 N VAL A 20 SHEET 3 AA2 5 LEU A 125 ASN A 135 -1 N ILE A 126 O ILE A 148 SHEET 4 AA2 5 ASP A 54 ALA A 63 -1 N ARG A 60 O ILE A 130 SHEET 5 AA2 5 VAL A 93 TYR A 95 -1 O TYR A 95 N ASP A 54 SHEET 1 AA3 4 LEU A 34 ASP A 37 0 SHEET 2 AA3 4 VAL A 105 PRO A 111 -1 O LEU A 109 N LEU A 34 SHEET 3 AA3 4 PHE A 71 TYR A 77 -1 N THR A 74 O TYR A 108 SHEET 4 AA3 4 SER A 80 PHE A 84 -1 O SER A 80 N TYR A 77 SHEET 1 AA4 2 GLY A 117 ILE A 120 0 SHEET 2 AA4 2 VAL A 154 VAL A 156 -1 O VAL A 156 N GLY A 117 SHEET 1 AA5 4 ALA B 10 ILE B 11 0 SHEET 2 AA5 4 ALA B 2 THR B 5 -1 N CYS B 3 O ILE B 11 SHEET 3 AA5 4 ILE B 42 HIS B 45 -1 O PHE B 43 N LYS B 4 SHEET 4 AA5 4 LYS B 101 PRO B 102 -1 O LYS B 101 N CYS B 44 SHEET 1 AA6 5 GLY B 16 VAL B 22 0 SHEET 2 AA6 5 PHE B 142 ALA B 150 1 O TYR B 149 N VAL B 20 SHEET 3 AA6 5 LEU B 125 ASN B 135 -1 N ILE B 126 O ILE B 148 SHEET 4 AA6 5 ASP B 54 ALA B 63 -1 N ARG B 60 O ILE B 130 SHEET 5 AA6 5 VAL B 93 TYR B 95 -1 O TYR B 95 N ASP B 54 SHEET 1 AA7 4 LEU B 34 ASP B 37 0 SHEET 2 AA7 4 VAL B 105 PRO B 111 -1 O LEU B 109 N LEU B 34 SHEET 3 AA7 4 PHE B 71 TYR B 77 -1 N THR B 74 O TYR B 108 SHEET 4 AA7 4 SER B 80 PHE B 84 -1 O TYR B 82 N VAL B 75 SHEET 1 AA8 2 GLY B 117 ILE B 120 0 SHEET 2 AA8 2 VAL B 154 VAL B 156 -1 O VAL B 156 N GLY B 117 SSBOND 1 CYS A 3 CYS A 44 1555 1555 2.13 SSBOND 2 CYS B 3 CYS B 44 1555 1555 2.12 LINK O4 ANAG C 1 C1 NAG C 2 1555 1555 1.50 LINK O4 BNAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O6 ANAG C 1 C1 AFUC C 6 1555 1555 1.50 LINK O6 BNAG C 1 C1 BFUC C 6 1555 1555 1.51 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.38 LINK O3 BMA C 3 C1 MAN C 4 1555 1555 1.36 LINK O6 BMA C 3 C1 MAN C 5 1555 1555 1.49 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.52 LINK O6 NAG D 1 C1 FUC D 6 1555 1555 1.53 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.37 LINK O3 BMA D 3 C1 MAN D 4 1555 1555 1.42 LINK O6 BMA D 3 C1 MAN D 5 1555 1555 1.43 LINK NE2 HIS A 45 NI NI A 201 1555 1555 2.08 LINK OD1 ASP A 47 NI NI A 201 1555 1555 2.05 LINK NI NI A 201 O HOH A 339 1555 1555 1.98 LINK NI NI A 201 O HOH A 357 1555 1555 1.90 LINK NI NI A 201 O HOH A 398 1555 1555 2.12 LINK NI NI A 201 O HOH A 478 1555 1555 2.28 LINK NI NI A 201 O HOH B 496 1555 3445 2.12 LINK NE2 HIS B 45 NI NI B 201 1555 1555 2.10 LINK OD1 ASP B 47 NI NI B 201 1555 1555 1.93 LINK NI NI B 201 O HOH B 323 1555 1555 2.17 LINK NI NI B 201 O HOH B 331 1555 1555 2.03 LINK NI NI B 201 O HOH B 408 1555 1555 2.28 LINK NI NI B 201 O HOH B 439 1555 1555 2.51 CISPEP 1 PHE A 84 PRO A 85 0 -1.64 CISPEP 2 PHE B 84 PRO B 85 0 -3.85 CRYST1 91.210 91.210 79.660 90.00 90.00 120.00 P 31 2 1 12 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 0.010964 0.006330 0.000000 0.00000 SCALE2 0.000000 0.012660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012553 0.00000