HEADER TRANSPORT PROTEIN 31-JAN-23 8CDO TITLE PBP ACCA-F144YG440Q FROM A. TUMEFACIENS BO542 IN COMPLEX WITH TITLE 2 AGROCINOPINE C-LIKE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AGROCINOPINE UTILIZATION PERIPLASMIC BINDING PROTEIN ACCA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM TUMEFACIENS; SOURCE 3 ORGANISM_TAXID: 358; SOURCE 4 STRAIN: BO542; SOURCE 5 GENE: ACCA, AGRTICHRY5_232; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS PERIPLASMIC BINDING PROTEIN, SOLUTE BINDING PROTEIN, TRANSPORT KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.MORERA,A.VIGOUROUX REVDAT 2 07-FEB-24 8CDO 1 JRNL REVDAT 1 24-JAN-24 8CDO 0 JRNL AUTH S.MORERA,A.VIGOUROUX,M.AUMONT-NICAISE,M.AHMAR,T.MEYER, JRNL AUTH 2 A.EL SAHILI,G.DEICSICS,A.GONZALEZ-MULA,S.LI,J.DORE,S.SIRIGU, JRNL AUTH 3 P.LEGRAND,C.PENOT,F.ANDRE,D.FAURE,L.SOULERE,Y.QUENEAU,L.VIAL JRNL TITL A HIGHLY CONSERVED LIGAND-BINDING SITE FOR ACCA TRANSPORTERS JRNL TITL 2 OF ANTIBIOTIC AND QUORUM-SENSING REGULATOR IN AGROBACTERIUM JRNL TITL 3 LEADS TO A DIFFERENT SPECIFICITY. JRNL REF BIOCHEM.J. V. 481 93 2024 JRNL REFN ESSN 1470-8728 JRNL PMID 38058289 JRNL DOI 10.1042/BCJ20230273 REMARK 2 REMARK 2 RESOLUTION. 1.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.4 (21-NOV-2022) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 135283 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 6645 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.32 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 42.33 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2706 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2475 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2569 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE : 0.2572 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.06 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 137 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3798 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 142 REMARK 3 SOLVENT ATOMS : 616 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.130 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.042 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.044 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.042 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.042 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 8200 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 14832 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2462 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1274 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 8200 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 535 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 8404 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.17 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 5.89 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.92 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 8.9353 29.0439 -6.8148 REMARK 3 T TENSOR REMARK 3 T11: -0.0599 T22: -0.0658 REMARK 3 T33: -0.0642 T12: 0.0064 REMARK 3 T13: 0.0089 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 0.3847 L22: 0.2428 REMARK 3 L33: 0.2704 L12: -0.1256 REMARK 3 L13: -0.0011 L23: 0.0781 REMARK 3 S TENSOR REMARK 3 S11: -0.0138 S12: -0.0275 S13: 0.0018 REMARK 3 S21: -0.0105 S22: -0.0010 S23: 0.0033 REMARK 3 S31: -0.0067 S32: -0.0026 S33: 0.0148 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS WERE FULLY REFINED REMARK 3 WITH FULL OCCUPANCY AT NUCLEAR POSITION. REMARK 4 REMARK 4 8CDO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-FEB-23. REMARK 100 THE DEPOSITION ID IS D_1292128342. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 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 : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 135341 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.320 REMARK 200 RESOLUTION RANGE LOW (A) : 86.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 40.90 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.36 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 3.27000 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, TRIS-HCL, PH 8, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 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 61.05800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.05800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 61.05800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.05800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 61.05800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 61.05800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 61.05800 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 61.05800 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 61.05800 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 61.05800 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 61.05800 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 61.05800 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 61.05800 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 61.05800 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 61.05800 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 61.05800 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 61.05800 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 61.05800 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 TOTAL BURIED SURFACE AREA: 2890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 ISOMER OF AGROCINOPINE C. AGROCINOPINE C IS A MEMBER OF THE CLASS REMARK 400 OF AGROCINOPINES THAT CONSISTS OF SUCROSE AND D-GLUCOSE JOINED VIA REMARK 400 A PHOSPHODIESTER LINKAGE. 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 30 REMARK 465 PRO A 333 REMARK 465 HIS A 334 REMARK 465 TYR A 335 REMARK 465 GLY A 336 REMARK 465 ALA A 337 REMARK 465 THR A 338 REMARK 465 TYR A 339 REMARK 465 ASP A 340 REMARK 465 PRO A 341 REMARK 465 LYS A 342 REMARK 465 ARG A 343 REMARK 465 LYS A 344 REMARK 465 PRO A 345 REMARK 465 MET A 346 REMARK 465 HIS A 523 REMARK 465 HIS A 524 REMARK 465 HIS A 525 REMARK 465 HIS A 526 REMARK 465 HIS A 527 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 HIS A 522 CG ND1 CD2 CE1 NE2 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 HD21 ASN A 299 O HOH A 701 1.53 REMARK 500 O HOH A 707 O HOH A 1171 2.10 REMARK 500 ND2 ASN A 299 O HOH A 701 2.17 REMARK 500 O HOH A 835 O HOH A 1103 2.19 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 SER A 53 176.94 175.10 REMARK 500 ALA A 87 -97.78 -130.07 REMARK 500 ASP A 215 -64.08 -128.87 REMARK 500 ASN A 328 69.79 -103.21 REMARK 500 ASN A 374 41.52 -106.62 REMARK 500 LEU A 414 -83.56 -109.05 REMARK 500 LEU A 414 -81.75 -105.96 REMARK 500 LEU A 414 -74.54 -108.58 REMARK 500 GLN A 422 76.28 -101.15 REMARK 500 SER A 508 43.72 -82.22 REMARK 500 ASN A 517 39.48 -153.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 255 0.07 SIDE CHAIN REMARK 500 TYR A 369 0.07 SIDE CHAIN 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 A1314 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1315 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH A1316 DISTANCE = 6.78 ANGSTROMS REMARK 630 REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE NUTRIENT REMARK 630 MOLECULE NAME: 2-O-PHOSPHONO-BETA-D-GLUCOPYRANOSE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 BNX A 613 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: PHOSPHODIESTER OF D-BETA-GLUCOSE (BNX) AND SUCROSE (GLC- REMARK 630 FRU). REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE NUTRIENT REMARK 630 MOLECULE NAME: 2-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 ALX A 614 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: PHOSPHODIESTER OF D-ALPHA-GLUCOSE (ALX) AND SUCROSE (GLC- REMARK 630 FRU). DBREF1 8CDO A 31 521 UNP A0A2P0QK24_RHIRD DBREF2 8CDO A A0A2P0QK24 22 512 SEQADV 8CDO MET A 30 UNP A0A2P0QK2 INITIATING METHIONINE SEQADV 8CDO TYR A 145 UNP A0A2P0QK2 PHE 136 ENGINEERED MUTATION SEQADV 8CDO GLN A 440 UNP A0A2P0QK2 GLY 431 ENGINEERED MUTATION SEQADV 8CDO HIS A 522 UNP A0A2P0QK2 EXPRESSION TAG SEQADV 8CDO HIS A 523 UNP A0A2P0QK2 EXPRESSION TAG SEQADV 8CDO HIS A 524 UNP A0A2P0QK2 EXPRESSION TAG SEQADV 8CDO HIS A 525 UNP A0A2P0QK2 EXPRESSION TAG SEQADV 8CDO HIS A 526 UNP A0A2P0QK2 EXPRESSION TAG SEQADV 8CDO HIS A 527 UNP A0A2P0QK2 EXPRESSION TAG SEQRES 1 A 498 MET ASP ARG ARG ALA LEU ARG ILE GLY VAL ASN GLY LEU SEQRES 2 A 498 PRO PRO SER LEU GLU PRO ILE ASN GLY ILE SER ASN THR SEQRES 3 A 498 GLY PRO ARG ILE ILE ASN GLN ILE PHE ASP ALA LEU ILE SEQRES 4 A 498 ARG ARG ASP TYR PHE ALA ASP GLY ALA LYS GLY ASN ASN SEQRES 5 A 498 ILE LYS LEU VAL PRO ALA LEU ALA GLU SER PHE GLU ARG SEQRES 6 A 498 ILE ASP ASP LYS SER ILE ARG PHE LYS LEU ARG GLN GLY SEQRES 7 A 498 VAL LYS PHE HIS ASN GLY ALA GLU MET THR ALA GLU ASP SEQRES 8 A 498 VAL ALA PHE THR PHE SER SER GLU ARG LEU TRP GLY ASP SEQRES 9 A 498 GLU ALA ILE LYS THR VAL PRO ASN GLY ARG ASN TYR SER SEQRES 10 A 498 PRO ASN TRP ASP GLU PRO VAL VAL GLU ASP LYS TYR THR SEQRES 11 A 498 VAL VAL LEU ARG THR LYS THR PRO SER TYR LEU ILE GLU SEQRES 12 A 498 LYS TYR LEU GLY SER TRP LEU GLY PRO ILE VAL PRO LYS SEQRES 13 A 498 GLU TYR TYR LYS SER LEU GLY ALA VAL ALA PHE GLY ASN SEQRES 14 A 498 LYS PRO ILE GLY THR GLY PRO TYR LYS PHE ARG GLU LEU SEQRES 15 A 498 VAL ALA ASN ASP HIS VAL THR LEU GLU ALA ASN ASP GLY SEQRES 16 A 498 TYR TRP GLY ASP LYS PRO THR ALA SER THR ILE THR TYR SEQRES 17 A 498 GLN VAL VAL ALA GLU PRO ALA THR ARG VAL ALA GLY LEU SEQRES 18 A 498 ILE SER GLY GLU TYR ASP ILE ILE THR THR LEU THR PRO SEQRES 19 A 498 ASP ASP MET ALA LEU VAL ASP GLY TYR SER ASP LEU GLU SEQRES 20 A 498 THR ARG GLY THR LEU ILE GLU ASN LEU HIS MET PHE THR SEQRES 21 A 498 PHE ASN MET ASN GLN PRO ILE PHE GLN ASN LYS THR LEU SEQRES 22 A 498 ARG ARG ALA LEU ALA LEU ALA VAL ASN ARG PRO LEU ILE SEQRES 23 A 498 VAL GLU ALA LEU TRP LYS ASN LYS ALA SER ILE PRO ASN SEQRES 24 A 498 GLY PHE ASN PHE PRO HIS TYR GLY ALA THR TYR ASP PRO SEQRES 25 A 498 LYS ARG LYS PRO MET GLU PHE ASN LEU LYS GLU ALA LYS SEQRES 26 A 498 ARG LEU VAL LYS GLU SER GLY TYR ASP GLY THR PRO ILE SEQRES 27 A 498 THR TYR HIS THR MET GLY ASN TYR TYR ALA ASN ALA VAL SEQRES 28 A 498 PRO ALA LEU MET MET MET ILE GLU MET TRP LYS ALA ALA SEQRES 29 A 498 GLY ILE THR VAL VAL PRO LYS ILE PHE ALA PRO GLY THR SEQRES 30 A 498 THR PRO LYS ASP SER ASP ILE LEU ILE ARG ASN TRP SER SEQRES 31 A 498 ASN GLY GLN TRP LEU THR ASP GLY LEU THR THR MET VAL SEQRES 32 A 498 SER GLU PHE GLY PRO GLY ARG GLN VAL GLN LYS ARG TRP SEQRES 33 A 498 GLY TRP LYS ALA PRO ALA GLU PHE ASN ASN LEU CYS ASP SEQRES 34 A 498 GLN VAL ALA GLN LEU LYS ASP GLY GLU GLU ARG SER ALA SEQRES 35 A 498 ALA PHE ASN ARG LEU ARG ASP ILE PHE GLU ASP GLU ALA SEQRES 36 A 498 PRO ALA VAL LEU MET TYR GLN PRO TYR ASP VAL TYR ALA SEQRES 37 A 498 ALA ARG LYS ASP VAL GLN TRP SER PRO VAL SER PHE GLU SEQRES 38 A 498 THR MET GLU PHE ARG GLY ASN LEU ASN PHE LYS HIS HIS SEQRES 39 A 498 HIS HIS HIS HIS HET GLC B 1 23 HET FRU B 2 19 HET GLC C 1 23 HET FRU C 2 19 HET PG4 A 601 31 HET PEG A 602 17 HET EDO A 603 10 HET EDO A 604 10 HET EDO A 605 10 HET EDO A 606 10 HET EDO A 607 10 HET EDO A 608 10 HET EDO A 609 10 HET EDO A 610 10 HET EDO A 611 10 HET PGE A 612 24 HET BNX A 613 15 HET ALX A 614 15 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM FRU BETA-D-FRUCTOFURANOSE HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETNAM PGE TRIETHYLENE GLYCOL HETNAM BNX 2-O-PHOSPHONO-BETA-D-GLUCOPYRANOSE HETNAM ALX 2-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN FRU BETA-D-FRUCTOSE; D-FRUCTOSE; FRUCTOSE HETSYN EDO ETHYLENE GLYCOL HETSYN BNX 2-O-PHOSPHONO-BETA-D-GLUCOSE; 2-O-PHOSPHONO-D-GLUCOSE; HETSYN 2 BNX 2-O-PHOSPHONO-GLUCOSE HETSYN ALX 2-O-PHOSPHONO-ALPHA-D-GLUCOSE; 2-O-PHOSPHONO-D-GLUCOSE; HETSYN 2 ALX 2-O-PHOSPHONO-GLUCOSE FORMUL 2 GLC 2(C6 H12 O6) FORMUL 2 FRU 2(C6 H12 O6) FORMUL 4 PG4 C8 H18 O5 FORMUL 5 PEG C4 H10 O3 FORMUL 6 EDO 9(C2 H6 O2) FORMUL 15 PGE C6 H14 O4 FORMUL 16 BNX C6 H13 O9 P FORMUL 17 ALX C6 H13 O9 P FORMUL 18 HOH *616(H2 O) HELIX 1 AA1 GLY A 56 PHE A 64 1 9 HELIX 2 AA2 PHE A 73 ALA A 77 5 5 HELIX 3 AA3 THR A 117 PHE A 125 1 9 HELIX 4 AA4 GLU A 134 THR A 138 5 5 HELIX 5 AA5 LEU A 170 GLY A 176 1 7 HELIX 6 AA6 PRO A 184 GLY A 197 1 14 HELIX 7 AA7 GLU A 242 SER A 252 1 11 HELIX 8 AA8 THR A 262 ASP A 270 5 9 HELIX 9 AA9 GLN A 294 GLN A 298 5 5 HELIX 10 AB1 ASN A 299 ALA A 309 1 11 HELIX 11 AB2 ASN A 311 LYS A 321 1 11 HELIX 12 AB3 ASN A 349 GLY A 361 1 13 HELIX 13 AB4 ASN A 378 ALA A 393 1 16 HELIX 14 AB5 LYS A 409 ILE A 413 5 5 HELIX 15 AB6 ASP A 426 GLY A 436 1 11 HELIX 16 AB7 ARG A 439 ARG A 444 1 6 HELIX 17 AB8 PRO A 450 LEU A 463 1 14 HELIX 18 AB9 GLY A 466 ALA A 484 1 19 SHEET 1 AA1 7 TYR A 206 VAL A 212 0 SHEET 2 AA1 7 HIS A 216 ALA A 221 -1 O GLU A 220 N LYS A 207 SHEET 3 AA1 7 THR A 234 VAL A 239 -1 O ILE A 235 N LEU A 219 SHEET 4 AA1 7 LEU A 35 VAL A 39 1 N ILE A 37 O THR A 236 SHEET 5 AA1 7 ILE A 257 LEU A 261 1 O ILE A 257 N GLY A 38 SHEET 6 AA1 7 TYR A 493 ARG A 499 -1 O VAL A 495 N LEU A 261 SHEET 7 AA1 7 LEU A 275 LEU A 281 -1 N ARG A 278 O TYR A 496 SHEET 1 AA2 2 ILE A 68 ARG A 70 0 SHEET 2 AA2 2 LEU A 84 PRO A 86 -1 O VAL A 85 N ARG A 69 SHEET 1 AA3 4 ALA A 89 ASP A 96 0 SHEET 2 AA3 4 SER A 99 LEU A 104 -1 O SER A 99 N ILE A 95 SHEET 3 AA3 4 THR A 159 ARG A 163 -1 O VAL A 160 N PHE A 102 SHEET 4 AA3 4 VAL A 153 ASP A 156 -1 N VAL A 153 O VAL A 161 SHEET 1 AA4 5 VAL A 397 ILE A 401 0 SHEET 2 AA4 5 ILE A 367 THR A 371 1 N TYR A 369 O LYS A 400 SHEET 3 AA4 5 ILE A 415 GLY A 421 1 O ILE A 415 N HIS A 370 SHEET 4 AA4 5 ASN A 284 PHE A 290 -1 N THR A 289 O ARG A 416 SHEET 5 AA4 5 ALA A 486 TYR A 490 -1 O MET A 489 N HIS A 286 SHEET 1 AA5 2 VAL A 502 GLN A 503 0 SHEET 2 AA5 2 ASN A 519 PHE A 520 -1 O ASN A 519 N GLN A 503 LINK PAMBBNX A 613 O1 BFRU C 2 1555 1555 1.54 LINK PAMAALX A 614 O1 AFRU B 2 1555 1555 1.54 LINK O1 AGLC B 1 C2 AFRU B 2 1555 1555 1.42 LINK O1 BGLC C 1 C2 BFRU C 2 1555 1555 1.42 CRYST1 122.116 122.116 122.116 90.00 90.00 90.00 P 21 3 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 0.008189 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008189 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008189 0.00000