HEADER HYDROLASE 20-AUG-21 7V6M TITLE CRYSTAL STRUCTURE OF LACTO-N-BIOSIDASE TNX FROM TYNZENELLA NEXILIS, TITLE 2 LACTO-N-BIOSE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIBRONECTIN TYPE III DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LACTO-N-BIOSIDASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TYZZERELLA NEXILIS; SOURCE 3 ORGANISM_TAXID: 29361; SOURCE 4 ATCC: 27757; SOURCE 5 GENE: DXA47_02055; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET23B KEYWDS GLYCOSIDE HYDROLASE, LACTO-N-BIOSIDASE, LACTO-N-BIOSE COMPLEX, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.YAMADA,S.FUSHINOBU REVDAT 3 29-NOV-23 7V6M 1 REMARK REVDAT 2 06-APR-22 7V6M 1 JRNL REVDAT 1 09-FEB-22 7V6M 0 JRNL AUTH C.YAMADA,T.KATAYAMA,S.FUSHINOBU JRNL TITL CRYSTAL STRUCTURES OF GLYCOSIDE HYDROLASE FAMILY 136 JRNL TITL 2 LACTO-N-BIOSIDASES FROM MONKEY GUT- AND HUMAN ADULT GUT JRNL TITL 3 BACTERIA. JRNL REF BIOSCI.BIOTECHNOL.BIOCHEM. V. 86 464 2022 JRNL REFN ISSN 0916-8451 JRNL PMID 35092420 JRNL DOI 10.1093/BBB/ZBAC015 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.61 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 47615 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2595 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3462 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE SET COUNT : 201 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4430 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.64000 REMARK 3 B22 (A**2) : -1.31000 REMARK 3 B33 (A**2) : 0.66000 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): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.094 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4557 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4040 ; 0.001 ; 0.018 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6198 ; 1.639 ; 1.653 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9334 ; 1.387 ; 1.598 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 569 ; 8.570 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 247 ;40.405 ;25.709 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 713 ;14.284 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;20.093 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 592 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5398 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1049 ; 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): 2279 ; 1.761 ; 2.153 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2278 ; 1.759 ; 2.153 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2847 ; 2.411 ; 3.223 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2848 ; 2.411 ; 3.223 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2276 ; 2.548 ; 2.346 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2276 ; 2.548 ; 2.346 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3351 ; 3.880 ; 3.421 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5117 ; 4.975 ;25.411 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5118 ; 4.975 ;25.411 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 7V6M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-AUG-21. REMARK 100 THE DEPOSITION ID IS D_1300024181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-17 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 : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL MONOCHROMATOR 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50268 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 45.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.64600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: 5GQF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M POTASSIUM FORMATE, 20% (W/V) PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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+1/2,-Z+1/2 REMARK 290 4555 -X,-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 35.89100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 80.74400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.89100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 80.74400 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: 890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 9.0 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 MET A 30 REMARK 465 GLU A 31 REMARK 465 LYS A 32 REMARK 465 GLU A 33 REMARK 465 THR A 34 REMARK 465 THR A 35 REMARK 465 ALA A 606 REMARK 465 ALA A 607 REMARK 465 ALA A 608 REMARK 465 LEU A 609 REMARK 465 GLU A 610 REMARK 465 HIS A 611 REMARK 465 HIS A 612 REMARK 465 HIS A 613 REMARK 465 HIS A 614 REMARK 465 HIS A 615 REMARK 465 HIS A 616 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 THR A 238 CG2 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 A 165 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 165 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 GLU A 605 CA - C - O ANGL. DEV. = -17.7 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 SER A 95 145.71 -179.50 REMARK 500 SER A 105 -154.13 -158.28 REMARK 500 LYS A 168 -82.87 -40.06 REMARK 500 ASN A 169 23.95 -73.02 REMARK 500 LYS A 193 -68.95 -153.52 REMARK 500 HIS A 200 78.97 68.92 REMARK 500 ASP A 245 84.15 69.89 REMARK 500 THR A 255 60.31 60.73 REMARK 500 TYR A 332 59.34 -94.13 REMARK 500 ASN A 382 13.04 84.14 REMARK 500 ASP A 389 -121.60 -123.16 REMARK 500 SER A 470 -15.80 -146.14 REMARK 500 ASN A 534 71.29 -155.81 REMARK 500 HIS A 551 44.33 -152.78 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 LEU A 381 ASN A 382 149.33 REMARK 500 ALA A 556 GLU A 557 149.92 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 A1100 DISTANCE = 6.57 ANGSTROMS DBREF1 7V6M A 31 605 UNP A0A413JBB4_9FIRM DBREF2 7V6M A A0A413JBB4 31 605 SEQADV 7V6M MET A 30 UNP A0A413JBB INITIATING METHIONINE SEQADV 7V6M ALA A 606 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M ALA A 607 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M ALA A 608 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M LEU A 609 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M GLU A 610 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 611 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 612 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 613 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 614 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 615 UNP A0A413JBB EXPRESSION TAG SEQADV 7V6M HIS A 616 UNP A0A413JBB EXPRESSION TAG SEQRES 1 A 587 MET GLU LYS GLU THR THR GLN GLY THR THR TYR TYR VAL SEQRES 2 A 587 SER SER SER LYS GLY ASP ASP SER ASN ASP GLY THR SER SEQRES 3 A 587 GLU SER LYS PRO PHE LYS THR LEU GLU LYS ILE ASN LYS SEQRES 4 A 587 LEU THR LEU LYS PRO GLY ASP GLN VAL LEU LEU GLU LYS SEQRES 5 A 587 GLY SER VAL PHE ASN ASP GLN TYR LEU HIS LEU LYS GLY SEQRES 6 A 587 SER GLY SER ALA GLU ALA PRO ILE LYS VAL SER THR TYR SEQRES 7 A 587 GLY GLU GLY ASN ARG PRO GLN ILE LEU THR ASN GLY GLN SEQRES 8 A 587 GLY LEU TRP GLU LEU ASN TYR GLY LYS HIS LEU ASP ASN SEQRES 9 A 587 THR ASN HIS LYS TRP HIS GLY THR VAL SER SER SER ILE SEQRES 10 A 587 LEU LEU LYS ASP VAL GLU TYR ILE GLU ILE GLU GLY LEU SEQRES 11 A 587 GLU ILE THR ASN ASP ARG GLY THR LYS ASN ASP PRO GLU SEQRES 12 A 587 GLY ASP LYS ALA TYR ASN ASP ALA ASP CYS MET ASP ARG SEQRES 13 A 587 THR GLY VAL ALA GLY VAL ALA LYS ASP LYS GLY THR LEU SEQRES 14 A 587 ASP HIS ILE VAL LEU ASP ASP LEU TYR ILE HIS ASP VAL SEQRES 15 A 587 ASP GLY ASN VAL TYR ASN LYS HIS MET THR ASN GLY GLY SEQRES 16 A 587 ILE TYR PHE ILE VAL GLU LYS PRO THR ASP GLU ASN LYS SEQRES 17 A 587 THR GLY ILE ALA LYS TYR ASP ASP VAL GLN ILE LYS ASN SEQRES 18 A 587 CYS GLN LEU ASP THR VAL ASN ARG TRP GLY ILE ALA VAL SEQRES 19 A 587 GLY TYR THR TYR ASN TRP ASP LYS PHE GLN THR ALA GLU SEQRES 20 A 587 LEU SER ASP GLU VAL MET GLU LYS TYR GLY ALA THR ASN SEQRES 21 A 587 VAL VAL ILE GLU ASN ASN TYR LEU ASN ASN VAL GLY GLY SEQRES 22 A 587 ASP ALA ILE THR THR MET TYR ALA ASP GLU PRO LEU ILE SEQRES 23 A 587 GLN TYR ASN VAL SER GLU ASN SER SER LYS GLN ILE ASN SEQRES 24 A 587 LYS THR ASP TYR SER LYS PRO GLN PRO VAL LEU ASP LYS SEQRES 25 A 587 VAL THR GLY GLU PRO THR GLY GLN TYR GLN GLY VAL GLY SEQRES 26 A 587 ALA GLY ARG VAL ALA ALA GLY ILE TRP PRO TRP LYS CYS SEQRES 27 A 587 LYS ASN ALA VAL PHE GLN TYR ASN GLU CYS PHE ARG THR SEQRES 28 A 587 LEU ASN ALA SER ASN GLY ASN GLY ASP GLY GLN PRO TRP SEQRES 29 A 587 ASP ALA ASP TYR GLY ASP GLY THR ASN TYR GLN TYR ASN SEQRES 30 A 587 TYR SER HIS GLY ASN THR ALA SER THR ILE MET PHE CYS SEQRES 31 A 587 GLY TYR GLN SER VAL ASN ASN THR PHE ARG TYR ASN ILE SEQRES 32 A 587 SER GLN ASN GLU ASP MET GLY PRO LEU ASP PRO ALA GLY SEQRES 33 A 587 ASN ALA GLY ASN THR GLN VAL TYR ASN ASN THR PHE TYR SEQRES 34 A 587 ILE LYS GLU GLY LEU ASN ASN ILE TRP HIS THR SER HIS SEQRES 35 A 587 GLY ASN ALA GLY PRO ILE ASN LEU GLU ASN ASN ILE PHE SEQRES 36 A 587 TYR PHE ALA GLY GLU THR PRO ALA THR VAL GLU ASN TRP SEQRES 37 A 587 ASN PRO ASN GLY ASN LYS THR TYR SER ASN ASN LEU PHE SEQRES 38 A 587 TYR ASN VAL SER THR TYR PRO GLU ASP ALA ASN ALA VAL SEQRES 39 A 587 LYS VAL ASP ALA GLY THR LYS VAL THR GLU ASN ALA GLY SEQRES 40 A 587 SER GLY PRO SER THR VAL ALA ASP ASP LYS GLN ALA ARG SEQRES 41 A 587 ARG HIS GLU ASP PRO SER ALA GLU THR VAL PHE ASP GLY SEQRES 42 A 587 TYR LYS LEU VAL GLN ASN SER PRO ALA ILE ASN ALA GLY SEQRES 43 A 587 LYS ILE ILE VAL ASP ASN ASN GLY TYR LYS VAL GLU LYS SEQRES 44 A 587 ASP PHE PHE GLY ASN LYS VAL SER GLY ILE PRO ASP ILE SEQRES 45 A 587 GLY ALA HIS GLU ALA ALA ALA LEU GLU HIS HIS HIS HIS SEQRES 46 A 587 HIS HIS HET NAG B 1 15 HET GAL B 2 11 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE 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 GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 2 NAG C8 H15 N O6 FORMUL 2 GAL C6 H12 O6 FORMUL 3 HOH *400(H2 O) HELIX 1 AA1 LEU A 63 LYS A 68 1 6 HELIX 2 AA2 ASP A 234 GLY A 239 1 6 HELIX 3 AA3 ASN A 268 PHE A 272 5 5 HELIX 4 AA4 SER A 278 GLY A 286 1 9 HELIX 5 AA5 ASN A 382 GLY A 386 5 5 HELIX 6 AA6 ASN A 498 GLY A 501 5 4 HELIX 7 AA7 PHE A 560 LYS A 564 5 5 SHEET 1 AA1 8 THR A 39 VAL A 42 0 SHEET 2 AA1 8 GLN A 76 GLU A 80 1 O GLU A 80 N VAL A 42 SHEET 3 AA1 8 ILE A 102 TYR A 107 1 O SER A 105 N VAL A 77 SHEET 4 AA1 8 ILE A 154 GLU A 157 1 O GLU A 155 N VAL A 104 SHEET 5 AA1 8 THR A 197 ASP A 204 1 O ASP A 204 N ILE A 156 SHEET 6 AA1 8 LYS A 242 LYS A 249 1 O GLN A 247 N LEU A 203 SHEET 7 AA1 8 ALA A 287 GLU A 293 1 O VAL A 291 N VAL A 246 SHEET 8 AA1 8 ALA A 310 ASP A 311 1 O ASP A 311 N ALA A 287 SHEET 1 AA214 THR A 39 VAL A 42 0 SHEET 2 AA214 GLN A 76 GLU A 80 1 O GLU A 80 N VAL A 42 SHEET 3 AA214 ILE A 102 TYR A 107 1 O SER A 105 N VAL A 77 SHEET 4 AA214 ILE A 154 GLU A 157 1 O GLU A 155 N VAL A 104 SHEET 5 AA214 THR A 197 ASP A 204 1 O ASP A 204 N ILE A 156 SHEET 6 AA214 LYS A 242 LYS A 249 1 O GLN A 247 N LEU A 203 SHEET 7 AA214 ALA A 287 GLU A 293 1 O VAL A 291 N VAL A 246 SHEET 8 AA214 LEU A 314 GLN A 316 1 O LEU A 314 N ILE A 292 SHEET 9 AA214 VAL A 371 GLN A 373 1 O VAL A 371 N ILE A 315 SHEET 10 AA214 ASN A 402 GLN A 404 1 O GLN A 404 N PHE A 372 SHEET 11 AA214 ASN A 426 ARG A 429 1 O ARG A 429 N TYR A 403 SHEET 12 AA214 THR A 450 TYR A 453 1 O GLN A 451 N ASN A 426 SHEET 13 AA214 ILE A 477 GLU A 480 1 O ASN A 478 N THR A 450 SHEET 14 AA214 LYS A 503 SER A 506 1 O THR A 504 N LEU A 479 SHEET 1 AA314 VAL A 84 ASN A 86 0 SHEET 2 AA314 GLN A 114 LEU A 116 1 O GLN A 114 N PHE A 85 SHEET 3 AA314 GLU A 160 ASN A 163 1 O GLU A 160 N ILE A 115 SHEET 4 AA314 TYR A 207 ASP A 212 1 O TYR A 207 N ILE A 161 SHEET 5 AA314 GLN A 252 ASN A 257 1 O GLN A 252 N ILE A 208 SHEET 6 AA314 TYR A 296 ASN A 298 1 O TYR A 296 N LEU A 253 SHEET 7 AA314 VAL A 319 GLU A 321 1 O GLU A 321 N LEU A 297 SHEET 8 AA314 GLU A 376 PHE A 378 1 O PHE A 378 N SER A 320 SHEET 9 AA314 TYR A 407 HIS A 409 1 O TYR A 407 N CYS A 377 SHEET 10 AA314 ILE A 432 GLN A 434 1 O GLN A 434 N SER A 408 SHEET 11 AA314 THR A 456 ILE A 459 1 O TYR A 458 N SER A 433 SHEET 12 AA314 ILE A 483 PHE A 486 1 O TYR A 485 N PHE A 457 SHEET 13 AA314 LEU A 509 TYR A 511 1 O LEU A 509 N PHE A 484 SHEET 14 AA314 VAL A 523 VAL A 525 1 O VAL A 525 N PHE A 510 SHEET 1 AA4 3 LEU A 90 LEU A 92 0 SHEET 2 AA4 3 HIS A 139 LYS A 149 1 O SER A 145 N LEU A 90 SHEET 3 AA4 3 LEU A 122 ASN A 126 -1 N TRP A 123 O VAL A 142 SHEET 1 AA5 7 LEU A 90 LEU A 92 0 SHEET 2 AA5 7 HIS A 139 LYS A 149 1 O SER A 145 N LEU A 90 SHEET 3 AA5 7 ASP A 184 ALA A 192 1 O ALA A 189 N ILE A 146 SHEET 4 AA5 7 GLY A 223 VAL A 229 1 O ILE A 228 N GLY A 190 SHEET 5 AA5 7 TRP A 259 THR A 266 1 O GLY A 264 N PHE A 227 SHEET 6 AA5 7 ILE A 305 MET A 308 1 O MET A 308 N VAL A 263 SHEET 7 AA5 7 ILE A 362 TRP A 365 1 O TRP A 365 N THR A 307 SHEET 1 AA6 2 PRO A 337 LEU A 339 0 SHEET 2 AA6 2 PRO A 346 TYR A 350 -1 O GLN A 349 N VAL A 338 SHEET 1 AA7 3 TRP A 393 ALA A 395 0 SHEET 2 AA7 3 ILE A 416 CYS A 419 1 O MET A 417 N ALA A 395 SHEET 3 AA7 3 LEU A 441 ALA A 444 1 O ASP A 442 N ILE A 416 SHEET 1 AA8 2 GLY A 398 ASP A 399 0 SHEET 2 AA8 2 SER A 423 VAL A 424 1 O VAL A 424 N GLY A 398 LINK O3 NAG B 1 C1 GAL B 2 1555 1555 1.43 CISPEP 1 ASN A 257 ARG A 258 0 4.50 CRYST1 55.205 71.782 161.488 90.00 90.00 90.00 P 2 21 21 4 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 0.018114 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013931 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006192 0.00000