HEADER PLANT PROTEIN 22-JUN-21 7F5J TITLE THE CRYSTAL STRUCTURE OF VYPAL2-I244V, A MORE EFFICIENT MUTANT OF TITLE 2 VYPAL2 PEPTIDE ASPARAGINYL LIGASE IN ITS ACTIVE ENZYME FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE ASPARAGINYL LIGASES; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: D171 (FORMING SNN), RESIDUE 172 IS HD0 (HIS + SNN) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIOLA PHILIPPICA; SOURCE 3 ORGANISM_TAXID: 316493; SOURCE 4 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS AEP, LEGUMAIN, PEPTIDE LIGASE, PAL, PLANT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.HU,A.SAHILI,J.LESCAR REVDAT 6 01-MAY-24 7F5J 1 TITLE REVDAT 5 29-NOV-23 7F5J 1 REMARK REVDAT 4 15-NOV-23 7F5J 1 ATOM REVDAT 3 14-DEC-22 7F5J 1 JRNL REVDAT 2 30-NOV-22 7F5J 1 JRNL REVDAT 1 29-JUN-22 7F5J 0 JRNL AUTH S.HU,A.EL SAHILI,S.KISHORE,Y.H.WONG,X.HEMU,B.C.GOH,S.ZHIPEI, JRNL AUTH 2 Z.WANG,J.P.TAM,C.F.LIU,J.LESCAR JRNL TITL STRUCTURAL BASIS FOR PROENZYME MATURATION, SUBSTRATE JRNL TITL 2 RECOGNITION, AND LIGATION BY A HYPERACTIVE PEPTIDE JRNL TITL 3 ASPARAGINYL LIGASE. JRNL REF PLANT CELL V. 34 4936 2022 JRNL REFN ESSN 1532-298X JRNL PMID 36099055 JRNL DOI 10.1093/PLCELL/KOAC281 REMARK 2 REMARK 2 RESOLUTION. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 74372 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3721 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.59 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.61 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.06 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : NULL REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3941 REMARK 3 BIN FREE R VALUE : 0.4455 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 75 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 : 4231 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 156 REMARK 3 SOLVENT ATOMS : 500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.99770 REMARK 3 B22 (A**2) : -4.16570 REMARK 3 B33 (A**2) : -2.83200 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) : 0.086 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.085 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.081 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.082 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 : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4538 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6164 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1537 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 774 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4538 ; 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 : 612 ; 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 : 4252 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.95 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.70 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 14.90 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 35.4048 -8.5187 -8.7539 REMARK 3 T TENSOR REMARK 3 T11: -0.0805 T22: -0.0792 REMARK 3 T33: -0.073 T12: 0.0007 REMARK 3 T13: -0.0088 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 2.1135 L22: 1.3338 REMARK 3 L33: 1.1151 L12: 0.526 REMARK 3 L13: -0.357 L23: -0.5016 REMARK 3 S TENSOR REMARK 3 S11: -0.0176 S12: -0.0998 S13: 0.0366 REMARK 3 S21: -0.0998 S22: 0.0682 S23: -0.0748 REMARK 3 S31: 0.0366 S32: -0.0748 S33: -0.0506 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): -2.9825 8.6526 -11.1216 REMARK 3 T TENSOR REMARK 3 T11: -0.0786 T22: -0.061 REMARK 3 T33: -0.0864 T12: -0.006 REMARK 3 T13: 0.0047 T23: -0.0141 REMARK 3 L TENSOR REMARK 3 L11: 2.3361 L22: 1.4241 REMARK 3 L33: 1.0851 L12: 0.9856 REMARK 3 L13: -0.0326 L23: -0.0742 REMARK 3 S TENSOR REMARK 3 S11: 0.0044 S12: 0.0373 S13: -0.0659 REMARK 3 S21: 0.0373 S22: -0.0224 S23: 0.094 REMARK 3 S31: -0.0659 S32: 0.094 S33: 0.018 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7F5J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JUN-21. REMARK 100 THE DEPOSITION ID IS D_1300022891. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-20 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 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 : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74533 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.593 REMARK 200 RESOLUTION RANGE LOW (A) : 46.060 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.08307 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 12.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.830 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: 6IDV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PH 5.5, 25% PEG 3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 38.13500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.06000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.49000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.06000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.13500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.49000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 1640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 SER A 50 REMARK 465 THR A 327 REMARK 465 PHE A 328 REMARK 465 VAL A 329 REMARK 465 ASP A 330 REMARK 465 GLU A 331 REMARK 465 ASN A 332 REMARK 465 SER B 50 REMARK 465 ILE B 51 REMARK 465 ASP B 324 REMARK 465 ASN B 325 REMARK 465 ARG B 326 REMARK 465 THR B 327 REMARK 465 PHE B 328 REMARK 465 VAL B 329 REMARK 465 ASP B 330 REMARK 465 GLU B 331 REMARK 465 ASN B 332 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 HD0 A 172 CA - C - N ANGL. DEV. = 27.2 DEGREES REMARK 500 HD0 B 172 CA - C - N ANGL. DEV. = 32.4 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 ASP A 97 32.59 74.40 REMARK 500 THR A 203 35.28 -84.89 REMARK 500 ASP B 97 35.11 77.33 REMARK 500 THR B 203 34.64 -94.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HD0 A 172 GLY A 173 -128.76 REMARK 500 HD0 B 172 GLY B 173 -127.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 HD0 A 172 28.78 REMARK 500 HD0 B 172 30.16 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 A 749 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH A 750 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A 751 DISTANCE = 7.60 ANGSTROMS REMARK 525 HOH B 748 DISTANCE = 8.14 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6IDV RELATED DB: PDB REMARK 900 6IDV IS THE WT PROTEIN WITH FULL LENGTH DBREF1 7F5J A 50 332 UNP A0A509GV09_9ROSI DBREF2 7F5J A A0A509GV09 50 332 DBREF1 7F5J B 50 332 UNP A0A509GV09_9ROSI DBREF2 7F5J B A0A509GV09 50 332 SEQADV 7F5J A UNP A0A509GV0 ASP 171 DELETION SEQADV 7F5J HD0 A 172 UNP A0A509GV0 HIS 172 CONFLICT SEQADV 7F5J VAL A 244 UNP A0A509GV0 ILE 244 ENGINEERED MUTATION SEQADV 7F5J B UNP A0A509GV0 ASP 171 DELETION SEQADV 7F5J HD0 B 172 UNP A0A509GV0 HIS 172 CONFLICT SEQADV 7F5J VAL B 244 UNP A0A509GV0 ILE 244 ENGINEERED MUTATION SEQRES 1 A 282 SER ILE GLY THR ARG TRP ALA VAL LEU ILE ALA GLY SER SEQRES 2 A 282 LYS GLY TYR HIS ASN TYR ARG HIS GLN ALA ASP VAL CYS SEQRES 3 A 282 HIS MET TYR GLN ILE LEU ARG LYS GLY GLY VAL LYS ASP SEQRES 4 A 282 GLU ASN ILE ILE VAL PHE MET TYR ASP ASP ILE ALA TYR SEQRES 5 A 282 ASN GLU SER ASN PRO PHE PRO GLY ILE ILE ILE ASN LYS SEQRES 6 A 282 PRO GLY GLY GLU ASN VAL TYR LYS GLY VAL PRO LYS ASP SEQRES 7 A 282 TYR THR GLY GLU ASP ILE ASN ASN VAL ASN PHE LEU ALA SEQRES 8 A 282 ALA ILE LEU GLY ASN LYS SER ALA ILE ILE GLY GLY SER SEQRES 9 A 282 GLY LYS VAL LEU ASP THR SER PRO ASN ASP HIS ILE PHE SEQRES 10 A 282 ILE TYR TYR ALA HD0 GLY ALA PRO GLY LYS ILE GLY MET SEQRES 11 A 282 PRO SER LYS PRO TYR LEU TYR ALA ASP ASP LEU VAL ASP SEQRES 12 A 282 THR LEU LYS GLN LYS ALA ALA THR GLY THR TYR LYS SER SEQRES 13 A 282 MET VAL PHE TYR VAL GLU ALA CYS ASN ALA GLY SER MET SEQRES 14 A 282 PHE GLU GLY LEU LEU PRO GLU GLY THR ASN ILE TYR ALA SEQRES 15 A 282 MET ALA ALA SER ASN SER THR GLU GLY SER TRP VAL THR SEQRES 16 A 282 TYR CYS PRO GLY THR PRO ASP PHE PRO PRO GLU PHE ASP SEQRES 17 A 282 VAL CYS LEU GLY ASP LEU TRP SER ILE THR PHE LEU GLU SEQRES 18 A 282 ASP CYS ASP ALA HIS ASN LEU ARG THR GLU THR VAL HIS SEQRES 19 A 282 GLN GLN PHE GLU LEU VAL LYS LYS LYS ILE ALA TYR ALA SEQRES 20 A 282 SER THR VAL SER GLN TYR GLY ASP ILE PRO ILE SER LYS SEQRES 21 A 282 ASP SER LEU SER VAL TYR MET GLY THR ASP PRO ALA ASN SEQRES 22 A 282 ASP ASN ARG THR PHE VAL ASP GLU ASN SEQRES 1 B 282 SER ILE GLY THR ARG TRP ALA VAL LEU ILE ALA GLY SER SEQRES 2 B 282 LYS GLY TYR HIS ASN TYR ARG HIS GLN ALA ASP VAL CYS SEQRES 3 B 282 HIS MET TYR GLN ILE LEU ARG LYS GLY GLY VAL LYS ASP SEQRES 4 B 282 GLU ASN ILE ILE VAL PHE MET TYR ASP ASP ILE ALA TYR SEQRES 5 B 282 ASN GLU SER ASN PRO PHE PRO GLY ILE ILE ILE ASN LYS SEQRES 6 B 282 PRO GLY GLY GLU ASN VAL TYR LYS GLY VAL PRO LYS ASP SEQRES 7 B 282 TYR THR GLY GLU ASP ILE ASN ASN VAL ASN PHE LEU ALA SEQRES 8 B 282 ALA ILE LEU GLY ASN LYS SER ALA ILE ILE GLY GLY SER SEQRES 9 B 282 GLY LYS VAL LEU ASP THR SER PRO ASN ASP HIS ILE PHE SEQRES 10 B 282 ILE TYR TYR ALA HD0 GLY ALA PRO GLY LYS ILE GLY MET SEQRES 11 B 282 PRO SER LYS PRO TYR LEU TYR ALA ASP ASP LEU VAL ASP SEQRES 12 B 282 THR LEU LYS GLN LYS ALA ALA THR GLY THR TYR LYS SER SEQRES 13 B 282 MET VAL PHE TYR VAL GLU ALA CYS ASN ALA GLY SER MET SEQRES 14 B 282 PHE GLU GLY LEU LEU PRO GLU GLY THR ASN ILE TYR ALA SEQRES 15 B 282 MET ALA ALA SER ASN SER THR GLU GLY SER TRP VAL THR SEQRES 16 B 282 TYR CYS PRO GLY THR PRO ASP PHE PRO PRO GLU PHE ASP SEQRES 17 B 282 VAL CYS LEU GLY ASP LEU TRP SER ILE THR PHE LEU GLU SEQRES 18 B 282 ASP CYS ASP ALA HIS ASN LEU ARG THR GLU THR VAL HIS SEQRES 19 B 282 GLN GLN PHE GLU LEU VAL LYS LYS LYS ILE ALA TYR ALA SEQRES 20 B 282 SER THR VAL SER GLN TYR GLY ASP ILE PRO ILE SER LYS SEQRES 21 B 282 ASP SER LEU SER VAL TYR MET GLY THR ASP PRO ALA ASN SEQRES 22 B 282 ASP ASN ARG THR PHE VAL ASP GLU ASN HET HD0 A 172 17 HET HD0 B 172 17 HET NAG C 1 14 HET FUC C 2 10 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 401 14 HET EDO A 402 4 HET EDO A 403 4 HET NAG A 404 14 HET EDO A 405 4 HET GOL A 406 6 HET EDO A 407 4 HET GOL A 408 6 HET GOL A 409 6 HET NAG B 401 14 HET GOL B 402 6 HET NAG B 403 14 HET EDO B 404 4 HET EDO B 405 4 HETNAM HD0 (2S)-2-[(3S)-3-AMINO-2,5-DIOXOPYRROLIDIN-1-YL]-3-(1H- HETNAM 2 HD0 IMIDAZOL-5-YL)PROPANOIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 HD0 2(C10 H12 N4 O4) FORMUL 3 NAG 7(C8 H15 N O6) FORMUL 3 FUC C6 H12 O5 FORMUL 6 EDO 6(C2 H6 O2) FORMUL 10 GOL 4(C3 H8 O3) FORMUL 19 HOH *500(H2 O) HELIX 1 AA1 GLY A 64 HIS A 66 5 3 HELIX 2 AA2 ASN A 67 GLY A 84 1 18 HELIX 3 AA3 LYS A 87 GLU A 89 5 3 HELIX 4 AA4 THR A 129 ILE A 133 5 5 HELIX 5 AA5 ASN A 134 GLY A 144 1 11 HELIX 6 AA6 ASN A 145 ILE A 149 5 5 HELIX 7 AA7 ALA A 188 GLY A 202 1 15 HELIX 8 AA8 ASN A 215 PHE A 220 5 6 HELIX 9 AA9 LEU A 264 HIS A 276 1 13 HELIX 10 AB1 THR A 282 ILE A 294 1 13 HELIX 11 AB2 ILE A 306 SER A 312 5 7 HELIX 12 AB3 LEU A 313 GLY A 318 1 6 HELIX 13 AB4 ASP A 320 ASP A 324 5 5 HELIX 14 AB5 GLY B 64 HIS B 66 5 3 HELIX 15 AB6 ASN B 67 GLY B 84 1 18 HELIX 16 AB7 LYS B 87 GLU B 89 5 3 HELIX 17 AB8 THR B 129 ILE B 133 5 5 HELIX 18 AB9 ASN B 134 GLY B 144 1 11 HELIX 19 AC1 ASN B 145 ILE B 149 5 5 HELIX 20 AC2 ALA B 188 GLY B 202 1 15 HELIX 21 AC3 ASN B 215 PHE B 220 5 6 HELIX 22 AC4 LEU B 264 HIS B 276 1 13 HELIX 23 AC5 ASN B 277 GLU B 281 5 5 HELIX 24 AC6 THR B 282 ILE B 294 1 13 HELIX 25 AC7 ILE B 306 SER B 312 5 7 HELIX 26 AC8 LEU B 313 GLY B 318 1 6 SHEET 1 AA1 6 ILE A 91 PHE A 94 0 SHEET 2 AA1 6 ARG A 54 ALA A 60 1 N LEU A 58 O PHE A 94 SHEET 3 AA1 6 HIS A 164 ALA A 170 1 O TYR A 168 N ILE A 59 SHEET 4 AA1 6 SER A 206 GLU A 212 1 O GLU A 212 N TYR A 169 SHEET 5 AA1 6 ILE A 230 ALA A 234 1 O TYR A 231 N MET A 207 SHEET 6 AA1 6 SER A 301 GLY A 304 -1 O SER A 301 N ALA A 234 SHEET 1 AA2 3 GLY A 173 ALA A 174 0 SHEET 2 AA2 3 LYS A 177 ILE A 178 -1 O LYS A 177 N ALA A 174 SHEET 3 AA2 3 LEU A 186 TYR A 187 -1 O LEU A 186 N ILE A 178 SHEET 1 AA3 2 VAL A 244 THR A 245 0 SHEET 2 AA3 2 GLY A 262 ASP A 263 -1 O GLY A 262 N THR A 245 SHEET 1 AA4 6 ILE B 91 PHE B 94 0 SHEET 2 AA4 6 ARG B 54 ALA B 60 1 N LEU B 58 O PHE B 94 SHEET 3 AA4 6 HIS B 164 ALA B 170 1 O TYR B 168 N ILE B 59 SHEET 4 AA4 6 SER B 206 GLU B 212 1 O TYR B 210 N ILE B 167 SHEET 5 AA4 6 ILE B 230 ALA B 234 1 O TYR B 231 N MET B 207 SHEET 6 AA4 6 SER B 301 GLY B 304 -1 O SER B 301 N ALA B 234 SHEET 1 AA5 3 GLY B 173 ALA B 174 0 SHEET 2 AA5 3 LYS B 177 ILE B 178 -1 O LYS B 177 N ALA B 174 SHEET 3 AA5 3 LEU B 186 TYR B 187 -1 O LEU B 186 N ILE B 178 SHEET 1 AA6 2 VAL B 244 THR B 245 0 SHEET 2 AA6 2 GLY B 262 ASP B 263 -1 O GLY B 262 N THR B 245 SSBOND 1 CYS A 247 CYS A 260 1555 1555 2.05 SSBOND 2 CYS B 247 CYS B 260 1555 1555 2.06 LINK ND2 ASN A 102 C1 NAG A 401 1555 1555 1.43 LINK ND2 ASN A 145 C1 NAG C 1 1555 1555 1.43 LINK C ALA A 170 N HD0 A 172 1555 1555 1.35 LINK C HD0 A 172 N GLY A 173 1555 1555 1.32 LINK ND2 ASN A 237 C1 NAG A 404 1555 1555 1.43 LINK ND2 ASN B 102 C1 NAG D 1 1555 1555 1.43 LINK ND2 ASN B 145 C1 NAG B 403 1555 1555 1.43 LINK C ALA B 170 N HD0 B 172 1555 1555 1.32 LINK C HD0 B 172 N GLY B 173 1555 1555 1.32 LINK ND2 ASN B 237 C1 NAG B 401 1555 1555 1.43 LINK O6 NAG C 1 C1 FUC C 2 1555 1555 1.39 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.40 CISPEP 1 LYS A 183 PRO A 184 0 4.49 CISPEP 2 LYS B 183 PRO B 184 0 4.42 CRYST1 76.270 78.980 92.120 90.00 90.00 90.00 P 21 21 21 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 0.013111 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012661 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010855 0.00000