HEADER HYDROLASE 01-JUN-15 5BRO TITLE CRYSTAL STRUCTURE OF MODIFIED HEXB (MODB) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-HEXOSAMINIDASE SUBUNIT BETA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-N-ACETYLHEXOSAMINIDASE SUBUNIT BETA,HEXOSAMINIDASE COMPND 5 SUBUNIT B,CERVICAL CANCER PROTO-ONCOGENE 7 PROTEIN,HCC-7,N-ACETYL- COMPND 6 BETA-GLUCOSAMINIDASE SUBUNIT BETA; COMPND 7 EC: 3.2.1.52; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HEXB, HCC7; SOURCE 6 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 8 EXPRESSION_SYSTEM_CELL: CHO KEYWDS THERAPEUTIC ENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.KITAKAZE,N.MAITA,K.ITOH REVDAT 3 29-JUL-20 5BRO 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 19-FEB-20 5BRO 1 JRNL REMARK REVDAT 1 04-MAY-16 5BRO 0 JRNL AUTH K.KITAKAZE,Y.MIZUTANI,E.SUGIYAMA,C.TASAKI,D.TSUJI,N.MAITA, JRNL AUTH 2 T.HIROKAWA,D.ASANUMA,M.KAMIYA,K.SATO,M.SETOU,Y.URANO, JRNL AUTH 3 T.TOGAWA,A.OTAKA,H.SAKURABA,K.ITOH JRNL TITL PROTEASE-RESISTANT MODIFIED HUMAN BETA-HEXOSAMINIDASE B JRNL TITL 2 AMELIORATES SYMPTOMS IN GM2 GANGLIOSIDOSIS MODEL. JRNL REF J.CLIN.INVEST. V. 126 1691 2016 JRNL REFN ISSN 0021-9738 JRNL PMID 27018595 JRNL DOI 10.1172/JCI85300 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.MATSUOKA,T.TAMURA,D.TSUJI,Y.DOHZONO,K.KITAKAZE,K.OHNO, REMARK 1 AUTH 2 S.SAITO,H.SAKURABA,K.ITOH REMARK 1 TITL THERAPEUTIC POTENTIAL OF INTRACEREBROVENTRICULAR REPLACEMENT REMARK 1 TITL 2 OF MODIFIED HUMAN BETA-HEXOSAMINIDASE B FOR GM2 REMARK 1 TITL 3 GANGLIOSIDOSIS. REMARK 1 REF MOL. THER. V. 19 1017 2011 REMARK 1 REFN ESSN 1525-0024 REMARK 1 PMID 21487393 REMARK 1 DOI 10.1038/MT.2011.27 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 27149 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1428 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1959 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2930 REMARK 3 BIN FREE R VALUE SET COUNT : 110 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3952 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 150 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.04000 REMARK 3 B22 (A**2) : -1.04000 REMARK 3 B33 (A**2) : 2.09000 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): 0.289 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.230 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.165 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.289 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4136 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3829 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5624 ; 1.610 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8810 ; 0.771 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 488 ; 8.166 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;36.786 ;23.579 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 664 ;17.873 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;22.756 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 613 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4591 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 979 ; 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): 1957 ; 3.800 ; 3.375 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1958 ; 3.799 ; 3.375 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2444 ; 5.451 ; 5.054 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2445 ; 5.450 ; 5.055 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2177 ; 4.871 ; 3.835 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2175 ; 4.871 ; 3.834 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3179 ; 7.179 ; 5.572 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4851 ; 8.684 ;27.374 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4818 ; 8.692 ;27.374 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 5BRO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1000210369. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28619 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.00 REMARK 200 R MERGE (I) : 0.14300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.20 REMARK 200 R MERGE FOR SHELL (I) : 0.69800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM FORMATE, 20% PEG 3350, PH REMARK 280 7.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 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 0.000000 -1.000000 0.000000 63.23500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.15500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.23500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.23500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 44.15500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.23500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.23500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 44.15500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.23500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.23500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 44.15500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 CYCLIC POINT SYMMETRY (SCHOENFLIES SYMBOL = C2). 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: 5780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -88.31000 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 ALA A 43 REMARK 465 ARG A 44 REMARK 465 ALA A 45 REMARK 465 PRO A 46 REMARK 465 SER A 47 REMARK 465 VAL A 48 REMARK 465 SER A 49 REMARK 465 ALA A 50 REMARK 465 LYS A 51 REMARK 465 PRO A 52 REMARK 465 PHE A 108 REMARK 465 TYR A 109 REMARK 465 LYS A 110 REMARK 465 TRP A 111 REMARK 465 HIS A 112 REMARK 465 HIS A 113 REMARK 465 GLU A 114 REMARK 465 PRO A 115 REMARK 465 ALA A 116 REMARK 465 GLU A 117 REMARK 465 HIS A 553 REMARK 465 GLU A 554 REMARK 465 ASN A 555 REMARK 465 MET A 556 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 OD1 ASP A 459 O2 GOL A 601 2.08 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 SER A 90 O SER A 90 8554 1.25 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 A 505 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 505 NE - CZ - NH2 ANGL. DEV. = -4.6 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 PHE A 106 -66.52 -104.23 REMARK 500 ASP A 240 -160.08 -178.21 REMARK 500 HIS A 264 65.62 -108.57 REMARK 500 LYS A 412 32.86 72.78 REMARK 500 ASP A 426 40.46 -87.23 REMARK 500 ASP A 470 67.87 -69.38 REMARK 500 TRP A 489 151.76 -49.94 REMARK 500 ARG A 520 -11.41 -151.54 REMARK 500 ALA A 542 63.59 -66.56 REMARK 500 TYR A 547 -175.81 -170.36 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 CYS A 551 ASN A 552 130.55 REMARK 500 REMARK 500 REMARK: NULL DBREF 5BRO A 43 556 UNP P07686 HEXB_HUMAN 43 556 SEQADV 5BRO GLY A 312 UNP P07686 ARG 312 ENGINEERED MUTATION SEQADV 5BRO SER A 313 UNP P07686 GLN 313 ENGINEERED MUTATION SEQADV 5BRO GLU A 314 UNP P07686 ASN 314 ENGINEERED MUTATION SEQADV 5BRO PRO A 315 UNP P07686 LYS 315 ENGINEERED MUTATION SEQADV 5BRO ASN A 452 UNP P07686 ASP 452 ENGINEERED MUTATION SEQADV 5BRO ARG A 453 UNP P07686 LEU 453 ENGINEERED MUTATION SEQRES 1 A 514 ALA ARG ALA PRO SER VAL SER ALA LYS PRO GLY PRO ALA SEQRES 2 A 514 LEU TRP PRO LEU PRO LEU SER VAL LYS MET THR PRO ASN SEQRES 3 A 514 LEU LEU HIS LEU ALA PRO GLU ASN PHE TYR ILE SER HIS SEQRES 4 A 514 SER PRO ASN SER THR ALA GLY PRO SER CYS THR LEU LEU SEQRES 5 A 514 GLU GLU ALA PHE ARG ARG TYR HIS GLY TYR ILE PHE GLY SEQRES 6 A 514 PHE TYR LYS TRP HIS HIS GLU PRO ALA GLU PHE GLN ALA SEQRES 7 A 514 LYS THR GLN VAL GLN GLN LEU LEU VAL SER ILE THR LEU SEQRES 8 A 514 GLN SER GLU CYS ASP ALA PHE PRO ASN ILE SER SER ASP SEQRES 9 A 514 GLU SER TYR THR LEU LEU VAL LYS GLU PRO VAL ALA VAL SEQRES 10 A 514 LEU LYS ALA ASN ARG VAL TRP GLY ALA LEU ARG GLY LEU SEQRES 11 A 514 GLU THR PHE SER GLN LEU VAL TYR GLN ASP SER TYR GLY SEQRES 12 A 514 THR PHE THR ILE ASN GLU SER THR ILE ILE ASP SER PRO SEQRES 13 A 514 ARG PHE SER HIS ARG GLY ILE LEU ILE ASP THR SER ARG SEQRES 14 A 514 HIS TYR LEU PRO VAL LYS ILE ILE LEU LYS THR LEU ASP SEQRES 15 A 514 ALA MET ALA PHE ASN LYS PHE ASN VAL LEU HIS TRP HIS SEQRES 16 A 514 ILE VAL ASP ASP GLN SER PHE PRO TYR GLN SER ILE THR SEQRES 17 A 514 PHE PRO GLU LEU SER ASN LYS GLY SER TYR SER LEU SER SEQRES 18 A 514 HIS VAL TYR THR PRO ASN ASP VAL ARG MET VAL ILE GLU SEQRES 19 A 514 TYR ALA ARG LEU ARG GLY ILE ARG VAL LEU PRO GLU PHE SEQRES 20 A 514 ASP THR PRO GLY HIS THR LEU SER TRP GLY LYS GLY GLN SEQRES 21 A 514 LYS ASP LEU LEU THR PRO CYS TYR SER GLY SER GLU PRO SEQRES 22 A 514 LEU ASP SER PHE GLY PRO ILE ASN PRO THR LEU ASN THR SEQRES 23 A 514 THR TYR SER PHE LEU THR THR PHE PHE LYS GLU ILE SER SEQRES 24 A 514 GLU VAL PHE PRO ASP GLN PHE ILE HIS LEU GLY GLY ASP SEQRES 25 A 514 GLU VAL GLU PHE LYS CYS TRP GLU SER ASN PRO LYS ILE SEQRES 26 A 514 GLN ASP PHE MET ARG GLN LYS GLY PHE GLY THR ASP PHE SEQRES 27 A 514 LYS LYS LEU GLU SER PHE TYR ILE GLN LYS VAL LEU ASP SEQRES 28 A 514 ILE ILE ALA THR ILE ASN LYS GLY SER ILE VAL TRP GLN SEQRES 29 A 514 GLU VAL PHE ASP ASP LYS ALA LYS LEU ALA PRO GLY THR SEQRES 30 A 514 ILE VAL GLU VAL TRP LYS ASP SER ALA TYR PRO GLU GLU SEQRES 31 A 514 LEU SER ARG VAL THR ALA SER GLY PHE PRO VAL ILE LEU SEQRES 32 A 514 SER ALA PRO TRP TYR LEU ASN ARG ILE SER TYR GLY GLN SEQRES 33 A 514 ASP TRP ARG LYS TYR TYR LYS VAL GLU PRO LEU ASP PHE SEQRES 34 A 514 GLY GLY THR GLN LYS GLN LYS GLN LEU PHE ILE GLY GLY SEQRES 35 A 514 GLU ALA CYS LEU TRP GLY GLU TYR VAL ASP ALA THR ASN SEQRES 36 A 514 LEU THR PRO ARG LEU TRP PRO ARG ALA SER ALA VAL GLY SEQRES 37 A 514 GLU ARG LEU TRP SER SER LYS ASP VAL ARG ASP MET ASP SEQRES 38 A 514 ASP ALA TYR ASP ARG LEU THR ARG HIS ARG CYS ARG MET SEQRES 39 A 514 VAL GLU ARG GLY ILE ALA ALA GLN PRO LEU TYR ALA GLY SEQRES 40 A 514 TYR CYS ASN HIS GLU ASN MET HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET GOL A 601 6 HET FMT A 602 3 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GOL GLYCEROL HETNAM FMT FORMIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG 4(C8 H15 N O6) FORMUL 4 GOL C3 H8 O3 FORMUL 5 FMT C H2 O2 FORMUL 6 HOH *150(H2 O) HELIX 1 AA1 CYS A 91 PHE A 106 1 16 HELIX 2 AA2 ARG A 164 VAL A 179 1 16 HELIX 3 AA3 PRO A 215 ASN A 229 1 15 HELIX 4 AA4 PRO A 252 SER A 259 1 8 HELIX 5 AA5 THR A 267 LEU A 280 1 14 HELIX 6 AA6 THR A 295 LYS A 300 1 6 HELIX 7 AA7 LEU A 326 PHE A 344 1 19 HELIX 8 AA8 PHE A 358 SER A 363 1 6 HELIX 9 AA9 ASN A 364 GLN A 373 1 10 HELIX 10 AB1 ASP A 379 ILE A 398 1 20 HELIX 11 AB2 GLN A 406 ASP A 411 1 6 HELIX 12 AB3 ALA A 428 SER A 439 1 12 HELIX 13 AB4 GLN A 458 VAL A 466 1 9 HELIX 14 AB5 THR A 474 GLN A 479 1 6 HELIX 15 AB6 ASN A 497 TRP A 503 1 7 HELIX 16 AB7 PRO A 504 SER A 515 1 12 HELIX 17 AB8 ASP A 521 ARG A 539 1 19 SHEET 1 AA1 7 TYR A 78 HIS A 81 0 SHEET 2 AA1 7 GLN A 126 ILE A 131 1 O LEU A 127 N SER A 80 SHEET 3 AA1 7 VAL A 157 ALA A 162 1 O LEU A 160 N SER A 130 SHEET 4 AA1 7 TYR A 149 VAL A 153 -1 N LEU A 152 O VAL A 159 SHEET 5 AA1 7 PHE A 187 ASP A 196 -1 O ILE A 194 N LEU A 151 SHEET 6 AA1 7 SER A 62 LEU A 72 -1 N LEU A 70 O ILE A 189 SHEET 7 AA1 7 GLN A 123 VAL A 124 1 O VAL A 124 N HIS A 71 SHEET 1 AA2 6 TYR A 78 HIS A 81 0 SHEET 2 AA2 6 GLN A 126 ILE A 131 1 O LEU A 127 N SER A 80 SHEET 3 AA2 6 VAL A 157 ALA A 162 1 O LEU A 160 N SER A 130 SHEET 4 AA2 6 TYR A 149 VAL A 153 -1 N LEU A 152 O VAL A 159 SHEET 5 AA2 6 PHE A 187 ASP A 196 -1 O ILE A 194 N LEU A 151 SHEET 6 AA2 6 TYR A 180 GLN A 181 -1 N TYR A 180 O THR A 188 SHEET 1 AA3 9 HIS A 202 ASP A 208 0 SHEET 2 AA3 9 VAL A 233 HIS A 237 1 O HIS A 235 N ILE A 205 SHEET 3 AA3 9 ARG A 284 THR A 291 1 O ARG A 284 N LEU A 234 SHEET 4 AA3 9 PHE A 348 GLY A 352 1 O HIS A 350 N PRO A 287 SHEET 5 AA3 9 GLY A 401 TRP A 405 1 O TRP A 405 N GLY A 352 SHEET 6 AA3 9 ILE A 420 VAL A 423 1 O GLU A 422 N VAL A 404 SHEET 7 AA3 9 VAL A 443 LEU A 445 1 O ILE A 444 N VAL A 423 SHEET 8 AA3 9 PHE A 481 LEU A 488 1 O GLY A 483 N LEU A 445 SHEET 9 AA3 9 HIS A 202 ASP A 208 1 N LEU A 206 O ALA A 486 SHEET 1 AA4 2 LEU A 306 SER A 311 0 SHEET 2 AA4 2 GLU A 314 ILE A 322 -1 O LEU A 316 N CYS A 309 SSBOND 1 CYS A 91 CYS A 137 1555 1555 2.11 SSBOND 2 CYS A 309 CYS A 360 1555 1555 2.05 SSBOND 3 CYS A 534 CYS A 551 1555 1555 2.09 LINK ND2 ASN A 142 C1 NAG C 1 1555 1555 1.47 LINK ND2 ASN A 190 C1 NAG B 1 1555 1555 1.45 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.46 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 CISPEP 1 TRP A 57 PRO A 58 0 -6.63 CISPEP 2 GLU A 155 PRO A 156 0 0.89 CISPEP 3 THR A 291 PRO A 292 0 1.20 CISPEP 4 TRP A 503 PRO A 504 0 13.48 CRYST1 126.470 126.470 88.310 90.00 90.00 90.00 P 42 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007907 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007907 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011324 0.00000