HEADER TRANSFERASE 13-JUN-23 8PE2 TITLE CRYSTAL STRUCTURE OF GEL4 IN COMPLEX WITH NANOBODY 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1,3-BETA-GLUCANOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: NANOBODY 3; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS FUMIGATUS; SOURCE 3 ORGANISM_TAXID: 746128; SOURCE 4 GENE: CDV57_08969; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 9 ORGANISM_TAXID: 30538; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSGLYCOSYLASE, B-1, 3-GLUCAN, NANOBODIES, FUNGAL DISEASES, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.MACIAS-LEON,S.REDRADO-HERNANDEZ,J.CASTRO-LOPEZ,A.B.SANZ,M.ARIAS, AUTHOR 2 V.FARKAS,C.VINCKE,S.MUYLDERMANS,J.PARDO,J.ARROYO,E.GALVEZ,R.HURTADO- AUTHOR 3 GUERRERO REVDAT 1 19-JUN-24 8PE2 0 JRNL AUTH S.REDRADO-HERNANDEZ,J.MACIAS-LEON,J.CASTRO-LOPEZ,A.B.SANZ, JRNL AUTH 2 E.DOLADER,M.ARIAS,A.M.GONZALEZ-RAMIREZ,D.SANCHEZ-NAVARRO, JRNL AUTH 3 Y.PETRYK,V.FARKAS,C.VINCKE,S.MUYLDERMANS,I.GARCIA-BARBAZAN, JRNL AUTH 4 C.DEL AGUA,O.ZARAGOZA,J.ARROYO,J.PARDO,E.GALVEZ, JRNL AUTH 5 R.HURTADO-GUERRERO JRNL TITL BROAD PROTECTION AGAINST INVASIVE FUNGAL DISEASE FROM A JRNL TITL 2 NANOBODY TARGETING THE ACTIVE SITE OF FUNGAL JRNL TITL 3 B-1,3-GLUCANOSYLTRANSFERASES. JRNL REF ANGEW.CHEM.INT.ED.ENGL. 05823 2024 JRNL REFN ESSN 1521-3773 JRNL PMID 38856634 JRNL DOI 10.1002/ANIE.202405823 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0415 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 35285 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1514 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2552 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4366 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 178 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.08000 REMARK 3 B22 (A**2) : 0.08000 REMARK 3 B33 (A**2) : -0.16000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.040 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.622 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4567 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4081 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6204 ; 1.784 ; 1.671 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9429 ; 0.589 ; 1.581 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 560 ; 9.137 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 21 ; 8.470 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 719 ;14.577 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 683 ; 0.200 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5387 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1061 ; 0.001 ; 0.020 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): 2249 ; 3.650 ; 3.338 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2249 ; 3.651 ; 3.338 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2806 ; 4.827 ; 5.981 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2807 ; 4.827 ; 5.982 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2318 ; 4.884 ; 3.759 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2319 ; 4.884 ; 3.760 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3399 ; 6.786 ; 6.721 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5176 ; 8.173 ;35.940 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5174 ; 8.169 ;35.930 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 8PE2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1292131153. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-18 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9159 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36838 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : 0.14200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.99100 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: 2W62 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NPS, BUFFER SYSTEM 3, P500MME P20K, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.54167 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 71.08333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 71.08333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 35.54167 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLN A 51 REMARK 465 ALA A 52 REMARK 465 ASN A 53 REMARK 465 GLY A 54 REMARK 465 THR A 55 REMARK 465 SER A 56 REMARK 465 THR A 57 REMARK 465 GLU A 58 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 OG1 THR A 347 C1 MAN A 506 1.57 REMARK 500 REMARK 500 REMARK: NULL 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 ARG B 71 CB - CA - C ANGL. DEV. = -15.6 DEGREES REMARK 500 ARG B 100 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG B 100 NE - CZ - NH2 ANGL. DEV. = -4.4 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 GLN A 47 117.10 -171.64 REMARK 500 SER A 288 39.62 -94.79 REMARK 500 MET A 294 149.23 -171.55 REMARK 500 GLU A 298 -168.85 -129.10 REMARK 500 THR A 331 -70.48 -73.21 REMARK 500 ALA A 399 -11.45 -47.91 REMARK 500 ASP A 446 -64.88 -146.16 REMARK 500 ASN B 32 -119.70 -128.20 REMARK 500 ALA B 91 166.33 174.01 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 TYR A 293 MET A 294 57.77 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 ARG A 74 0.08 SIDE CHAIN REMARK 500 ARG B 53 0.10 SIDE CHAIN 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 TYR A 293 15.52 REMARK 500 MET A 294 -10.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 MAN A 506 DBREF1 8PE2 A 19 469 UNP A0A229W401_ASPFM DBREF2 8PE2 A A0A229W401 19 469 DBREF 8PE2 B 1 120 PDB 8PE2 8PE2 1 120 SEQRES 1 A 451 THR LEU PRO VAL ILE GLU ALA LYS GLY ASN LYS PHE PHE SEQRES 2 A 451 TYR SER ASN ASN GLY THR GLU PHE PHE ILE ARG GLY VAL SEQRES 3 A 451 ALA TYR GLN GLN GLU TYR GLN ALA ASN GLY THR SER THR SEQRES 4 A 451 GLU ASN SER ASP TYR THR ASP PRO LEU ALA ASN VAL ASP SEQRES 5 A 451 ASN CYS LYS ARG ASP ILE PRO TYR LEU LYS GLN LEU ARG SEQRES 6 A 451 THR ASN VAL ILE ARG THR TYR ALA VAL ASP PRO THR LYS SEQRES 7 A 451 ASP HIS ASP GLU CYS MET LYS LEU LEU ASP ASP ALA GLY SEQRES 8 A 451 ILE TYR LEU ILE THR ASP LEU SER ALA PRO SER GLU SER SEQRES 9 A 451 ILE ASN ARG ALA ASP PRO ALA TRP ASN THR ASP LEU TYR SEQRES 10 A 451 LYS ARG TYR THR SER VAL ILE ASP ALA PHE ALA LYS TYR SEQRES 11 A 451 SER ASN VAL ILE GLY PHE PHE ALA GLY ASN GLU VAL ALA SEQRES 12 A 451 ASN ASP ASN ASN ASN THR ASN SER ILE ALA TYR VAL LYS SEQRES 13 A 451 ALA ALA VAL ARG ASP MET LYS SER TYR ILE LYS SER LYS SEQRES 14 A 451 ASP TYR ARG SER SER LEU LEU VAL GLY TYR ALA THR ASP SEQRES 15 A 451 ASP ASP ALA HIS ILE ARG ALA ASP LEU ALA ASP TYR LEU SEQRES 16 A 451 VAL CYS GLY ASP LYS GLU SER SER ILE ASP MET PHE GLY SEQRES 17 A 451 TYR ASN ILE TYR GLU TRP CYS GLY ASP SER SER PHE GLU SEQRES 18 A 451 LYS SER GLY TYR LYS ASP ARG THR GLU GLU PHE SER LYS SEQRES 19 A 451 TYR PRO VAL PRO ALA PHE PHE SER GLU TYR GLY CYS ILE SEQRES 20 A 451 ASP PRO LYS PRO ARG LYS PHE THR ASP VAL ALA ALA LEU SEQRES 21 A 451 TYR GLY PRO GLN MET ASN ASP VAL TRP SER GLY GLY ILE SEQRES 22 A 451 VAL TYR MET TYR PHE GLN GLU ALA ASN ASP TYR GLY LEU SEQRES 23 A 451 VAL SER VAL SER GLY ASP ASN VAL LYS THR LYS GLU ASP SEQRES 24 A 451 PHE SER TYR LEU SER VAL GLN MET GLN LYS VAL THR ALA SEQRES 25 A 451 THR GLY VAL ASN SER ALA SER TYR THR ALA SER ASN THR SEQRES 26 A 451 ALA VAL PRO THR CYS PRO SER VAL GLY ALA LYS TRP GLU SEQRES 27 A 451 ALA SER ASN LYS LEU PRO PRO SER PRO ASN SER GLU LEU SEQRES 28 A 451 CYS ASP CYS MET VAL GLU THR LEU SER CYS THR VAL LYS SEQRES 29 A 451 ASP SER VAL ASP GLU LYS GLU TYR GLY ASP LEU PHE ASP SEQRES 30 A 451 TYR LEU CYS ALA ALA GLY VAL CYS GLY GLY ILE ASN SER SEQRES 31 A 451 ASN SER THR SER GLY ASP TYR GLY ALA TYR SER VAL CYS SEQRES 32 A 451 SER ALA LYS GLN LYS LEU SER PHE VAL MET ASN GLN TYR SEQRES 33 A 451 TYR LYS LYS ASN ASN LYS ALA ALA THR ALA CYS ASP PHE SEQRES 34 A 451 ASP GLY LYS ALA GLN THR LYS LYS GLY ALA ASP ALA SER SEQRES 35 A 451 GLY SER CYS ALA SER LEU ILE SER GLN SEQRES 1 B 120 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 120 ALA GLY GLY SER LEU ARG LEU ALA CYS ALA ALA SER GLY SEQRES 3 B 120 ASN ILE TYR SER THR ASN ALA MET ARG TRP TYR ARG GLN SEQRES 4 B 120 ALA PRO GLY LYS GLN ARG GLU LEU VAL ALA HIS ILE THR SEQRES 5 B 120 ARG GLY GLY ARG THR ASN TYR ALA ASP PHE VAL LYS GLY SEQRES 6 B 120 ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN MET VAL SEQRES 7 B 120 ASP LEU GLN MET ASP ASN LEU GLN PRO GLU ASP THR ALA SEQRES 8 B 120 VAL TYR TYR CYS ASN VAL GLU VAL ARG THR GLY PRO THR SEQRES 9 B 120 ARG SER TRP SER PRO TYR TRP GLY GLU GLY THR GLN VAL SEQRES 10 B 120 THR VAL SER HET NAG A 501 14 HET MAN A 502 11 HET NAG A 503 14 HET MAN A 504 11 HET MAN A 505 11 HET MAN A 506 11 HET NAG A 507 14 HET PO4 A 508 5 HET PO4 A 509 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM PO4 PHOSPHATE ION 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 MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 3 NAG 3(C8 H15 N O6) FORMUL 4 MAN 4(C6 H12 O6) FORMUL 10 PO4 2(O4 P 3-) FORMUL 12 HOH *178(H2 O) HELIX 1 AA1 ASN A 68 LEU A 82 1 15 HELIX 2 AA2 HIS A 98 ALA A 108 1 11 HELIX 3 AA3 ASN A 131 ALA A 146 1 16 HELIX 4 AA4 ASP A 163 ASN A 168 5 6 HELIX 5 AA5 SER A 169 LYS A 187 1 19 HELIX 6 AA6 ILE A 205 CYS A 215 1 11 HELIX 7 AA7 ASP A 217 SER A 221 5 5 HELIX 8 AA8 GLY A 242 SER A 251 1 10 HELIX 9 AA9 THR A 273 GLY A 280 1 8 HELIX 10 AB1 LYS A 315 LYS A 327 1 13 HELIX 11 AB2 ASN A 334 TYR A 338 5 5 HELIX 12 AB3 ASN A 366 LEU A 377 1 12 HELIX 13 AB4 ASP A 386 LYS A 388 5 3 HELIX 14 AB5 GLU A 389 ALA A 399 1 11 HELIX 15 AB6 CYS A 403 ILE A 406 5 4 HELIX 16 AB7 ALA A 417 CYS A 421 5 5 HELIX 17 AB8 SER A 422 ASN A 438 1 17 HELIX 18 AB9 ALA A 441 CYS A 445 5 5 HELIX 19 AC1 GLY A 461 GLN A 469 1 9 HELIX 20 AC2 ASP B 61 LYS B 64 5 4 HELIX 21 AC3 GLN B 86 THR B 90 5 5 SHEET 1 AA1 3 ILE A 23 LYS A 26 0 SHEET 2 AA1 3 LYS A 29 TYR A 32 -1 O PHE A 31 N GLU A 24 SHEET 3 AA1 3 GLU A 38 PHE A 39 -1 O PHE A 39 N PHE A 30 SHEET 1 AA2 9 ILE A 41 ALA A 45 0 SHEET 2 AA2 9 VAL A 86 THR A 89 1 O VAL A 86 N VAL A 44 SHEET 3 AA2 9 TYR A 111 ASP A 115 1 O TYR A 111 N ILE A 87 SHEET 4 AA2 9 VAL A 151 ASN A 158 1 O ILE A 152 N LEU A 112 SHEET 5 AA2 9 LEU A 194 THR A 199 1 O GLY A 196 N PHE A 154 SHEET 6 AA2 9 PHE A 225 ASN A 228 1 O ASN A 228 N THR A 199 SHEET 7 AA2 9 ALA A 257 TYR A 262 1 O PHE A 258 N PHE A 225 SHEET 8 AA2 9 TRP A 287 VAL A 292 1 O SER A 288 N ALA A 257 SHEET 9 AA2 9 ILE A 41 ALA A 45 1 N GLY A 43 O VAL A 292 SHEET 1 AA3 2 VAL A 305 SER A 308 0 SHEET 2 AA3 2 ASN A 311 THR A 314 -1 O LYS A 313 N SER A 306 SHEET 1 AA4 2 CYS A 379 VAL A 381 0 SHEET 2 AA4 2 ALA A 451 THR A 453 -1 O GLN A 452 N THR A 380 SHEET 1 AA5 2 SER A 408 ASN A 409 0 SHEET 2 AA5 2 ASP A 414 TYR A 415 -1 O ASP A 414 N ASN A 409 SHEET 1 AA6 4 VAL B 2 SER B 7 0 SHEET 2 AA6 4 LEU B 18 GLY B 26 -1 O SER B 25 N GLN B 3 SHEET 3 AA6 4 MET B 77 MET B 82 -1 O VAL B 78 N CYS B 22 SHEET 4 AA6 4 PHE B 67 ASP B 72 -1 N THR B 68 O GLN B 81 SHEET 1 AA7 6 GLY B 10 VAL B 12 0 SHEET 2 AA7 6 THR B 115 VAL B 119 1 O THR B 118 N VAL B 12 SHEET 3 AA7 6 ALA B 91 ARG B 100 -1 N TYR B 93 O THR B 115 SHEET 4 AA7 6 SER B 30 GLN B 39 -1 N TYR B 37 O TYR B 94 SHEET 5 AA7 6 GLU B 46 ILE B 51 -1 O VAL B 48 N TRP B 36 SHEET 6 AA7 6 THR B 57 TYR B 59 -1 O ASN B 58 N HIS B 50 SHEET 1 AA8 4 GLY B 10 VAL B 12 0 SHEET 2 AA8 4 THR B 115 VAL B 119 1 O THR B 118 N VAL B 12 SHEET 3 AA8 4 ALA B 91 ARG B 100 -1 N TYR B 93 O THR B 115 SHEET 4 AA8 4 SER B 108 TRP B 111 -1 O SER B 108 N VAL B 99 SSBOND 1 CYS A 72 CYS A 101 1555 1555 2.08 SSBOND 2 CYS A 215 CYS A 348 1555 1555 2.09 SSBOND 3 CYS A 233 CYS A 264 1555 1555 2.04 SSBOND 4 CYS A 370 CYS A 421 1555 1555 2.08 SSBOND 5 CYS A 372 CYS A 463 1555 1555 2.03 SSBOND 6 CYS A 379 CYS A 445 1555 1555 2.04 SSBOND 7 CYS A 398 CYS A 403 1555 1555 2.00 SSBOND 8 CYS B 22 CYS B 95 1555 1555 2.17 LINK ND2 ASN A 35 C1 NAG A 501 1555 1555 1.43 LINK ND2 ASN A 165 C1 NAG A 503 1555 1555 1.49 LINK OG SER A 319 C1 MAN A 504 1555 1555 1.49 LINK OG SER A 322 C1 MAN A 502 1555 1555 1.35 LINK OG SER A 335 C1 MAN A 505 1555 1555 1.30 LINK ND2 ASN A 409 C1 NAG A 507 1555 1555 1.47 CISPEP 1 ASP A 266 PRO A 267 0 -0.91 CISPEP 2 LYS A 268 PRO A 269 0 9.51 CRYST1 96.992 96.992 106.625 90.00 90.00 120.00 P 31 2 1 6 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 0.010310 0.005953 0.000000 0.00000 SCALE2 0.000000 0.011905 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009379 0.00000