HEADER HYDROLASE 31-JAN-13 3W5M TITLE CRYSTAL STRUCTURE OF STREPTOMYCES AVERMITILIS ALPHA-L-RHAMNOSIDASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE RHAMNOSIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.40; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES AVERMITILIS; SOURCE 3 ORGANISM_TAXID: 227882; SOURCE 4 STRAIN: MA-4680; SOURCE 5 GENE: SAV_828; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TUNER(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS FIBRONECTIN-TYPE 3 FOLD, BETA-JELLY ROLL, (ALPHA/ALPHA)6-BARREL, KEYWDS 2 BETA-SANDWICH, GLYCOSIDE HYDROLASE, L-RHAMNOSIDE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.FUJIMOTO,A.JACKSON,M.MICHIKAWA,T.MAEHARA,M.MOMMA,B.F.HENRISSAT, AUTHOR 2 H.J.GILBERT,S.KANEKO REVDAT 3 20-MAR-24 3W5M 1 REMARK SEQADV LINK REVDAT 2 16-OCT-13 3W5M 1 JRNL REVDAT 1 20-MAR-13 3W5M 0 JRNL AUTH Z.FUJIMOTO,A.JACKSON,M.MICHIKAWA,T.MAEHARA,M.MOMMA, JRNL AUTH 2 B.F.HENRISSAT,H.J.GILBERT,S.KANEKO JRNL TITL THE STRUCTURE OF A STREPTOMYCES AVERMITILIS JRNL TITL 2 ALPHA-L-RHAMNOSIDASE REVEALS A NOVEL CARBOHYDRATE-BINDING JRNL TITL 3 MODULE CBM67 WITHIN THE SIX-DOMAIN ARRANGEMENT. JRNL REF J.BIOL.CHEM. V. 288 12376 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23486481 JRNL DOI 10.1074/JBC.M113.460097 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.ICHINOSE,Z.FUJIMOTO,S.KANEKO REMARK 1 TITL CHARACTERIZATION OF AN -L-RHAMNOSIDASE FROM STREPTOMYCES REMARK 1 TITL 2 AVERMITILIS REMARK 1 REF BIOSCI.BIOTECHNOL.BIOCHEM. V. 77 213 2013 REMARK 1 REFN ISSN 0916-8451 REMARK 1 PMID 23291751 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 85371 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4502 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6184 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 299 REMARK 3 BIN FREE R VALUE : 0.3780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7922 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 755 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.41000 REMARK 3 B22 (A**2) : -0.52000 REMARK 3 B33 (A**2) : 1.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.92000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.138 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.096 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8227 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11262 ; 1.397 ; 1.933 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1042 ; 6.208 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 370 ;32.709 ;22.514 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1171 ;13.095 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 74 ;17.024 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1205 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6492 ; 0.007 ; 0.021 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3W5M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000095915. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97909 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR , SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92680 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 35.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09900 REMARK 200 FOR THE DATA SET : 36.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.63200 REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (W/V) PEG 6000, 5% (V/V) MPD, 0.1M REMARK 280 HEPES, PH 6.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 64.20700 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 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 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 1 REMARK 465 SER A 2 REMARK 465 ALA A 1033 REMARK 465 ALA A 1034 REMARK 465 ALA A 1035 REMARK 465 LEU A 1036 REMARK 465 GLU A 1037 REMARK 465 HIS A 1038 REMARK 465 HIS A 1039 REMARK 465 HIS A 1040 REMARK 465 HIS A 1041 REMARK 465 HIS A 1042 REMARK 465 HIS A 1043 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 ASP A 477 CB - CG - OD1 ANGL. DEV. = 5.9 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 TYR A 13 -0.31 75.14 REMARK 500 SER A 67 146.97 -174.58 REMARK 500 SER A 246 37.69 -97.86 REMARK 500 ASP A 254 -174.24 -172.81 REMARK 500 ALA A 285 146.17 -170.10 REMARK 500 ARG A 340 32.27 -140.47 REMARK 500 ARG A 543 -124.57 56.63 REMARK 500 PHE A 624 64.10 -111.52 REMARK 500 SER A 626 -47.96 64.82 REMARK 500 GLU A 636 -95.74 -140.81 REMARK 500 TRP A 695 -75.61 -108.26 REMARK 500 HIS A 733 55.48 -95.88 REMARK 500 TRP A 747 129.87 -38.04 REMARK 500 ASP A 752 72.39 -154.86 REMARK 500 MET A 911 94.74 -162.55 REMARK 500 ASN A 912 82.39 -155.97 REMARK 500 ASN A 915 66.35 -155.58 REMARK 500 SER A 975 58.94 25.29 REMARK 500 ASP A1000 5.45 -68.35 REMARK 500 ASP A1014 44.36 35.12 REMARK 500 REMARK 500 REMARK: NULL 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 A1201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 179 OD1 REMARK 620 2 ASN A 180 OD1 77.2 REMARK 620 3 ASN A 228 OD1 120.4 75.8 REMARK 620 4 PRO A 233 O 84.9 138.8 82.1 REMARK 620 5 HOH A2076 O 75.5 129.2 154.6 79.6 REMARK 620 6 HOH A2181 O 94.7 79.4 130.0 139.5 61.4 REMARK 620 7 HOH A2255 O 157.0 119.1 81.1 90.7 81.5 74.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W5N RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH L-RHAMNOSE DBREF 3W5M A 1 1030 UNP Q82PP4 Q82PP4_STRAW 1 1030 SEQADV 3W5M LYS A 1031 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M LEU A 1032 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M ALA A 1033 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M ALA A 1034 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M ALA A 1035 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M LEU A 1036 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M GLU A 1037 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1038 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1039 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1040 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1041 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1042 UNP Q82PP4 EXPRESSION TAG SEQADV 3W5M HIS A 1043 UNP Q82PP4 EXPRESSION TAG SEQRES 1 A 1043 MET SER ALA LEU ARG VAL THR SER PRO SER VAL GLU TYR SEQRES 2 A 1043 VAL GLN ARG PRO LEU GLY LEU ASP ALA ALA HIS PRO ARG SEQRES 3 A 1043 LEU SER TRP PRO MET ALA SER ALA ALA PRO GLY ARG ARG SEQRES 4 A 1043 GLN SER ALA TYR GLN VAL ARG VAL ALA SER SER ALA ALA SEQRES 5 A 1043 GLY LEU SER HIS PRO ASP VAL TRP ASP SER GLY LYS VAL SEQRES 6 A 1043 VAL SER ASP ASP SER VAL LEU VAL PRO TYR ALA GLY PRO SEQRES 7 A 1043 PRO LEU LYS PRO ARG THR ARG TYR PHE TRP SER VAL ARG SEQRES 8 A 1043 VAL TRP ASP ALA ASP GLY GLY ALA SER GLU TRP SER ALA SEQRES 9 A 1043 PRO SER TRP TRP GLU THR GLY LEU MET GLY ALA SER GLN SEQRES 10 A 1043 TRP SER ALA LYS TRP ILE SER ALA PRO ALA PRO LEU THR SEQRES 11 A 1043 GLU ALA PRO SER LEU GLU GLY SER SER TRP ILE TRP PHE SEQRES 12 A 1043 PRO GLU GLY GLU PRO ALA ASN SER ALA PRO ALA ALA THR SEQRES 13 A 1043 ARG TRP PHE ARG ARG THR VAL ASP LEU PRO ASP ASP ILE SEQRES 14 A 1043 THR GLY ALA THR LEU ALA ILE SER ALA ASP ASN VAL TYR SEQRES 15 A 1043 ALA VAL SER VAL ASP GLY ALA GLU VAL ALA ARG THR ASP SEQRES 16 A 1043 LEU GLU ALA ASP ASN GLU GLY TRP ARG ARG PRO ALA VAL SEQRES 17 A 1043 ILE ASP VAL LEU ASP HIS VAL HIS SER GLY ASN ASN THR SEQRES 18 A 1043 LEU ALA VAL SER ALA SER ASN ALA SER VAL GLY PRO ALA SEQRES 19 A 1043 GLY TRP ILE CYS VAL LEU VAL LEU THR THR ALA SER GLY SEQRES 20 A 1043 GLU LYS LYS ILE PHE SER ASP ALA SER TRP LYS SER THR SEQRES 21 A 1043 ASP HIS GLU PRO ALA ASP GLY TRP ARG GLU PRO ASP PHE SEQRES 22 A 1043 ASP ASP SER GLY TRP PRO ALA ALA LYS VAL ALA ALA ALA SEQRES 23 A 1043 TRP GLY ALA GLY PRO TRP GLY ARG VAL ALA PRO VAL ALA SEQRES 24 A 1043 SER ALA ALA ASN GLN LEU ARG HIS GLU PHE ARG LEU PRO SEQRES 25 A 1043 HIS LYS LYS VAL SER ARG ALA ARG LEU TYR ALA THR ALA SEQRES 26 A 1043 LEU GLY LEU TYR GLU ALA HIS LEU ASN GLY ARG ARG VAL SEQRES 27 A 1043 GLY ARG ASP GLN LEU ALA PRO GLY TRP THR ASP TYR ARG SEQRES 28 A 1043 LYS ARG VAL GLN TYR GLN THR TYR ASP VAL THR SER SER SEQRES 29 A 1043 VAL ARG PRO GLY ALA ASN ALA LEU ALA ALA TYR VAL ALA SEQRES 30 A 1043 PRO GLY TRP TYR ALA GLY ASN VAL GLY MET PHE GLY PRO SEQRES 31 A 1043 HIS GLN TYR GLY GLU ARG PRO ALA LEU LEU ALA GLN LEU SEQRES 32 A 1043 GLU VAL GLU TYR ALA ASP GLY THR SER GLU ARG ILE THR SEQRES 33 A 1043 SER GLY PRO ASP TRP ARG ALA ALA SER GLY PRO ILE VAL SEQRES 34 A 1043 SER ALA ASP LEU LEU SER GLY GLU THR TYR ASP ALA ARG SEQRES 35 A 1043 LYS GLU THR ALA GLY TRP THR SER PRO GLY PHE ASP ASP SEQRES 36 A 1043 ARG ALA TRP LEU ALA VAL ARG GLY ALA ASP ASN ASP VAL SEQRES 37 A 1043 PRO GLU GLN ILE VAL ALA GLN VAL ASP GLY PRO VAL ARG SEQRES 38 A 1043 ILE ALA LYS GLU LEU PRO ALA ARG LYS VAL THR GLU PRO SEQRES 39 A 1043 LYS PRO GLY VAL PHE VAL LEU ASP LEU GLY GLN ASN MET SEQRES 40 A 1043 VAL GLY SER VAL ARG LEU ARG VAL SER GLY ASP ALA GLY SEQRES 41 A 1043 THR THR VAL ARG LEU ARG HIS ALA GLU VAL LEU ASN PRO SEQRES 42 A 1043 ASP GLY THR ILE TYR THR ALA ASN LEU ARG SER ALA ALA SEQRES 43 A 1043 ALA THR ASP THR TYR THR LEU LYS GLY GLN GLY GLU GLU SEQRES 44 A 1043 THR TYR GLU PRO ARG PHE THR PHE HIS GLY PHE ARG TYR SEQRES 45 A 1043 VAL GLU VAL THR GLY PHE PRO GLY LYS PRO SER THR THR SEQRES 46 A 1043 SER VAL THR GLY ARG VAL MET HIS THR SER ALA PRO PHE SEQRES 47 A 1043 THR PHE GLU PHE GLU THR ASN VAL PRO MET LEU ASN LYS SEQRES 48 A 1043 LEU HIS SER ASN ILE THR TRP GLY GLN ARG GLY ASN PHE SEQRES 49 A 1043 LEU SER VAL PRO THR ASP THR PRO ALA ARG ASP GLU ARG SEQRES 50 A 1043 LEU GLY TRP THR GLY ASP ILE ASN VAL PHE ALA PRO THR SEQRES 51 A 1043 ALA ALA TYR THR MET GLU SER ALA ARG PHE LEU THR LYS SEQRES 52 A 1043 TRP LEU VAL ASP LEU ARG ASP ALA GLN THR SER ASP GLY SEQRES 53 A 1043 ALA PHE THR ASP VAL ALA PRO ALA VAL GLY ASN LEU GLY SEQRES 54 A 1043 ASN GLY VAL ALA GLY TRP GLY ASP ALA GLY VAL THR VAL SEQRES 55 A 1043 PRO TRP ALA LEU TYR GLN ALA TYR GLY ASP ARG GLN VAL SEQRES 56 A 1043 LEU ALA ASP ALA LEU PRO SER VAL HIS ALA TRP LEU ARG SEQRES 57 A 1043 TYR LEU GLU LYS HIS SER ASP GLY LEU LEU ARG PRO ALA SEQRES 58 A 1043 ASP GLY TYR GLY ASP TRP LEU ASN VAL SER ASP GLU THR SEQRES 59 A 1043 PRO LYS ASP VAL ILE ALA THR ALA TYR PHE ALA HIS SER SEQRES 60 A 1043 ALA ASP LEU ALA ALA ARG MET ALA THR GLU LEU GLY LYS SEQRES 61 A 1043 ASP ALA ALA PRO TYR THR ASP LEU PHE THR ARG ILE ARG SEQRES 62 A 1043 LYS ALA PHE GLN THR ALA TYR VAL ALA SER ASP GLY LYS SEQRES 63 A 1043 VAL LYS GLY ASP THR GLN SER ALA TYR VAL LEU THR LEU SEQRES 64 A 1043 SER MET ASN LEU VAL PRO ASP ALA LEU ARG LYS ALA ALA SEQRES 65 A 1043 ALA ASP ARG LEU VAL ALA LEU ILE GLU ALA LYS ASP TRP SEQRES 66 A 1043 HIS LEU SER THR GLY PHE LEU GLY THR PRO ARG LEU LEU SEQRES 67 A 1043 PRO VAL LEU THR ASP THR GLY HIS THR ASP VAL ALA TYR SEQRES 68 A 1043 ARG LEU LEU HIS GLN ARG THR PHE PRO SER TRP GLY TYR SEQRES 69 A 1043 PRO ILE ASP LYS GLY SER THR THR MET TRP GLU ARG TRP SEQRES 70 A 1043 ASP SER ILE GLN PRO ASP GLY GLY PHE GLN THR PRO GLU SEQRES 71 A 1043 MET ASN SER PHE ASN HIS TYR ALA TYR GLY SER VAL GLY SEQRES 72 A 1043 GLU TRP MET TYR ALA ASN ILE ALA GLY ILE ALA PRO GLY SEQRES 73 A 1043 ARG ALA GLY TYR ARG GLN VAL VAL ILE ARG PRO ARG PRO SEQRES 74 A 1043 GLY GLY GLU VAL THR SER ALA ARG ALA THR PHE ALA SER SEQRES 75 A 1043 LEU HIS GLY PRO VAL SER THR ARG TRP GLN GLN ARG SER SEQRES 76 A 1043 GLY GLY PHE VAL LEU THR CYS SER VAL PRO PRO ASN THR SEQRES 77 A 1043 THR ALA GLU VAL TRP ILE PRO ALA ASP HIS PRO ASP ARG SEQRES 78 A 1043 VAL GLN HIS THR HIS GLY THR PHE VAL ARG ALA GLU ASP SEQRES 79 A 1043 GLY CYS ALA VAL PHE GLU VAL GLY SER GLY SER HIS ARG SEQRES 80 A 1043 PHE THR VAL LYS LEU ALA ALA ALA LEU GLU HIS HIS HIS SEQRES 81 A 1043 HIS HIS HIS HET CA A1201 1 HET TRS A1202 8 HET TRS A1203 8 HETNAM CA CALCIUM ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN TRS TRIS BUFFER FORMUL 2 CA CA 2+ FORMUL 3 TRS 2(C4 H12 N O3 1+) FORMUL 5 HOH *755(H2 O) HELIX 1 1 ALA A 51 HIS A 56 5 6 HELIX 2 2 GLY A 114 TRP A 118 5 5 HELIX 3 3 PRO A 126 GLU A 131 1 6 HELIX 4 4 GLU A 201 ARG A 205 5 5 HELIX 5 5 PRO A 378 GLY A 383 1 6 HELIX 6 6 ARG A 442 GLU A 444 5 3 HELIX 7 7 THR A 539 ARG A 543 5 5 HELIX 8 8 SER A 583 THR A 585 5 3 HELIX 9 9 VAL A 606 ASN A 623 1 18 HELIX 10 10 TRP A 640 MET A 655 1 16 HELIX 11 11 SER A 657 GLN A 672 1 16 HELIX 12 12 ASP A 697 GLY A 711 1 15 HELIX 13 13 ASP A 712 HIS A 733 1 22 HELIX 14 14 PRO A 755 LEU A 778 1 24 HELIX 15 15 ALA A 782 VAL A 801 1 20 HELIX 16 16 THR A 811 MET A 821 1 11 HELIX 17 17 PRO A 825 ALA A 827 5 3 HELIX 18 18 LEU A 828 LYS A 843 1 16 HELIX 19 19 GLY A 853 THR A 864 1 12 HELIX 20 20 HIS A 866 GLN A 876 1 11 HELIX 21 21 TRP A 882 LYS A 888 1 7 HELIX 22 22 TYR A 917 SER A 921 5 5 HELIX 23 23 VAL A 922 ILE A 930 1 9 HELIX 24 24 ALA A 938 TYR A 940 5 3 HELIX 25 25 HIS A 998 VAL A 1002 5 5 SHEET 1 A 2 ARG A 5 VAL A 6 0 SHEET 2 A 2 MET A 31 ALA A 32 -1 O ALA A 32 N ARG A 5 SHEET 1 B 3 SER A 10 VAL A 11 0 SHEET 2 B 3 ARG A 26 SER A 28 -1 O SER A 28 N SER A 10 SHEET 3 B 3 VAL A 73 PRO A 74 -1 O VAL A 73 N LEU A 27 SHEET 1 C 5 LEU A 18 LEU A 20 0 SHEET 2 C 5 SER A 106 THR A 110 1 O GLU A 109 N LEU A 20 SHEET 3 C 5 ARG A 85 ASP A 94 -1 N TYR A 86 O TRP A 108 SHEET 4 C 5 GLN A 40 ALA A 48 -1 N SER A 41 O TRP A 93 SHEET 5 C 5 TRP A 60 ASP A 61 -1 O TRP A 60 N VAL A 47 SHEET 1 D 5 LEU A 18 LEU A 20 0 SHEET 2 D 5 SER A 106 THR A 110 1 O GLU A 109 N LEU A 20 SHEET 3 D 5 ARG A 85 ASP A 94 -1 N TYR A 86 O TRP A 108 SHEET 4 D 5 GLN A 40 ALA A 48 -1 N SER A 41 O TRP A 93 SHEET 5 D 5 VAL A 65 VAL A 66 -1 O VAL A 65 N TYR A 43 SHEET 1 E 2 ILE A 123 SER A 124 0 SHEET 2 E 2 ARG A 462 GLY A 463 -1 O ARG A 462 N SER A 124 SHEET 1 F 2 SER A 139 TRP A 142 0 SHEET 2 F 2 LYS A 282 ALA A 286 -1 O ALA A 285 N TRP A 140 SHEET 1 G 5 ALA A 189 ARG A 193 0 SHEET 2 G 5 VAL A 181 VAL A 186 -1 N VAL A 184 O VAL A 191 SHEET 3 G 5 GLY A 218 SER A 227 -1 O ALA A 223 N SER A 185 SHEET 4 G 5 THR A 156 LEU A 165 -1 N ARG A 161 O LEU A 222 SHEET 5 G 5 LYS A 258 THR A 260 -1 O LYS A 258 N ARG A 160 SHEET 1 H 4 ALA A 207 ASP A 210 0 SHEET 2 H 4 GLY A 171 ASP A 179 -1 N LEU A 174 O ILE A 209 SHEET 3 H 4 GLY A 235 THR A 244 -1 O GLY A 235 N ASP A 179 SHEET 4 H 4 GLY A 247 PHE A 252 -1 O LYS A 249 N LEU A 242 SHEET 1 I 6 ARG A 336 ARG A 337 0 SHEET 2 I 6 LEU A 328 LEU A 333 -1 N LEU A 333 O ARG A 336 SHEET 3 I 6 GLY A 368 ALA A 377 -1 O ALA A 373 N HIS A 332 SHEET 4 I 6 ASN A 303 LEU A 311 -1 N HIS A 307 O LEU A 372 SHEET 5 I 6 ARG A 422 ALA A 424 -1 O ALA A 424 N GLN A 304 SHEET 6 I 6 LEU A 459 ALA A 460 -1 O LEU A 459 N ALA A 423 SHEET 1 J 5 SER A 412 THR A 416 0 SHEET 2 J 5 ALA A 398 TYR A 407 -1 N LEU A 403 O ILE A 415 SHEET 3 J 5 VAL A 316 LEU A 326 -1 N ARG A 318 O GLU A 406 SHEET 4 J 5 ARG A 353 ASP A 360 -1 O GLN A 357 N ALA A 323 SHEET 5 J 5 GLN A 471 ALA A 474 1 O VAL A 473 N VAL A 354 SHEET 1 K 7 ILE A 428 ASP A 432 0 SHEET 2 K 7 GLY A 436 ASP A 440 -1 O THR A 438 N SER A 430 SHEET 3 K 7 THR A 548 THR A 552 1 O THR A 550 N TYR A 439 SHEET 4 K 7 THR A 522 ALA A 528 -1 N VAL A 523 O TYR A 551 SHEET 5 K 7 HIS A 568 THR A 576 -1 O TYR A 572 N ALA A 528 SHEET 6 K 7 VAL A 498 VAL A 515 -1 N MET A 507 O PHE A 570 SHEET 7 K 7 LYS A 490 LYS A 495 -1 N THR A 492 O VAL A 500 SHEET 1 L 4 VAL A 480 PRO A 487 0 SHEET 2 L 4 VAL A 587 THR A 594 -1 O VAL A 591 N ALA A 483 SHEET 3 L 4 VAL A 498 VAL A 515 -1 N SER A 510 O ARG A 590 SHEET 4 L 4 GLU A 559 TYR A 561 -1 O TYR A 561 N LEU A 513 SHEET 1 M 2 VAL A 530 LEU A 531 0 SHEET 2 M 2 ILE A 537 TYR A 538 -1 O TYR A 538 N VAL A 530 SHEET 1 N 6 PHE A 600 THR A 604 0 SHEET 2 N 6 SER A 955 SER A 962 -1 O THR A 959 N GLU A 601 SHEET 3 N 6 GLY A 965 ARG A 974 -1 O VAL A 967 N PHE A 960 SHEET 4 N 6 GLY A 977 VAL A 984 -1 O THR A 981 N ARG A 970 SHEET 5 N 6 GLY A1024 VAL A1030 -1 O GLY A1024 N VAL A 984 SHEET 6 N 6 GLN A1003 HIS A1004 -1 N GLN A1003 O THR A1029 SHEET 1 O 5 ALA A 934 ARG A 937 0 SHEET 2 O 5 GLN A 942 ILE A 945 -1 O VAL A 944 N ALA A 934 SHEET 3 O 5 THR A 989 PRO A 995 1 O GLU A 991 N ILE A 945 SHEET 4 O 5 CYS A1016 VAL A1021 -1 O PHE A1019 N VAL A 992 SHEET 5 O 5 THR A1008 GLU A1013 -1 N ARG A1011 O VAL A1018 LINK OD1 ASP A 179 CA CA A1201 1555 1555 2.35 LINK OD1 ASN A 180 CA CA A1201 1555 1555 2.63 LINK OD1 ASN A 228 CA CA A1201 1555 1555 2.33 LINK O PRO A 233 CA CA A1201 1555 1555 2.46 LINK CA CA A1201 O HOH A2076 1555 1555 2.63 LINK CA CA A1201 O HOH A2181 1555 1555 2.59 LINK CA CA A1201 O HOH A2255 1555 1555 2.42 CISPEP 1 ASP A 179 ASN A 180 0 8.65 CISPEP 2 ALA A 344 PRO A 345 0 10.22 CISPEP 3 ALA A 682 PRO A 683 0 -6.18 CISPEP 4 PHE A 879 PRO A 880 0 -10.75 SITE 1 AC1 7 ASP A 179 ASN A 180 ASN A 228 PRO A 233 SITE 2 AC1 7 HOH A2076 HOH A2181 HOH A2255 SITE 1 AC2 7 LEU A 18 GLY A 19 GLN A 357 THR A 358 SITE 2 AC2 7 PRO A 479 HOH A2252 HOH A2488 SITE 1 AC3 9 ASP A 630 ARG A 634 TRP A 640 ASP A 643 SITE 2 AC3 9 TRP A 695 TRP A 747 GLU A 895 HIS A 916 SITE 3 AC3 9 HOH A2352 CRYST1 52.769 128.414 75.173 90.00 99.34 90.00 P 1 21 1 2 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 0.018951 0.000000 0.003118 0.00000 SCALE2 0.000000 0.007787 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013481 0.00000