HEADER BIOTIN-BINDING PROTEIN 29-AUG-11 3VHM TITLE CRYSTAL STRUCTURE OF NPC-BIOTIN-AVIDIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: AVIDIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 25-147 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031 KEYWDS BETA BARREL, BIOTIN-BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.TERAI,E.MAKI,S.SUGIYAMA,Y.TAKAHASHI,H.MATSUMURA,Y.MORI,T.NAGANO REVDAT 3 29-JUL-20 3VHM 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 22-NOV-17 3VHM 1 REMARK REVDAT 1 28-DEC-11 3VHM 0 JRNL AUTH T.TERAI,E.MAKI,S.SUGIYAMA,Y.TAKAHASHI,H.MATSUMURA,Y.MORI, JRNL AUTH 2 T.NAGANO JRNL TITL RATIONAL DEVELOPMENT OF CAGED-BIOTIN PROTEIN-LABELING AGENTS JRNL TITL 2 AND SOME APPLICATIONS IN LIVE CELLS JRNL REF CHEM.BIOL. V. 18 1261 2011 JRNL REFN ISSN 1074-5521 JRNL PMID 22035795 JRNL DOI 10.1016/J.CHEMBIOL.2011.09.007 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 44247 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2228 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3055 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 144 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3821 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 218 REMARK 3 SOLVENT ATOMS : 202 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.101 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.570 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4121 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5602 ; 2.709 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ; 7.722 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 169 ;30.923 ;23.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 673 ;18.039 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;22.657 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 640 ; 0.194 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3038 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2412 ; 1.537 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3921 ; 2.658 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1709 ; 3.835 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1681 ; 5.876 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 RIDING REMARK 3 POSITIONS U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3VHM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000095054. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44266 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.42400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5-2.7M AMMONIUM SULFATE, 0.1M SODIUM REMARK 280 CITRATE(PH 4.0-5.0), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K, PH 5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 65.51000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.76750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 65.51000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.76750 REMARK 290 SMTRY3 4 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 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -103.0 KCAL/MOL 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 A 205 LIES ON A SPECIAL POSITION. 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 ALA B 1 REMARK 465 ARG B 2 REMARK 465 ALA D 1 REMARK 465 ARG D 2 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN C 42 CG OD1 ND2 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 57 21.57 46.13 REMARK 500 LYS B 58 48.11 33.56 REMARK 500 GLU C 46 138.06 -38.75 REMARK 500 LYS C 58 57.30 26.30 REMARK 500 ASN D 57 19.66 52.94 REMARK 500 LYS D 58 55.24 32.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VGW RELATED DB: PDB REMARK 900 RELATED ID: 3VHI RELATED DB: PDB REMARK 900 RELATED ID: 3VHH RELATED DB: PDB DBREF 3VHM A 1 123 UNP P02701 AVID_CHICK 25 147 DBREF 3VHM B 1 123 UNP P02701 AVID_CHICK 25 147 DBREF 3VHM C 1 123 UNP P02701 AVID_CHICK 25 147 DBREF 3VHM D 1 123 UNP P02701 AVID_CHICK 25 147 SEQRES 1 A 123 ALA ARG LYS CYS SER LEU THR GLY LYS TRP THR ASN ASP SEQRES 2 A 123 LEU GLY SER ASN MET THR ILE GLY ALA VAL ASN SER ARG SEQRES 3 A 123 GLY GLU PHE THR GLY THR TYR ILE THR ALA VAL THR ALA SEQRES 4 A 123 THR SER ASN GLU ILE LYS GLU SER PRO LEU HIS GLY THR SEQRES 5 A 123 GLN ASN THR ILE ASN LYS ARG THR GLN PRO THR PHE GLY SEQRES 6 A 123 PHE THR VAL ASN TRP LYS PHE SER GLU SER THR THR VAL SEQRES 7 A 123 PHE THR GLY GLN CYS PHE ILE ASP ARG ASN GLY LYS GLU SEQRES 8 A 123 VAL LEU LYS THR MET TRP LEU LEU ARG SER SER VAL ASN SEQRES 9 A 123 ASP ILE GLY ASP ASP TRP LYS ALA THR ARG VAL GLY ILE SEQRES 10 A 123 ASN ILE PHE THR ARG LEU SEQRES 1 B 123 ALA ARG LYS CYS SER LEU THR GLY LYS TRP THR ASN ASP SEQRES 2 B 123 LEU GLY SER ASN MET THR ILE GLY ALA VAL ASN SER ARG SEQRES 3 B 123 GLY GLU PHE THR GLY THR TYR ILE THR ALA VAL THR ALA SEQRES 4 B 123 THR SER ASN GLU ILE LYS GLU SER PRO LEU HIS GLY THR SEQRES 5 B 123 GLN ASN THR ILE ASN LYS ARG THR GLN PRO THR PHE GLY SEQRES 6 B 123 PHE THR VAL ASN TRP LYS PHE SER GLU SER THR THR VAL SEQRES 7 B 123 PHE THR GLY GLN CYS PHE ILE ASP ARG ASN GLY LYS GLU SEQRES 8 B 123 VAL LEU LYS THR MET TRP LEU LEU ARG SER SER VAL ASN SEQRES 9 B 123 ASP ILE GLY ASP ASP TRP LYS ALA THR ARG VAL GLY ILE SEQRES 10 B 123 ASN ILE PHE THR ARG LEU SEQRES 1 C 123 ALA ARG LYS CYS SER LEU THR GLY LYS TRP THR ASN ASP SEQRES 2 C 123 LEU GLY SER ASN MET THR ILE GLY ALA VAL ASN SER ARG SEQRES 3 C 123 GLY GLU PHE THR GLY THR TYR ILE THR ALA VAL THR ALA SEQRES 4 C 123 THR SER ASN GLU ILE LYS GLU SER PRO LEU HIS GLY THR SEQRES 5 C 123 GLN ASN THR ILE ASN LYS ARG THR GLN PRO THR PHE GLY SEQRES 6 C 123 PHE THR VAL ASN TRP LYS PHE SER GLU SER THR THR VAL SEQRES 7 C 123 PHE THR GLY GLN CYS PHE ILE ASP ARG ASN GLY LYS GLU SEQRES 8 C 123 VAL LEU LYS THR MET TRP LEU LEU ARG SER SER VAL ASN SEQRES 9 C 123 ASP ILE GLY ASP ASP TRP LYS ALA THR ARG VAL GLY ILE SEQRES 10 C 123 ASN ILE PHE THR ARG LEU SEQRES 1 D 123 ALA ARG LYS CYS SER LEU THR GLY LYS TRP THR ASN ASP SEQRES 2 D 123 LEU GLY SER ASN MET THR ILE GLY ALA VAL ASN SER ARG SEQRES 3 D 123 GLY GLU PHE THR GLY THR TYR ILE THR ALA VAL THR ALA SEQRES 4 D 123 THR SER ASN GLU ILE LYS GLU SER PRO LEU HIS GLY THR SEQRES 5 D 123 GLN ASN THR ILE ASN LYS ARG THR GLN PRO THR PHE GLY SEQRES 6 D 123 PHE THR VAL ASN TRP LYS PHE SER GLU SER THR THR VAL SEQRES 7 D 123 PHE THR GLY GLN CYS PHE ILE ASP ARG ASN GLY LYS GLU SEQRES 8 D 123 VAL LEU LYS THR MET TRP LEU LEU ARG SER SER VAL ASN SEQRES 9 D 123 ASP ILE GLY ASP ASP TRP LYS ALA THR ARG VAL GLY ILE SEQRES 10 D 123 ASN ILE PHE THR ARG LEU MODRES 3VHM ASN A 17 ASN GLYCOSYLATION SITE MODRES 3VHM ASN B 17 ASN GLYCOSYLATION SITE MODRES 3VHM ASN C 17 ASN GLYCOSYLATION SITE MODRES 3VHM ASN D 17 ASN GLYCOSYLATION SITE HET NPK A1124 33 HET NAG A1125 14 HET SO4 A1126 5 HET SO4 A1127 5 HET NPK B1124 33 HET NAG B1125 14 HET SO4 B1126 5 HET SO4 B1127 5 HET NPK C1124 33 HET NAG C1125 14 HET SO4 C1127 5 HET NPK D1124 33 HET NAG D1125 14 HET SO4 D1126 5 HETNAM NPK 5-[(3AS,4R,6AR)-1-{[(1R)-1-(6-NITRO-1,3-BENZODIOXOL-5- HETNAM 2 NPK YL)ETHOXY]CARBONYL}-2-OXOHEXAHYDRO-1H-THIENO[3,4- HETNAM 3 NPK D]IMIDAZOL-4-YL]PENTANOIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION FORMUL 5 NPK 4(C20 H23 N3 O9 S) FORMUL 6 NAG 4(C8 H15 N O6) FORMUL 7 SO4 6(O4 S 2-) FORMUL 19 HOH *202(H2 O) HELIX 1 1 THR A 55 ARG A 59 5 5 HELIX 2 2 ASP A 105 LYS A 111 5 7 HELIX 3 3 THR B 55 ARG B 59 5 5 HELIX 4 4 ASP B 105 LYS B 111 5 7 HELIX 5 5 THR C 55 ARG C 59 5 5 HELIX 6 6 ASP C 105 LYS C 111 5 7 HELIX 7 7 THR D 55 ARG D 59 5 5 HELIX 8 8 ASP D 105 LYS D 111 5 7 SHEET 1 A 9 GLY A 8 THR A 11 0 SHEET 2 A 9 ASN A 17 ILE A 20 -1 O MET A 18 N TRP A 10 SHEET 3 A 9 GLU A 28 ILE A 34 -1 O ILE A 34 N ASN A 17 SHEET 4 A 9 SER A 47 GLN A 53 -1 O SER A 47 N TYR A 33 SHEET 5 A 9 THR A 63 VAL A 68 -1 O THR A 67 N HIS A 50 SHEET 6 A 9 THR A 76 ILE A 85 -1 O THR A 77 N VAL A 68 SHEET 7 A 9 GLU A 91 ARG A 100 -1 O ARG A 100 N THR A 76 SHEET 8 A 9 THR A 113 ARG A 122 -1 O ARG A 114 N LEU A 99 SHEET 9 A 9 GLY A 8 THR A 11 -1 N THR A 11 O THR A 121 SHEET 1 B 9 GLY B 8 THR B 11 0 SHEET 2 B 9 ASN B 17 ILE B 20 -1 O MET B 18 N TRP B 10 SHEET 3 B 9 GLU B 28 ILE B 34 -1 O ILE B 34 N ASN B 17 SHEET 4 B 9 SER B 47 GLN B 53 -1 O GLY B 51 N PHE B 29 SHEET 5 B 9 THR B 63 ASN B 69 -1 O THR B 67 N HIS B 50 SHEET 6 B 9 THR B 76 ILE B 85 -1 O THR B 77 N VAL B 68 SHEET 7 B 9 GLU B 91 ARG B 100 -1 O VAL B 92 N PHE B 84 SHEET 8 B 9 THR B 113 ARG B 122 -1 O ARG B 114 N LEU B 99 SHEET 9 B 9 GLY B 8 THR B 11 -1 N THR B 11 O THR B 121 SHEET 1 C 9 GLY C 8 THR C 11 0 SHEET 2 C 9 ASN C 17 ILE C 20 -1 O MET C 18 N TRP C 10 SHEET 3 C 9 GLU C 28 ILE C 34 -1 O ILE C 34 N ASN C 17 SHEET 4 C 9 SER C 47 GLN C 53 -1 O SER C 47 N TYR C 33 SHEET 5 C 9 THR C 63 ASN C 69 -1 O THR C 67 N HIS C 50 SHEET 6 C 9 THR C 76 ILE C 85 -1 O THR C 77 N VAL C 68 SHEET 7 C 9 GLU C 91 ARG C 100 -1 O ARG C 100 N THR C 76 SHEET 8 C 9 THR C 113 ARG C 122 -1 O GLY C 116 N TRP C 97 SHEET 9 C 9 GLY C 8 THR C 11 -1 N THR C 11 O THR C 121 SHEET 1 D 9 GLY D 8 THR D 11 0 SHEET 2 D 9 ASN D 17 ILE D 20 -1 O MET D 18 N TRP D 10 SHEET 3 D 9 GLU D 28 ILE D 34 -1 O ILE D 34 N ASN D 17 SHEET 4 D 9 SER D 47 GLN D 53 -1 O LEU D 49 N GLY D 31 SHEET 5 D 9 THR D 63 ASN D 69 -1 O THR D 67 N HIS D 50 SHEET 6 D 9 THR D 76 ILE D 85 -1 O THR D 77 N VAL D 68 SHEET 7 D 9 GLU D 91 ARG D 100 -1 O VAL D 92 N PHE D 84 SHEET 8 D 9 THR D 113 ARG D 122 -1 O ARG D 114 N LEU D 99 SHEET 9 D 9 GLY D 8 THR D 11 -1 N THR D 11 O THR D 121 SSBOND 1 CYS A 4 CYS A 83 1555 1555 1.97 SSBOND 2 CYS B 4 CYS B 83 1555 1555 2.04 SSBOND 3 CYS C 4 CYS C 83 1555 1555 1.98 SSBOND 4 CYS D 4 CYS D 83 1555 1555 2.03 LINK ND2 ASN A 17 C1 NAG A1125 1555 1555 1.72 LINK ND2 ASN B 17 C1 NAG B1125 1555 1555 1.85 LINK ND2 ASN C 17 C1 NAG C1125 1555 1555 1.84 LINK ND2 ASN D 17 C1 NAG D1125 1555 1555 1.76 CRYST1 131.020 73.535 81.180 90.00 120.02 90.00 C 1 2 1 16 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 0.007632 0.000000 0.004410 0.00000 SCALE2 0.000000 0.013599 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014227 0.00000