10 20 30 40 50 60 70 80 2JDU - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER LECTIN 12-JAN-07 2JDU
TITLE MUTANT (G24N) OF PSEUDOMONAS AERUGINOSA LECTIN II (PA-IIL) TITLE 2 COMPLEXED WITH METHYL-A-L-FUCOPYRANOSIDE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUCOSE-BINDING LECTIN PA-IIL; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: PA-IIL; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET25PA2L
KEYWDS LECTIN, GLYCOMIMETIC, CYSTIC FIBROSIS
EXPDTA X-RAY DIFFRACTION
AUTHOR J.ADAM,M.POKORNA,C.SABIN,E.P.MITCHELL,A.IMBERTY,M.WIMMEROVA
REVDAT 2 24-FEB-09 2JDU 1 VERSN REVDAT 1 12-JUN-07 2JDU 0
JRNL AUTH J.ADAM,M.POKORNA,C.SABIN,E.P.MITCHELL,A.IMBERTY, JRNL AUTH 2 M.WIMMEROVA JRNL TITL ENGINEERING OF PA-IIL LECTIN FROM PSEUDOMONAS JRNL TITL 2 AERUGINOSA - UNRAVELLING THE ROLE OF THE JRNL TITL 3 SPECIFICITY LOOP FOR SUGAR PREFERENCE. JRNL REF BMC STRUCT.BIOL. V. 7 36 2007 JRNL REFN ISSN 1472-6807 JRNL PMID 17540045 JRNL DOI 10.1186/1472-6807-7-36
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.MITCHELL,C.HOULES,D.SUDAKEVITZ,M.WIMMEROVA, REMARK 1 AUTH 2 C.GAUTIER,S.PEREZ,A.WU,N.GILBOA-GARBER,A.IMBERTY REMARK 1 TITL STRUCTURAL BASIS FOR OLIGOSACCHARIDE-MEDIATED REMARK 1 TITL 2 ADHESION OF PSEUDOMONAS AERUGINOSA IN THE LUNGS OF REMARK 1 TITL 3 CYSTIC FIBROSIS PATIENTS REMARK 1 REF NAT.STRUCT.BIOL. V. 9 918 2002 REMARK 1 REFN ISSN 1072-8368 REMARK 1 PMID 12415289 REMARK 1 DOI 10.1038/NSB865 REMARK 1 REFERENCE 2 REMARK 1 AUTH C.SABIN,E.MITCHELL,M.POKORNA,C.GAUTIER,J.UTILLE, REMARK 1 AUTH 2 M.WIMMEROVA M,A.IMBERTY REMARK 1 TITL BINDING OF DIFFERENT MONOSACCHARIDES BY LECTIN PA- REMARK 1 TITL 2 IIL FROM PSEUDOMONAS AERUGINOSA: THERMODYNAMICS REMARK 1 TITL 3 DATA CORRELATED WITH X-RAY STRUCTURES. REMARK 1 REF FEBS LETT. V. 580 982 2006 REMARK 1 REFN ISSN 0014-5793 REMARK 1 PMID 16438968 REMARK 1 DOI 10.1016/J.FEBSLET.2006.01.030 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.POKORNA,G.CIOCI,S.PERRET,E.REBUFFET,N.KOSTLANOVA, REMARK 1 AUTH 2 J.ADAM,N.GILBOA-GARBER,E.MITCHELL,A.IMBERTY, REMARK 1 AUTH 3 M.WIMMEROVA REMARK 1 TITL UNUSUAL ENTROPY-DRIVEN AFFINITY OF CHROMOBACTERIUM REMARK 1 TITL 2 VIOLACEUM LECTIN CV-IIL TOWARD FUCOSE AND MANNOSE. REMARK 1 REF BIOCHEMISTRY V. 45 7501 2006 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 16768446 REMARK 1 DOI 10.1021/BI060214E
REMARK 2 REMARK 2 RESOLUTION. 1.5 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 57022 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3024 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4203 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 205 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3460 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 535 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.44000 REMARK 3 B22 (A**2) : -0.08000 REMARK 3 B33 (A**2) : 0.69000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.21000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.072 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.079 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.270 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3582 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4937 ; 1.580 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 485 ; 6.714 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;43.361 ;26.970 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 500 ;10.438 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;17.535 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 608 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2787 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1620 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2598 ; 0.297 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 408 ; 0.168 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 72 ; 0.248 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 60 ; 0.163 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2386 ; 1.082 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3839 ; 1.726 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1285 ; 2.376 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1098 ; 3.564 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS.
REMARK 4 REMARK 4 2JDU COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JAN-07. REMARK 100 THE PDBE ID CODE IS EBI-31072.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL DIAMOND REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60074 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 28.690 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1UZV REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.7 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE,30% PEG REMARK 280 4000
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 37.44300 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 GENERATING THE BIOMOLECULE 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, C 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLY 25 TO ASN REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLY 25 TO ASN REMARK 400 ENGINEERED RESIDUE IN CHAIN C, GLY 25 TO ASN REMARK 400 ENGINEERED RESIDUE IN CHAIN D, GLY 25 TO ASN
REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 0 REMARK 465 MET B 0 REMARK 465 MET C 0 REMARK 465 MET D 0
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 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 GLU A 86 -35.13 -144.71 REMARK 500 GLU B 86 -36.71 -142.16 REMARK 500 ASN B 100 8.62 82.54 REMARK 500 GLU D 86 -39.81 -143.48 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 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 CA C1115 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 104 OD1 REMARK 620 2 ASP C 104 OD2 50.1 REMARK 620 3 MFU C1117 O2 77.8 77.7 REMARK 620 4 MFU C1117 O3 73.5 120.0 71.2 REMARK 620 5 GLU C 95 OE1 116.2 82.2 136.9 150.2 REMARK 620 6 GLU C 95 OE2 124.5 74.6 86.6 148.4 51.2 REMARK 620 7 ASP C 99 OD1 150.0 157.5 95.6 76.7 88.8 83.6 REMARK 620 8 ASP C 101 OD1 84.8 113.3 145.0 74.9 78.0 127.9 84.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C1116 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN C 21 O REMARK 620 2 ASP C 104 OD1 80.2 REMARK 620 3 GLY D 114 O 80.4 160.5 REMARK 620 4 MFU C1117 O3 134.5 77.3 118.3 REMARK 620 5 MFU C1117 O4 79.6 102.7 75.3 67.7 REMARK 620 6 ASN C 103 OD1 90.2 86.1 92.3 126.6 165.0 REMARK 620 7 ASP C 101 OD1 142.2 71.2 125.2 62.5 130.0 64.1 REMARK 620 8 ASP C 101 OD2 152.9 115.7 81.7 72.3 115.1 70.4 44.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D1115 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY C 114 O REMARK 620 2 ASN D 21 O 76.7 REMARK 620 3 MFU D1117 O4 77.5 76.0 REMARK 620 4 ASP D 101 OD1 126.3 145.2 130.0 REMARK 620 5 ASP D 101 OD2 81.5 152.2 116.0 46.2 REMARK 620 6 ASP D 104 OD1 158.0 81.4 99.4 72.4 118.5 REMARK 620 7 MFU D1117 O3 117.7 133.1 65.7 64.3 72.9 79.3 REMARK 620 8 ASN D 103 OD1 90.2 89.8 162.9 66.9 73.1 87.4 131.2 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D1116 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 95 OE1 REMARK 620 2 GLU D 95 OE2 52.5 REMARK 620 3 ASP D 99 OD1 87.2 81.7 REMARK 620 4 ASP D 101 OD1 76.0 126.4 82.2 REMARK 620 5 ASP D 104 OD1 115.7 129.9 147.9 82.1 REMARK 620 6 ASP D 104 OD2 81.3 80.5 162.2 107.9 49.9 REMARK 620 7 MFU D1117 O2 142.1 90.8 97.6 141.9 78.4 83.6 REMARK 620 8 MFU D1117 O3 146.8 147.5 75.9 73.6 72.8 120.6 69.5 REMARK 620 N 1 2 3 4 5 6 7
REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED.
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MFU C1117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MFU D1117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C1118 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C1119 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA D1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA D1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D1118 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 555 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1117
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GZT RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA LECTIN II (PA-IIL) REMARK 900 TOGETHER WITH FUCOSE REMARK 900 RELATED ID: 1OUR RELATED DB: PDB REMARK 900 LECB (PA-LII) IN COMPLEX WITH MANNOSE REMARK 900 RELATED ID: 1OUS RELATED DB: PDB REMARK 900 LECB (PA-LII) CALCIUM-FREE REMARK 900 RELATED ID: 1OUX RELATED DB: PDB REMARK 900 LECB (PA-LII) SUGAR-FREE REMARK 900 RELATED ID: 1OVP RELATED DB: PDB REMARK 900 LECB (PA-LII) IN COMPLEX WITH FRUCTOSE REMARK 900 RELATED ID: 1OVS RELATED DB: PDB REMARK 900 LECB (PA-LII) IN COMPLEX WITH CORE REMARK 900 TRIMANNOSIDE REMARK 900 RELATED ID: 1OXC RELATED DB: PDB REMARK 900 LECB (PA-LII) IN COMPLEX WITH FUCOSE REMARK 900 RELATED ID: 1UZV RELATED DB: PDB REMARK 900 HIGH AFFINITY FUCOSE BINDING OF PSEUDOMONAS REMARK 900 AERUGINOSA LECTIN II: 1.0 E CRYSTAL REMARK 900 STRUCTURE OF THE COMPLEX REMARK 900 RELATED ID: 1W43 RELATED DB: PDB REMARK 900 STRUCTURE OF PSEUDOMONAS AERUGINOSA LECTIN II REMARK 900 (PA-IIL)COMPLEXED WITH LEWISA TRISACCHARIDE REMARK 900 RELATED ID: 1W8F RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA LECTIN II (PA-IIL) REMARK 900 COMPLEXED WITH LACTO-N-NEO-FUCOPENTAOSE V( REMARK 900 LNPFV) REMARK 900 RELATED ID: 1W8H RELATED DB: PDB REMARK 900 STRUCTURE OF PSEUDOMONAS AERUGINOSA LECTIN II REMARK 900 (PA-IIL)COMPLEXED WITH LEWISA TRISACCHARIDE REMARK 900 RELATED ID: 2BOJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PSEUDOMONAS AERUGINOSA REMARK 900 LECTIN (PA-IIL) COMPLEXED WITH METHYL-B-D REMARK 900 -ARABINOPYRANOSIDE REMARK 900 RELATED ID: 2BP6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PSEUDOMONAS AERUGINOSA REMARK 900 LECTIN (PA-IIL) COMPLEXED WITH A-L- REMARK 900 GALACTOPYRANOSIDE REMARK 900 RELATED ID: 2JDH RELATED DB: PDB REMARK 900 LECTIN PA-IIL OF P.AERUGINOSA COMPLEXED REMARK 900 WITH DISACCHARIDE DERIVATIVE REMARK 900 RELATED ID: 2JDK RELATED DB: PDB REMARK 900 LECTIN PA-IIL OF P.AERUGINOSA COMPLEXED REMARK 900 WITH DISACCHARIDE DERIVATIVE REMARK 900 RELATED ID: 2JDM RELATED DB: PDB REMARK 900 MUTANT (S22A) OF PSEUDOMONAS AERUGINOSA LECTIN REMARK 900 II (PA-IIL) COMPLEXED WITH METHYL-A-L- REMARK 900 FUCOPYRANOSIDE REMARK 900 RELATED ID: 2JDN RELATED DB: PDB REMARK 900 MUTANT (S22A) OF PSEUDOMONAS AERUGINOSA LECTIN REMARK 900 II (PA-IIL) COMPLEXED WITH METHYL-A-L- REMARK 900 MANNOPYRANOSIDE REMARK 900 RELATED ID: 2JDP RELATED DB: PDB REMARK 900 MUTANT (S23A) OF PSEUDOMONAS AERUGINOSA LECTIN REMARK 900 II (PA-IIL) COMPLEXED WITH METHYL-A-L- REMARK 900 FUCOPYRANOSIDE
DBREF 2JDU A 0 114 UNP Q9HYN5 Q9HYN5_PSEAE 1 115 DBREF 2JDU B 0 114 UNP Q9HYN5 Q9HYN5_PSEAE 1 115 DBREF 2JDU C 0 114 UNP Q9HYN5 Q9HYN5_PSEAE 1 115 DBREF 2JDU D 0 114 UNP Q9HYN5 Q9HYN5_PSEAE 1 115
SEQADV 2JDU ASN A 24 UNP Q9HYN5 GLY 25 ENGINEERED MUTATION SEQADV 2JDU ASN B 24 UNP Q9HYN5 GLY 25 ENGINEERED MUTATION SEQADV 2JDU ASN C 24 UNP Q9HYN5 GLY 25 ENGINEERED MUTATION SEQADV 2JDU ASN D 24 UNP Q9HYN5 GLY 25 ENGINEERED MUTATION
SEQRES 1 A 115 MET ALA THR GLN GLY VAL PHE THR LEU PRO ALA ASN THR SEQRES 2 A 115 ARG PHE GLY VAL THR ALA PHE ALA ASN SER SER ASN THR SEQRES 3 A 115 GLN THR VAL ASN VAL LEU VAL ASN ASN GLU THR ALA ALA SEQRES 4 A 115 THR PHE SER GLY GLN SER THR ASN ASN ALA VAL ILE GLY SEQRES 5 A 115 THR GLN VAL LEU ASN SER GLY SER SER GLY LYS VAL GLN SEQRES 6 A 115 VAL GLN VAL SER VAL ASN GLY ARG PRO SER ASP LEU VAL SEQRES 7 A 115 SER ALA GLN VAL ILE LEU THR ASN GLU LEU ASN PHE ALA SEQRES 8 A 115 LEU VAL GLY SER GLU ASP GLY THR ASP ASN ASP TYR ASN SEQRES 9 A 115 ASP ALA VAL VAL VAL ILE ASN TRP PRO LEU GLY SEQRES 1 B 115 MET ALA THR GLN GLY VAL PHE THR LEU PRO ALA ASN THR SEQRES 2 B 115 ARG PHE GLY VAL THR ALA PHE ALA ASN SER SER ASN THR SEQRES 3 B 115 GLN THR VAL ASN VAL LEU VAL ASN ASN GLU THR ALA ALA SEQRES 4 B 115 THR PHE SER GLY GLN SER THR ASN ASN ALA VAL ILE GLY SEQRES 5 B 115 THR GLN VAL LEU ASN SER GLY SER SER GLY LYS VAL GLN SEQRES 6 B 115 VAL GLN VAL SER VAL ASN GLY ARG PRO SER ASP LEU VAL SEQRES 7 B 115 SER ALA GLN VAL ILE LEU THR ASN GLU LEU ASN PHE ALA SEQRES 8 B 115 LEU VAL GLY SER GLU ASP GLY THR ASP ASN ASP TYR ASN SEQRES 9 B 115 ASP ALA VAL VAL VAL ILE ASN TRP PRO LEU GLY SEQRES 1 C 115 MET ALA THR GLN GLY VAL PHE THR LEU PRO ALA ASN THR SEQRES 2 C 115 ARG PHE GLY VAL THR ALA PHE ALA ASN SER SER ASN THR SEQRES 3 C 115 GLN THR VAL ASN VAL LEU VAL ASN ASN GLU THR ALA ALA SEQRES 4 C 115 THR PHE SER GLY GLN SER THR ASN ASN ALA VAL ILE GLY SEQRES 5 C 115 THR GLN VAL LEU ASN SER GLY SER SER GLY LYS VAL GLN SEQRES 6 C 115 VAL GLN VAL SER VAL ASN GLY ARG PRO SER ASP LEU VAL SEQRES 7 C 115 SER ALA GLN VAL ILE LEU THR ASN GLU LEU ASN PHE ALA SEQRES 8 C 115 LEU VAL GLY SER GLU ASP GLY THR ASP ASN ASP TYR ASN SEQRES 9 C 115 ASP ALA VAL VAL VAL ILE ASN TRP PRO LEU GLY SEQRES 1 D 115 MET ALA THR GLN GLY VAL PHE THR LEU PRO ALA ASN THR SEQRES 2 D 115 ARG PHE GLY VAL THR ALA PHE ALA ASN SER SER ASN THR SEQRES 3 D 115 GLN THR VAL ASN VAL LEU VAL ASN ASN GLU THR ALA ALA SEQRES 4 D 115 THR PHE SER GLY GLN SER THR ASN ASN ALA VAL ILE GLY SEQRES 5 D 115 THR GLN VAL LEU ASN SER GLY SER SER GLY LYS VAL GLN SEQRES 6 D 115 VAL GLN VAL SER VAL ASN GLY ARG PRO SER ASP LEU VAL SEQRES 7 D 115 SER ALA GLN VAL ILE LEU THR ASN GLU LEU ASN PHE ALA SEQRES 8 D 115 LEU VAL GLY SER GLU ASP GLY THR ASP ASN ASP TYR ASN SEQRES 9 D 115 ASP ALA VAL VAL VAL ILE ASN TRP PRO LEU GLY
HET MFU C1117 12 HET MFU D1117 12 HET SO4 A1115 5 HET SO4 A1116 5 HET SO4 B1115 5 HET SO4 B1116 5 HET CA C1115 1 HET CA C1116 1 HET SO4 C1118 5 HET SO4 C1119 5 HET CA D1115 1 HET CA D1116 1 HET SO4 D1118 5 HET GOL A 555 6 HET GOL A1117 6
HETNAM MFU ALPHA-L-METHYL-FUCOSE HETNAM SO4 SULFATE ION HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL
FORMUL 5 MFU 2(C7 H14 O5) FORMUL 7 SO4 7(O4 S 2-) FORMUL 11 CA 4(CA 2+) FORMUL 18 GOL 2(C3 H8 O3) FORMUL 20 HOH *535(H2 O1)
SHEET 1 AA 3 VAL A 5 THR A 7 0 SHEET 2 AA 3 LYS A 62 VAL A 69 -1 O VAL A 63 N PHE A 6 SHEET 3 AA 3 ARG A 13 VAL A 32 -1 O THR A 27 N SER A 68 SHEET 1 AB 3 VAL A 5 THR A 7 0 SHEET 2 AB 3 LYS A 62 VAL A 69 -1 O VAL A 63 N PHE A 6 SHEET 3 AB 3 ARG A 72 PRO A 73 -1 O ARG A 72 N VAL A 69 SHEET 1 BA 3 VAL B 5 THR B 7 0 SHEET 2 BA 3 LYS B 62 VAL B 69 -1 O VAL B 63 N PHE B 6 SHEET 3 BA 3 ARG B 13 VAL B 32 -1 O THR B 27 N SER B 68 SHEET 1 BB 3 VAL B 5 THR B 7 0 SHEET 2 BB 3 LYS B 62 VAL B 69 -1 O VAL B 63 N PHE B 6 SHEET 3 BB 3 ARG B 72 PRO B 73 -1 O ARG B 72 N VAL B 69 SHEET 1 CA 4 VAL C 5 THR C 7 0 SHEET 2 CA 4 LYS C 62 VAL C 69 -1 O VAL C 63 N PHE C 6 SHEET 3 CA 4 GLN C 26 VAL C 32 -1 O THR C 27 N SER C 68 SHEET 4 CA 4 GLU C 35 GLY C 42 -1 O GLU C 35 N VAL C 32 SHEET 1 CB 3 VAL C 5 THR C 7 0 SHEET 2 CB 3 LYS C 62 VAL C 69 -1 O VAL C 63 N PHE C 6 SHEET 3 CB 3 ARG C 72 PRO C 73 -1 O ARG C 72 N VAL C 69
LINK CA CA C1115 OD1 ASP C 104 1555 1555 2.64 LINK CA CA C1115 OD2 ASP C 104 1555 1555 2.61 LINK CA CA C1115 O2 MFU C1117 1555 1555 2.38 LINK CA CA C1115 O3 MFU C1117 1555 1555 2.49 LINK CA CA C1115 OE1 GLU C 95 1555 1555 2.62 LINK CA CA C1115 OE2 GLU C 95 1555 1555 2.50 LINK CA CA C1115 OD1 ASP C 99 1555 1555 2.39 LINK CA CA C1115 OD1 ASP C 101 1555 1555 2.31 LINK CA CA C1116 O ASN C 21 1555 1555 2.44 LINK CA CA C1116 OD1 ASP C 104 1555 1555 2.56 LINK CA CA C1116 O GLY D 114 1555 1555 2.51 LINK CA CA C1116 O3 MFU C1117 1555 1555 2.35 LINK CA CA C1116 O4 MFU C1117 1555 1555 2.48 LINK CA CA C1116 OD1 ASN C 103 1555 1555 2.34 LINK CA CA C1116 OD1 ASP C 101 1555 1555 3.13 LINK CA CA C1116 OD2 ASP C 101 1555 1555 2.46 LINK CA CA D1115 O ASN D 21 1555 1555 2.42 LINK CA CA D1115 O4 MFU D1117 1555 1555 2.50 LINK CA CA D1115 OD1 ASP D 101 1555 1555 3.07 LINK CA CA D1115 OD2 ASP D 101 1555 1555 2.50 LINK CA CA D1115 OD1 ASP D 104 1555 1555 2.50 LINK CA CA D1115 O3 MFU D1117 1555 1555 2.37 LINK CA CA D1115 OD1 ASN D 103 1555 1555 2.33 LINK CA CA D1115 O GLY C 114 1555 1555 2.43 LINK CA CA D1116 OE2 GLU D 95 1555 1555 2.41 LINK CA CA D1116 OD1 ASP D 99 1555 1555 2.38 LINK CA CA D1116 OD1 ASP D 101 1555 1555 2.37 LINK CA CA D1116 OD1 ASP D 104 1555 1555 2.68 LINK CA CA D1116 OD2 ASP D 104 1555 1555 2.45 LINK CA CA D1116 O2 MFU D1117 1555 1555 2.36 LINK CA CA D1116 O3 MFU D1117 1555 1555 2.56 LINK CA CA D1116 OE1 GLU D 95 1555 1555 2.60
CISPEP 1 TRP A 111 PRO A 112 0 0.43 CISPEP 2 TRP B 111 PRO B 112 0 -5.98 CISPEP 3 TRP C 111 PRO C 112 0 -0.82 CISPEP 4 TRP D 111 PRO D 112 0 -2.72
SITE 1 AC1 12 ASN C 21 SER C 22 SER C 23 GLU C 95 SITE 2 AC1 12 ASP C 96 ASP C 99 ASP C 101 ASP C 104 SITE 3 AC1 12 CA C1115 CA C1116 HOH C2120 GLY D 114 SITE 1 AC2 12 GLY C 114 ASN D 21 SER D 22 SER D 23 SITE 2 AC2 12 GLU D 95 ASP D 96 ASP D 99 ASP D 101 SITE 3 AC2 12 ASP D 104 CA D1115 CA D1116 HOH D2139 SITE 1 AC3 9 SER A 22 SER A 23 ASN A 24 ASP A 96 SITE 2 AC3 9 ASP A 99 ASP A 104 HOH A2118 HOH A2128 SITE 3 AC3 9 HOH B2127 SITE 1 AC4 10 SER A 44 ASN A 46 ALA A 48 HOH A2070 SITE 2 AC4 10 HOH A2129 HOH A2130 SER C 44 THR C 45 SITE 3 AC4 10 ASN C 46 HOH C2068 SITE 1 AC5 8 SER B 22 ASN B 24 ASP B 96 ASP B 99 SITE 2 AC5 8 ASP B 104 HOH B2128 ASN D 33 SER D 59 SITE 1 AC6 5 ASN B 33 GLY B 58 SER B 59 HOH B2047 SITE 2 AC6 5 HOH B2129 SITE 1 AC7 5 GLU C 95 ASP C 99 ASP C 101 ASP C 104 SITE 2 AC7 5 MFU C1117 SITE 1 AC8 6 ASN C 21 ASP C 101 ASN C 103 ASP C 104 SITE 2 AC8 6 MFU C1117 GLY D 114 SITE 1 AC9 8 ASN C 33 GLY C 58 SER C 59 HOH C2056 SITE 2 AC9 8 HOH C2131 HOH C2132 HOH C2133 HOH C2134 SITE 1 BC1 5 THR C 12 ARG C 13 HOH C2023 HOH C2027 SITE 2 BC1 5 HOH C2031 SITE 1 BC2 6 GLY C 114 ASN D 21 ASP D 101 ASN D 103 SITE 2 BC2 6 ASP D 104 MFU D1117 SITE 1 BC3 5 GLU D 95 ASP D 99 ASP D 101 ASP D 104 SITE 2 BC3 5 MFU D1117 SITE 1 BC4 4 SER D 44 THR D 45 ASN D 46 HOH D2140 SITE 1 BC5 1 HOH A2127 SITE 1 BC6 9 ALA A 37 ALA A 38 THR A 39 GLN A 53 SITE 2 BC6 9 HOH A2075 HOH A2131 GLY C 51 THR C 52 SITE 3 BC6 9 GLN C 53
CRYST1 52.627 74.886 53.466 90.00 114.71 90.00 P 1 21 1 8
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 0.019002 0.000000 0.008744 0.00000
SCALE2 0.000000 0.013354 0.000000 0.00000
SCALE3 0.000000 0.000000 0.020589 0.00000