HEADER HYDROLASE 21-SEP-21 7PR9 TITLE CRYSTAL STRUCTURE OF BURKHOLDERIA PSEUDOMALLEI HEPARANASE IN COMPLEX TITLE 2 WITH COVALENT INHIBITOR VL166 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCO_HYDRO_44 DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI (STRAIN K96243); SOURCE 3 ORGANISM_TAXID: 272560; SOURCE 4 STRAIN: K96243; SOURCE 5 GENE: BPSL2070; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLYCOSIDE HYDROLASE, CARBOHYDRATE, GLUCURONIDASE, GH79, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.WU,Z.ARMSTRONG,G.J.DAVIES REVDAT 2 31-JAN-24 7PR9 1 REMARK REVDAT 1 03-AUG-22 7PR9 0 JRNL AUTH C.DE BOER,Z.ARMSTRONG,V.A.J.LIT,U.BARASH,G.RUIJGROK, JRNL AUTH 2 I.BOYANGO,M.M.WEITZENBERG,S.P.SCHRODER,A.J.C.SARRIS, JRNL AUTH 3 N.J.MEEUWENOORD,P.BULE,Y.KAYAL,N.ILAN,J.D.C.CODEE, JRNL AUTH 4 I.VLODAVSKY,H.S.OVERKLEEFT,G.J.DAVIES,L.WU JRNL TITL MECHANISM-BASED HEPARANASE INHIBITORS REDUCE CANCER JRNL TITL 2 METASTASIS IN VIVO. JRNL REF PROC.NATL.ACAD.SCI.USA V. 119 67119 2022 JRNL REFN ESSN 1091-6490 JRNL PMID 35881786 JRNL DOI 10.1073/PNAS.2203167119 REMARK 2 REMARK 2 RESOLUTION. 1.34 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 209958 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 : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 10582 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) : 1.34 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13483 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE SET COUNT : 730 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6282 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 992 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.94600 REMARK 3 B22 (A**2) : -0.04100 REMARK 3 B33 (A**2) : -0.90500 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): 0.051 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.045 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6736 ; 0.014 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 6226 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9231 ; 1.807 ; 1.645 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14257 ; 1.555 ; 1.580 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 917 ; 6.785 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 312 ;31.298 ;21.442 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 892 ;12.485 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 45 ;16.709 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 900 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8077 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1627 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1373 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 53 ; 0.267 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3338 ; 0.171 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 708 ; 0.179 ; 0.200 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): 3614 ; 1.945 ; 2.096 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3613 ; 1.933 ; 2.095 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4549 ; 2.737 ; 3.137 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4550 ; 2.739 ; 3.138 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3122 ; 2.630 ; 2.283 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3123 ; 2.630 ; 2.284 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4682 ; 3.868 ; 3.342 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4683 ; 3.868 ; 3.342 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 10 A 446 NULL REMARK 3 1 B 10 B 446 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7PR9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1292118236. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-19 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 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 210296 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.340 REMARK 200 RESOLUTION RANGE LOW (A) : 79.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.21500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 5BWI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE PH 5.0, 14% (W/V) REMARK 280 PEG 6000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 39.93500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.99400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.06850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.99400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.93500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.06850 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 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 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 PRO A 9 REMARK 465 GLN B 419 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 H ASN A 156 HO1 EDO A 502 1.06 REMARK 500 H ASN B 69 HO3 8I4 D 1 1.24 REMARK 500 H ASN A 69 HO3 8I4 C 1 1.28 REMARK 500 HH22 ARG A 339 HB2 ASP A 341 1.31 REMARK 500 HO1 EDO B 501 O HOH B 601 1.50 REMARK 500 HH TYR B 259 O HOH B 605 1.57 REMARK 500 O HOH B 878 O HOH B 911 1.68 REMARK 500 O ALA A 384 O HOH A 601 1.78 REMARK 500 O HOH A 841 O HOH A 978 1.93 REMARK 500 O HOH B 606 O HOH B 892 1.98 REMARK 500 O HOH A 678 O HOH B 603 2.02 REMARK 500 O HOH A 603 O HOH A 930 2.04 REMARK 500 O HOH A 804 O HOH A 1068 2.07 REMARK 500 O HOH A 973 O HOH A 1005 2.07 REMARK 500 O HOH A 1049 O HOH A 1077 2.11 REMARK 500 O LEU A 227 O HOH A 602 2.13 REMARK 500 O HOH A 991 O HOH A 1016 2.13 REMARK 500 O HOH B 808 O HOH B 827 2.18 REMARK 500 O HOH A 653 O HOH A 793 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 782 O HOH A 978 2455 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 255 CD GLU A 255 OE2 0.079 REMARK 500 GLU A 320 CD GLU A 320 OE1 -0.076 REMARK 500 GLU B 255 CD GLU B 255 OE2 0.113 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 PRO A 43 48.45 -81.78 REMARK 500 ALA A 157 35.95 -148.90 REMARK 500 TRP A 190 -29.44 -146.75 REMARK 500 TYR A 195 -65.14 -109.74 REMARK 500 VAL A 267 -59.49 -127.61 REMARK 500 PRO B 43 49.33 -81.04 REMARK 500 ALA B 157 39.03 -150.64 REMARK 500 TRP B 190 -28.70 -150.72 REMARK 500 TYR B 195 -63.15 -108.76 REMARK 500 TYR B 195 -63.15 -105.71 REMARK 500 VAL B 267 -60.21 -126.14 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 A1192 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A1193 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A1194 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A1195 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH A1196 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A1197 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH B 994 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH B 995 DISTANCE = 6.06 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7PR7 RELATED DB: PDB REMARK 900 7PR7 CONTAINS A HOMOLOGOUS PROTEIN IN COMPLEX WITH THE SAME LIGAND DBREF 7PR9 A 9 446 UNP Q63T97 Q63T97_BURPS 26 463 DBREF 7PR9 B 9 446 UNP Q63T97 Q63T97_BURPS 26 463 SEQRES 1 A 438 PRO SER SER SER ALA ASN VAL ALA MET THR LEU PRO ALA SEQRES 2 A 438 ASP ALA PRO ARG ILE ALA ARG ASP PHE ALA GLY LEU SER SEQRES 3 A 438 ILE GLU LYS ALA ALA LEU SER TYR PRO LEU LEU SER GLY SEQRES 4 A 438 GLU ASN GLY ASN MET VAL GLY LEU PHE ASN ARG LEU GLY SEQRES 5 A 438 ALA GLY VAL LEU ARG ILE GLY GLY ASN SER SER ASP ALA SEQRES 6 A 438 SER GLY TRP GLN ARG THR GLY PRO ASP GLU THR SER GLY SEQRES 7 A 438 VAL ILE THR PRO ALA ALA VAL ASP ARG LEU ALA SER PHE SEQRES 8 A 438 VAL GLN ALA CYS ARG TRP ARG VAL ILE TYR GLY LEU ASN SEQRES 9 A 438 PHE VAL GLY ASN ASP PRO ALA THR ILE ALA ASP GLU ALA SEQRES 10 A 438 ALA TYR ALA ALA GLN ALA LEU GLY VAL GLN LEU ALA GLY SEQRES 11 A 438 PHE GLU ILE GLY ASN GLU PRO ASP LEU TYR ALA GLN HIS SEQRES 12 A 438 GLY LEU ALA PRO ASN ALA ASN THR TYR PRO GLY PHE VAL SEQRES 13 A 438 SER ARG TRP THR THR PHE ALA ASN ALA ILE ARG ALA ALA SEQRES 14 A 438 VAL PRO ASP ALA VAL PHE THR GLY PRO ALA THR ALA TRP SEQRES 15 A 438 ASN TYR GLN ARG TYR THR VAL PRO PHE ALA SER ASP ALA SEQRES 16 A 438 ALA GLY LEU VAL SER LEU LEU THR GLN HIS HIS TYR ARG SEQRES 17 A 438 ASN PRO ASP SER ALA THR ILE GLU ALA MET LEU SER PRO SEQRES 18 A 438 ASP PRO SER LEU ALA PRO MET LEU GLN ALA LEU GLN GLY SEQRES 19 A 438 ALA ALA SER ALA ARG GLY ILE GLY PHE ARG LEU ALA GLU SEQRES 20 A 438 THR ASN SER TYR TRP GLY GLY GLY LYS PRO GLY VAL SER SEQRES 21 A 438 ASP ALA HIS ALA SER ALA LEU TRP VAL ILE ASN PHE LEU SEQRES 22 A 438 PHE ALA VAL ALA GLN GLY GLY ALA SER GLY VAL ASN LEU SEQRES 23 A 438 HIS THR GLY GLY GLY ALA SER TYR SER ALA ILE LYS THR SEQRES 24 A 438 ASN LYS THR ALA GLY THR VAL ALA ALA ILE GLY PRO GLU SEQRES 25 A 438 TYR TYR GLY ILE TYR LEU PHE ASN GLN ALA ALA GLY GLY SEQRES 26 A 438 ARG LEU MET GLN THR ARG VAL ASP SER ALA GLY THR THR SEQRES 27 A 438 LEU PHE ALA HIS ALA VAL ALA ALA ASP GLY GLY GLY VAL SEQRES 28 A 438 ARG LEU ILE LEU VAL ASN THR ASP ALA ASN SER GLY TYR SEQRES 29 A 438 ASP VAL ALA VAL ASP CYS SER SER VAL PRO ASN ALA ARG SEQRES 30 A 438 ALA GLY ILE VAL THR THR LEU GLY GLY PRO SER LEU GLY SEQRES 31 A 438 SER LEU THR GLY THR GLN ILE ASP GLY ALA THR PHE ALA SEQRES 32 A 438 LEU ASP GLY SER GLY ALA PRO GLN GLY GLY ARG PRO VAL SEQRES 33 A 438 ALA CYS VAL ASN GLY VAL LEU GLY VAL HIS VAL ALA SER SEQRES 34 A 438 ALA SER ALA LEU LEU VAL ASP PHE ALA SEQRES 1 B 438 PRO SER SER SER ALA ASN VAL ALA MET THR LEU PRO ALA SEQRES 2 B 438 ASP ALA PRO ARG ILE ALA ARG ASP PHE ALA GLY LEU SER SEQRES 3 B 438 ILE GLU LYS ALA ALA LEU SER TYR PRO LEU LEU SER GLY SEQRES 4 B 438 GLU ASN GLY ASN MET VAL GLY LEU PHE ASN ARG LEU GLY SEQRES 5 B 438 ALA GLY VAL LEU ARG ILE GLY GLY ASN SER SER ASP ALA SEQRES 6 B 438 SER GLY TRP GLN ARG THR GLY PRO ASP GLU THR SER GLY SEQRES 7 B 438 VAL ILE THR PRO ALA ALA VAL ASP ARG LEU ALA SER PHE SEQRES 8 B 438 VAL GLN ALA CYS ARG TRP ARG VAL ILE TYR GLY LEU ASN SEQRES 9 B 438 PHE VAL GLY ASN ASP PRO ALA THR ILE ALA ASP GLU ALA SEQRES 10 B 438 ALA TYR ALA ALA GLN ALA LEU GLY VAL GLN LEU ALA GLY SEQRES 11 B 438 PHE GLU ILE GLY ASN GLU PRO ASP LEU TYR ALA GLN HIS SEQRES 12 B 438 GLY LEU ALA PRO ASN ALA ASN THR TYR PRO GLY PHE VAL SEQRES 13 B 438 SER ARG TRP THR THR PHE ALA ASN ALA ILE ARG ALA ALA SEQRES 14 B 438 VAL PRO ASP ALA VAL PHE THR GLY PRO ALA THR ALA TRP SEQRES 15 B 438 ASN TYR GLN ARG TYR THR VAL PRO PHE ALA SER ASP ALA SEQRES 16 B 438 ALA GLY LEU VAL SER LEU LEU THR GLN HIS HIS TYR ARG SEQRES 17 B 438 ASN PRO ASP SER ALA THR ILE GLU ALA MET LEU SER PRO SEQRES 18 B 438 ASP PRO SER LEU ALA PRO MET LEU GLN ALA LEU GLN GLY SEQRES 19 B 438 ALA ALA SER ALA ARG GLY ILE GLY PHE ARG LEU ALA GLU SEQRES 20 B 438 THR ASN SER TYR TRP GLY GLY GLY LYS PRO GLY VAL SER SEQRES 21 B 438 ASP ALA HIS ALA SER ALA LEU TRP VAL ILE ASN PHE LEU SEQRES 22 B 438 PHE ALA VAL ALA GLN GLY GLY ALA SER GLY VAL ASN LEU SEQRES 23 B 438 HIS THR GLY GLY GLY ALA SER TYR SER ALA ILE LYS THR SEQRES 24 B 438 ASN LYS THR ALA GLY THR VAL ALA ALA ILE GLY PRO GLU SEQRES 25 B 438 TYR TYR GLY ILE TYR LEU PHE ASN GLN ALA ALA GLY GLY SEQRES 26 B 438 ARG LEU MET GLN THR ARG VAL ASP SER ALA GLY THR THR SEQRES 27 B 438 LEU PHE ALA HIS ALA VAL ALA ALA ASP GLY GLY GLY VAL SEQRES 28 B 438 ARG LEU ILE LEU VAL ASN THR ASP ALA ASN SER GLY TYR SEQRES 29 B 438 ASP VAL ALA VAL ASP CYS SER SER VAL PRO ASN ALA ARG SEQRES 30 B 438 ALA GLY ILE VAL THR THR LEU GLY GLY PRO SER LEU GLY SEQRES 31 B 438 SER LEU THR GLY THR GLN ILE ASP GLY ALA THR PHE ALA SEQRES 32 B 438 LEU ASP GLY SER GLY ALA PRO GLN GLY GLY ARG PRO VAL SEQRES 33 B 438 ALA CYS VAL ASN GLY VAL LEU GLY VAL HIS VAL ALA SER SEQRES 34 B 438 ALA SER ALA LEU LEU VAL ASP PHE ALA HET 8I4 C 1 22 HET NDG C 2 28 HET 8I4 D 1 22 HET NDG D 2 28 HET EDO A 501 10 HET EDO A 502 10 HET EDO B 501 10 HET EDO B 502 10 HET EDO B 503 10 HET EDO B 504 10 HETNAM 8I4 (2R,3S,5R,6R)-2,3,4,5,6-PENTAKIS(OXIDANYL)CYCLOHEXANE- HETNAM 2 8I4 1-CARBOXYLIC ACID HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETSYN 8I4 (2R)-5-[(E)-2-(2,4-DINITROPHENYL)ETHENYL]-2-[(1R)-2- HETSYN 2 8I4 OXIDANYL-2-OXIDANYLIDENE-1-(2-THIOPHEN-2- HETSYN 3 8I4 YLETHANOYLAMINO)ETHYL]-3,6-DIHYDRO-2H-1,3-THIAZINE-4- HETSYN 4 8I4 CARBOXYLIC ACID HETSYN NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 8I4 2(C7 H12 O7) FORMUL 3 NDG 2(C8 H15 N O6) FORMUL 5 EDO 6(C2 H6 O2) FORMUL 11 HOH *992(H2 O) HELIX 1 AA1 GLU A 36 TYR A 42 5 7 HELIX 2 AA2 ASN A 49 GLY A 60 1 12 HELIX 3 AA3 GLY A 68 SER A 74 5 7 HELIX 4 AA4 THR A 89 ARG A 104 1 16 HELIX 5 AA5 ASP A 117 GLY A 133 1 17 HELIX 6 AA6 GLU A 144 TYR A 148 5 5 HELIX 7 AA7 THR A 159 VAL A 178 1 20 HELIX 8 AA8 TYR A 195 ALA A 203 1 9 HELIX 9 AA9 ASN A 217 ALA A 221 5 5 HELIX 10 AB1 THR A 222 SER A 228 1 7 HELIX 11 AB2 SER A 232 ARG A 247 1 16 HELIX 12 AB3 HIS A 271 GLY A 287 1 17 HELIX 13 AB4 GLY A 318 GLN A 329 1 12 HELIX 14 AB5 GLU B 36 TYR B 42 5 7 HELIX 15 AB6 ASN B 49 GLY B 60 1 12 HELIX 16 AB7 GLY B 68 SER B 74 5 7 HELIX 17 AB8 THR B 89 ARG B 104 1 16 HELIX 18 AB9 ASP B 117 GLY B 133 1 17 HELIX 19 AC1 GLU B 144 TYR B 148 5 5 HELIX 20 AC2 THR B 159 VAL B 178 1 20 HELIX 21 AC3 TYR B 195 ALA B 203 1 9 HELIX 22 AC4 ASN B 217 ALA B 221 5 5 HELIX 23 AC5 THR B 222 SER B 228 1 7 HELIX 24 AC6 SER B 232 ARG B 247 1 16 HELIX 25 AC7 HIS B 271 GLY B 287 1 17 HELIX 26 AC8 GLY B 318 GLN B 329 1 12 SHEET 1 AA1 4 GLN A 337 ASP A 341 0 SHEET 2 AA1 4 SER A 11 THR A 18 -1 N ASN A 14 O ASP A 341 SHEET 3 AA1 4 TYR A 372 ASP A 377 1 O ASP A 377 N VAL A 15 SHEET 4 AA1 4 VAL A 430 VAL A 435 -1 O VAL A 433 N VAL A 374 SHEET 1 AA2 7 ARG A 25 ILE A 26 0 SHEET 2 AA2 7 GLY A 333 LEU A 335 -1 O GLY A 333 N ILE A 26 SHEET 3 AA2 7 LEU A 347 ALA A 354 -1 O ALA A 353 N ARG A 334 SHEET 4 AA2 7 VAL A 359 ASN A 365 -1 O ILE A 362 N HIS A 350 SHEET 5 AA2 7 SER A 439 PHE A 445 -1 O SER A 439 N ASN A 365 SHEET 6 AA2 7 ALA A 386 GLY A 393 -1 N LEU A 392 O ALA A 440 SHEET 7 AA2 7 GLN A 404 ILE A 405 -1 O GLN A 404 N GLY A 393 SHEET 1 AA3 7 ARG A 25 ILE A 26 0 SHEET 2 AA3 7 GLY A 333 LEU A 335 -1 O GLY A 333 N ILE A 26 SHEET 3 AA3 7 LEU A 347 ALA A 354 -1 O ALA A 353 N ARG A 334 SHEET 4 AA3 7 VAL A 359 ASN A 365 -1 O ILE A 362 N HIS A 350 SHEET 5 AA3 7 SER A 439 PHE A 445 -1 O SER A 439 N ASN A 365 SHEET 6 AA3 7 ALA A 386 GLY A 393 -1 N LEU A 392 O ALA A 440 SHEET 7 AA3 7 ARG A 422 ALA A 425 -1 O VAL A 424 N GLY A 387 SHEET 1 AA4 9 ALA A 31 ILE A 35 0 SHEET 2 AA4 9 VAL A 63 ILE A 66 1 O ARG A 65 N LEU A 33 SHEET 3 AA4 9 ARG A 106 LEU A 111 1 O ARG A 106 N LEU A 64 SHEET 4 AA4 9 LEU A 136 ILE A 141 1 O GLY A 138 N TYR A 109 SHEET 5 AA4 9 PHE A 183 THR A 188 1 O THR A 184 N PHE A 139 SHEET 6 AA4 9 VAL A 207 ARG A 216 1 O SER A 208 N PHE A 183 SHEET 7 AA4 9 GLY A 250 TYR A 259 1 O ARG A 252 N LEU A 210 SHEET 8 AA4 9 GLY A 291 HIS A 295 1 O ASN A 293 N LEU A 253 SHEET 9 AA4 9 ALA A 31 ILE A 35 1 N GLY A 32 O LEU A 294 SHEET 1 AA5 2 GLY A 75 TRP A 76 0 SHEET 2 AA5 2 VAL A 87 ILE A 88 1 O ILE A 88 N GLY A 75 SHEET 1 AA6 2 ILE A 305 ASN A 308 0 SHEET 2 AA6 2 THR A 313 ILE A 317 -1 O THR A 313 N ASN A 308 SHEET 1 AA7 4 GLN B 337 ASP B 341 0 SHEET 2 AA7 4 SER B 10 THR B 18 -1 N ASN B 14 O ASP B 341 SHEET 3 AA7 4 GLY B 371 ASP B 377 1 O ASP B 377 N VAL B 15 SHEET 4 AA7 4 VAL B 430 VAL B 435 -1 O VAL B 433 N VAL B 374 SHEET 1 AA8 7 ARG B 25 ILE B 26 0 SHEET 2 AA8 7 GLY B 333 LEU B 335 -1 O GLY B 333 N ILE B 26 SHEET 3 AA8 7 LEU B 347 ALA B 354 -1 O ALA B 353 N ARG B 334 SHEET 4 AA8 7 VAL B 359 ASN B 365 -1 O ILE B 362 N HIS B 350 SHEET 5 AA8 7 SER B 439 PHE B 445 -1 O VAL B 443 N LEU B 361 SHEET 6 AA8 7 ALA B 386 GLY B 393 -1 N LEU B 392 O ALA B 440 SHEET 7 AA8 7 GLN B 404 ILE B 405 -1 O GLN B 404 N GLY B 393 SHEET 1 AA9 7 ARG B 25 ILE B 26 0 SHEET 2 AA9 7 GLY B 333 LEU B 335 -1 O GLY B 333 N ILE B 26 SHEET 3 AA9 7 LEU B 347 ALA B 354 -1 O ALA B 353 N ARG B 334 SHEET 4 AA9 7 VAL B 359 ASN B 365 -1 O ILE B 362 N HIS B 350 SHEET 5 AA9 7 SER B 439 PHE B 445 -1 O VAL B 443 N LEU B 361 SHEET 6 AA9 7 ALA B 386 GLY B 393 -1 N LEU B 392 O ALA B 440 SHEET 7 AA9 7 ARG B 422 ALA B 425 -1 O VAL B 424 N GLY B 387 SHEET 1 AB1 9 ALA B 31 ILE B 35 0 SHEET 2 AB1 9 VAL B 63 ILE B 66 1 O ARG B 65 N LEU B 33 SHEET 3 AB1 9 ARG B 106 LEU B 111 1 O ARG B 106 N LEU B 64 SHEET 4 AB1 9 LEU B 136 ILE B 141 1 O GLY B 138 N TYR B 109 SHEET 5 AB1 9 PHE B 183 THR B 188 1 O THR B 184 N PHE B 139 SHEET 6 AB1 9 VAL B 207 ARG B 216 1 O SER B 208 N PHE B 183 SHEET 7 AB1 9 GLY B 250 TYR B 259 1 O GLY B 250 N LEU B 210 SHEET 8 AB1 9 GLY B 291 HIS B 295 1 O ASN B 293 N LEU B 253 SHEET 9 AB1 9 ALA B 31 ILE B 35 1 N GLY B 32 O LEU B 294 SHEET 1 AB2 2 GLY B 75 TRP B 76 0 SHEET 2 AB2 2 VAL B 87 ILE B 88 1 O ILE B 88 N GLY B 75 SHEET 1 AB3 2 ILE B 305 ASN B 308 0 SHEET 2 AB3 2 THR B 313 ILE B 317 -1 O THR B 313 N ASN B 308 SSBOND 1 CYS A 378 CYS A 426 1555 1555 2.19 SSBOND 2 CYS B 378 CYS B 426 1555 1555 2.16 LINK OE2 GLU A 255 C1 8I4 C 1 1555 1555 1.48 LINK OE2 GLU B 255 C1 8I4 D 1 1555 1555 1.47 LINK O4 8I4 C 1 C1 NDG C 2 1555 1555 1.42 LINK O4 8I4 D 1 C1 NDG D 2 1555 1555 1.46 CISPEP 1 GLY A 185 PRO A 186 0 6.52 CISPEP 2 GLY B 185 PRO B 186 0 4.92 CRYST1 79.870 104.137 113.988 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 0.012520 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009603 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008773 0.00000