HEADER TRANSPORT PROTEIN 15-FEB-23 8CKD TITLE PBP ACCA FROM A. FABRUM C58 IN COMPLEX WITH AGROCINOPINE D-LIKE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ABC TRANSPORTER SUBSTRATE-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 30-521; COMPND 5 SYNONYM: AGROCINOPINE UTILIZATION PERIPLASMIC BINDING PROTEIN ACCA; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM FABRUM STR. C58; SOURCE 3 ORGANISM_TAXID: 176299; SOURCE 4 GENE: ACCA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 6 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 8CKD 1 JRNL REVDAT 1 24-JAN-24 8CKD 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. 1.60 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 63379 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3169 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.61 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.90 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1268 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3710 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1205 REMARK 3 BIN R VALUE (WORKING SET) : 0.3676 REMARK 3 BIN FREE R VALUE : 0.4378 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.97 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 3945 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 546 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.85650 REMARK 3 B22 (A**2) : 0.39600 REMARK 3 B33 (A**2) : -3.25240 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) : 0.200 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.097 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.091 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.113 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.088 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 : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 8131 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 14705 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2395 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1249 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 8131 ; 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 : 530 ; 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 : 8095 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.03 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.66 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.25 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|32 - A|240 } REMARK 3 ORIGIN FOR THE GROUP (A): 31.1776 20.3197 153.2370 REMARK 3 T TENSOR REMARK 3 T11: -0.0284 T22: 0.0468 REMARK 3 T33: -0.0353 T12: -0.0067 REMARK 3 T13: -0.0130 T23: 0.0561 REMARK 3 L TENSOR REMARK 3 L11: 0.6327 L22: 0.4544 REMARK 3 L33: 0.4578 L12: 0.7401 REMARK 3 L13: -0.1686 L23: 0.1375 REMARK 3 S TENSOR REMARK 3 S11: 0.0232 S12: -0.0795 S13: -0.0878 REMARK 3 S21: 0.0414 S22: -0.0563 S23: -0.0218 REMARK 3 S31: -0.0228 S32: 0.1508 S33: 0.0331 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|241 - A|521 } REMARK 3 ORIGIN FOR THE GROUP (A): 15.3216 7.6220 137.6290 REMARK 3 T TENSOR REMARK 3 T11: 0.0050 T22: -0.0185 REMARK 3 T33: 0.0033 T12: 0.0071 REMARK 3 T13: 0.0402 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.4117 L22: 0.0355 REMARK 3 L33: 0.6667 L12: 0.1274 REMARK 3 L13: -0.0485 L23: 0.0499 REMARK 3 S TENSOR REMARK 3 S11: -0.0450 S12: 0.0169 S13: -0.0880 REMARK 3 S21: 0.0033 S22: -0.0445 S23: -0.0187 REMARK 3 S31: 0.0473 S32: 0.0152 S33: 0.0895 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|604 - A|606 A|701 - A|1246 } REMARK 3 ORIGIN FOR THE GROUP (A): 21.6829 14.7162 143.4910 REMARK 3 T TENSOR REMARK 3 T11: -0.0173 T22: -0.0027 REMARK 3 T33: 0.0007 T12: 0.0064 REMARK 3 T13: 0.0148 T23: 0.0205 REMARK 3 L TENSOR REMARK 3 L11: 0.2396 L22: 0.1692 REMARK 3 L33: 0.2420 L12: 0.1728 REMARK 3 L13: -0.0483 L23: 0.0610 REMARK 3 S TENSOR REMARK 3 S11: -0.0365 S12: -0.0201 S13: -0.0500 REMARK 3 S21: -0.0079 S22: -0.0175 S23: -0.0083 REMARK 3 S31: 0.0155 S32: 0.0339 S33: 0.0540 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS WERE FULLY REFINED REMARK 3 WITH FULL OCCUPANCY AT NUCLEAR POSITION. REMARK 4 REMARK 4 8CKD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-FEB-23. REMARK 100 THE DEPOSITION ID IS D_1292128676. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98010 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63379 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 42.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.36000 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 (%): 42.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, NH4 ACETATE, CITRATE NA, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+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 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 39.04500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.11000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.56500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.04500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.11000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.56500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.04500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 54.11000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.56500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.04500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 54.11000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 56.56500 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: 420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 6.0 KCAL/MOL 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 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 CZ ARG A 355 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 MET A 29 REMARK 465 GLN A 30 REMARK 465 GLU A 31 REMARK 465 HIS A 522 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 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 HZ2 LYS A 143 O HOH A 706 1.53 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 -178.25 -179.83 REMARK 500 ALA A 87 -106.64 -139.49 REMARK 500 LYS A 98 20.31 -142.94 REMARK 500 LEU A 130 -62.96 -108.52 REMARK 500 ASP A 215 -58.95 -135.49 REMARK 500 LYS A 322 -1.17 75.24 REMARK 500 ASN A 349 88.12 -156.22 REMARK 500 ASN A 374 45.39 -107.76 REMARK 500 TRP A 414 -81.63 -119.16 REMARK 500 THR A 425 48.18 -84.89 REMARK 500 LEU A 489 -60.97 -96.83 REMARK 500 SER A 508 41.20 -80.02 REMARK 500 ASN A 517 40.73 -152.49 REMARK 500 LEU A 518 116.87 -161.14 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 A1216 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A1217 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A1218 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A1219 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A1220 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A1221 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH A1222 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH A1223 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH A1224 DISTANCE = 6.84 ANGSTROMS REMARK 525 HOH A1225 DISTANCE = 6.89 ANGSTROMS REMARK 525 HOH A1226 DISTANCE = 7.12 ANGSTROMS REMARK 525 HOH A1227 DISTANCE = 7.22 ANGSTROMS REMARK 525 HOH A1228 DISTANCE = 7.45 ANGSTROMS REMARK 525 HOH A1229 DISTANCE = 7.75 ANGSTROMS REMARK 525 HOH A1230 DISTANCE = 7.86 ANGSTROMS REMARK 525 HOH A1231 DISTANCE = 7.93 ANGSTROMS REMARK 525 HOH A1232 DISTANCE = 8.11 ANGSTROMS REMARK 525 HOH A1233 DISTANCE = 8.59 ANGSTROMS REMARK 525 HOH A1234 DISTANCE = 9.23 ANGSTROMS REMARK 525 HOH A1235 DISTANCE = 9.28 ANGSTROMS REMARK 525 HOH A1236 DISTANCE = 9.64 ANGSTROMS REMARK 525 HOH A1237 DISTANCE = 9.68 ANGSTROMS REMARK 525 HOH A1238 DISTANCE = 10.72 ANGSTROMS REMARK 525 HOH A1239 DISTANCE = 10.80 ANGSTROMS REMARK 525 HOH A1240 DISTANCE = 10.86 ANGSTROMS REMARK 525 HOH A1241 DISTANCE = 11.53 ANGSTROMS REMARK 525 HOH A1242 DISTANCE = 11.74 ANGSTROMS REMARK 525 HOH A1243 DISTANCE = 13.37 ANGSTROMS REMARK 525 HOH A1244 DISTANCE = 13.61 ANGSTROMS REMARK 525 HOH A1245 DISTANCE = 15.55 ANGSTROMS REMARK 525 HOH A1246 DISTANCE = 15.70 ANGSTROMS REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: AGROCINOPINE D-LIKE (C2-C2 LINKED; WITH AN ALPHA REMARK 630 AND 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 Y4H A 601 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: GLC BNX REMARK 630 DETAILS: NULL REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: AGROCINOPINE D-LIKE (C2-C2 LINKED; WITH TWO ALPHA-D- REMARK 630 GLUCOPYRANOSES) 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 Y45 A 602 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: GLC ALX REMARK 630 DETAILS: NULL DBREF 8CKD A 30 521 UNP Q52012 Q52012_AGRFC 30 521 SEQADV 8CKD MET A 29 UNP Q52012 INITIATING METHIONINE SEQADV 8CKD HIS A 522 UNP Q52012 EXPRESSION TAG SEQADV 8CKD HIS A 523 UNP Q52012 EXPRESSION TAG SEQADV 8CKD HIS A 524 UNP Q52012 EXPRESSION TAG SEQADV 8CKD HIS A 525 UNP Q52012 EXPRESSION TAG SEQADV 8CKD HIS A 526 UNP Q52012 EXPRESSION TAG SEQADV 8CKD HIS A 527 UNP Q52012 EXPRESSION TAG SEQRES 1 A 499 MET GLN GLU ARG ARG ALA LEU ARG LEU GLY VAL ASN GLY SEQRES 2 A 499 LEU PRO ASN SER LEU GLU PRO VAL ASN ALA ILE SER ASN SEQRES 3 A 499 VAL GLY PRO ARG ILE VAL ASN GLN ILE PHE ASP THR LEU SEQRES 4 A 499 ILE ALA ARG ASP PHE PHE ALA LYS GLY ALA PRO GLY ASN SEQRES 5 A 499 ALA ILE ASP LEU VAL PRO ALA LEU ALA GLU SER TRP GLU SEQRES 6 A 499 ARG ILE ASP GLU LYS SER VAL ARG PHE LYS LEU ARG GLN SEQRES 7 A 499 LYS VAL MET PHE HIS ASP GLY VAL GLU LEU THR ALA ASP SEQRES 8 A 499 ASP VAL ALA TYR THR PHE SER SER GLU ARG LEU TRP GLY SEQRES 9 A 499 PRO GLU ALA ILE LYS LYS ILE PRO LEU GLY LYS SER TYR SEQRES 10 A 499 SER LEU ASP PHE ASP GLU PRO VAL VAL GLU ASP LYS TYR SEQRES 11 A 499 THR VAL THR LEU ARG THR LYS THR PRO SER TYR LEU ILE SEQRES 12 A 499 GLU THR PHE VAL ALA SER TRP MET SER ARG ILE VAL PRO SEQRES 13 A 499 LYS GLU TYR TYR LYS LYS LEU GLY ALA VAL ASP PHE GLY SEQRES 14 A 499 ASN LYS PRO VAL GLY THR GLY PRO TYR LYS PHE VAL GLU SEQRES 15 A 499 PHE VAL ALA GLY ASP ARG VAL VAL LEU GLU ALA ASN ASP SEQRES 16 A 499 ALA TYR TRP GLY PRO LYS PRO THR ALA SER LYS ILE THR SEQRES 17 A 499 TYR GLN ILE VAL ALA GLU PRO ALA THR ARG VAL ALA GLY SEQRES 18 A 499 LEU ILE SER GLY GLU TYR ASP ILE ILE THR THR LEU THR SEQRES 19 A 499 PRO ASP ASP ILE GLN LEU ILE ASN SER TYR PRO ASP LEU SEQRES 20 A 499 GLU THR ARG GLY THR LEU ILE GLU ASN PHE HIS MET PHE SEQRES 21 A 499 THR PHE ASN MET ASN GLN GLU VAL PHE LYS ASP LYS LYS SEQRES 22 A 499 LEU ARG ARG ALA LEU ALA LEU ALA VAL ASN ARG PRO ILE SEQRES 23 A 499 MET VAL GLU ALA LEU TRP LYS LYS GLN ALA SER ILE PRO SEQRES 24 A 499 ALA GLY PHE ASN PHE PRO ASN TYR GLY GLU THR PHE ASP SEQRES 25 A 499 PRO LYS ARG LYS ALA MET GLU TYR ASN VAL GLU GLU ALA SEQRES 26 A 499 LYS ARG LEU VAL LYS GLU SER GLY TYR ASP GLY THR PRO SEQRES 27 A 499 ILE THR TYR HIS THR MET GLY ASN TYR TYR ALA ASN ALA SEQRES 28 A 499 MET PRO ALA LEU MET MET MET ILE GLU MET TRP LYS GLN SEQRES 29 A 499 ILE GLY VAL ASN VAL VAL MET LYS THR TYR ALA PRO GLY SEQRES 30 A 499 SER PHE PRO PRO ASP ASN GLN THR TRP MET ARG ASN TRP SEQRES 31 A 499 SER ASN GLY GLN TRP MET THR ASP ALA TYR ALA THR ILE SEQRES 32 A 499 VAL PRO GLU PHE GLY PRO ASN GLY GLN VAL GLN LYS ARG SEQRES 33 A 499 TRP GLY TRP LYS ALA PRO ALA GLU PHE ASN GLU LEU CYS SEQRES 34 A 499 GLN LYS VAL THR VAL LEU PRO ASN GLY LYS GLU ARG PHE SEQRES 35 A 499 ASP ALA TYR ASN ARG MET ARG ASP ILE PHE GLU GLU GLU SEQRES 36 A 499 ALA PRO ALA VAL ILE LEU TYR GLN PRO TYR ASP VAL TYR SEQRES 37 A 499 ALA ALA ARG LYS ASP VAL HIS TRP LYS PRO VAL SER PHE SEQRES 38 A 499 GLU MET MET GLU PHE ARG ASN ASN LEU SER PHE GLY HIS SEQRES 39 A 499 HIS HIS HIS HIS HIS HET Y4H A 601 37 HET Y45 A 602 37 HET EDO A 603 10 HET EDO A 604 10 HET EDO A 605 10 HETNAM Y4H AGROCINOPINE D-LIKE (C2-C2 LINKED; WITH AN ALPHA AND HETNAM 2 Y4H BETA-D-GLUCOPYRANOSE) HETNAM Y45 AGROCINOPINE D-LIKE (C2-C2 LINKED; WITH TWO ALPHA-D- HETNAM 2 Y45 GLUCOPYRANOSES) HETNAM EDO 1,2-ETHANEDIOL HETSYN Y4H AGROCINOPINE D-LIKE; [(2~{S},3~{R},4~{S},5~{S},6~{R})- HETSYN 2 Y4H 6-(HYDROXYMETHYL)-2,4,5-TRIS(OXIDANYL)OXAN-3-YL] HETSYN 3 Y4H [(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(HYDROXYMETHYL)-2, HETSYN 4 Y4H 4,5-TRIS(OXIDANYL)OXAN-3-YL] HYDROGEN PHOSPHATE; D- HETSYN 5 Y4H GLUCOSE-2-PHOSPHATE-2-GLUCOSE HETSYN Y45 AGROCINOPINE D-LIKE; BIS[(2S,3R,4S,5S,6R)-6- HETSYN 2 Y45 (HYDROXYMETHYL)-2,4,5-TRIS(OXIDANYL)OXAN-3-YL] HETSYN 3 Y45 HYDROGEN PHOSPHATE; D-GLUCOSE-2-PHOSPHATE-2-GLUCOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 Y4H C12 H23 O14 P FORMUL 3 Y45 C12 H23 O14 P FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 HOH *546(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 GLY A 132 LYS A 137 5 6 HELIX 5 AA5 LEU A 141 SER A 146 1 6 HELIX 6 AA6 LEU A 170 ALA A 176 1 7 HELIX 7 AA7 PRO A 184 LYS A 199 1 16 HELIX 8 AA8 GLU A 242 SER A 252 1 11 HELIX 9 AA9 THR A 262 ASP A 264 5 3 HELIX 10 AB1 ASP A 265 TYR A 272 1 8 HELIX 11 AB2 GLN A 294 LYS A 298 5 5 HELIX 12 AB3 ASP A 299 ALA A 309 1 11 HELIX 13 AB4 ASN A 311 LYS A 321 1 11 HELIX 14 AB5 PHE A 332 PHE A 339 5 8 HELIX 15 AB6 ASN A 349 SER A 360 1 12 HELIX 16 AB7 ASN A 378 GLN A 392 1 15 HELIX 17 AB8 PRO A 409 THR A 413 5 5 HELIX 18 AB9 ALA A 427 GLY A 436 1 10 HELIX 19 AC1 GLY A 439 ARG A 444 1 6 HELIX 20 AC2 PRO A 450 LEU A 463 1 14 HELIX 21 AC3 GLY A 466 ALA A 484 1 19 SHEET 1 AA1 7 TYR A 206 VAL A 212 0 SHEET 2 AA1 7 ARG A 216 ALA A 221 -1 O GLU A 220 N LYS A 207 SHEET 3 AA1 7 LYS A 234 ILE A 239 -1 O TYR A 237 N VAL A 217 SHEET 4 AA1 7 LEU A 35 VAL A 39 1 N LEU A 35 O LYS A 234 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 ALA A 497 N ILE A 258 SHEET 7 AA1 7 LEU A 275 LEU A 281 -1 N GLU A 276 O ALA A 498 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 ALA 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 LYS A 103 N SER A 91 SHEET 3 AA3 4 THR A 159 THR A 164 -1 O VAL A 160 N PHE A 102 SHEET 4 AA3 4 PHE A 149 ASP A 156 -1 N ASP A 150 O ARG A 163 SHEET 1 AA4 5 VAL A 397 THR 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 MET A 415 GLY A 421 1 O MET A 415 N THR A 368 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 VAL A 487 N PHE A 288 SHEET 1 AA5 2 VAL A 502 HIS A 503 0 SHEET 2 AA5 2 SER A 519 PHE A 520 -1 O SER A 519 N HIS A 503 CISPEP 1 ALA A 429 THR A 430 0 -1.51 CRYST1 78.090 108.220 113.130 90.00 90.00 90.00 I 2 2 2 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 0.012806 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009240 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008839 0.00000