HEADER HYDROLASE 20-MAY-17 5VVU TITLE STRUCTURAL INVESTIGATIONS OF THE SUBSTRATE SPECIFICITY OF HUMAN O- TITLE 2 GLCNACASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN O-GLCNACASE; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: UNP RESIDUES 60-400, 553-704; COMPND 5 SYNONYM: OGA,BETA-N-ACETYLGLUCOSAMINIDASE,BETA-N- COMPND 6 ACETYLHEXOSAMINIDASE,BETA-HEXOSAMINIDASE,MENINGIOMA-EXPRESSED ANTIGEN COMPND 7 5,N-ACETYL-BETA-D-GLUCOSAMINIDASE,N-ACETYL-BETA-GLUCOSAMINIDASE, COMPND 8 NUCLEAR CYTOPLASMIC O-GLCNACASE AND ACETYLTRANSFERASE,NCOAT; COMPND 9 EC: 3.2.1.169,3.2.1.-; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: TAB1 PEPTIDE; COMPND 13 CHAIN: B, D; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: MGEA5, HEXC, KIAA0679, MEA5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS OGA, HUMAN O-GLCNACASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR B.LI,J.JIANG,H.LI,C.-W.HU REVDAT 4 04-OCT-23 5VVU 1 HETSYN REVDAT 3 29-JUL-20 5VVU 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 04-OCT-17 5VVU 1 JRNL REVDAT 1 27-SEP-17 5VVU 0 JRNL AUTH B.LI,H.LI,C.W.HU,J.JIANG JRNL TITL STRUCTURAL INSIGHTS INTO THE SUBSTRATE BINDING ADAPTABILITY JRNL TITL 2 AND SPECIFICITY OF HUMAN O-GLCNACASE. JRNL REF NAT COMMUN V. 8 666 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 28939839 JRNL DOI 10.1038/S41467-017-00865-1 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 33154 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1656 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2419 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.3380 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7062 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.96000 REMARK 3 B22 (A**2) : 1.81000 REMARK 3 B33 (A**2) : -2.98000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.60000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.711 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.351 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.324 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.498 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7283 ; 0.012 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9851 ; 1.592 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 850 ; 6.436 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 351 ;35.291 ;23.504 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1240 ;17.842 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;15.643 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1043 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5523 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 3433 ; 5.243 ; 6.599 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4272 ; 7.946 ; 9.883 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3850 ; 6.151 ; 6.952 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 31118 ;13.408 ;62.774 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 59 694 C 59 694 1064 0.16 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: NULL REMARK 4 REMARK 4 5VVU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227992. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34865 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: 5UN8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.024 M AMMONIUM CITRATE TRIBASIC (PH REMARK 280 7.0), 0.015 M MES MONOHYDRATE, 0.096 M POTASSIUM THIOCYANATE, REMARK 280 0.25 M SODIUM ACETATE TRIHYDRATE, 0.037 M IMIDAZOLE, 0.002 M REMARK 280 ZINC SULFATE HEPTAHYDRATE, 9.6 % W/V POLYETHYLENE GLYCOL 3,350, REMARK 280 2.4 % W/V POLYETHYLENE GLYCOL MONOMETHYL ETHER 2,000, AND 4% W/V REMARK 280 POLYETHYLENE GLYCOL MONOMETHYL ETHER 550, EVAPORATION, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 48.03000 REMARK 290 SMTRY3 2 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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 334 REMARK 465 ASN A 335 REMARK 465 MET A 336 REMARK 465 ASN A 337 REMARK 465 GLY A 338 REMARK 465 VAL A 339 REMARK 465 ARG A 340 REMARK 465 LYS A 341 REMARK 465 ASP A 342 REMARK 465 VAL A 343 REMARK 465 VAL A 344 REMARK 465 MET A 345 REMARK 465 THR A 346 REMARK 465 ASP A 347 REMARK 465 SER A 348 REMARK 465 GLU A 349 REMARK 465 ASP A 350 REMARK 465 SER A 351 REMARK 465 THR A 352 REMARK 465 VAL A 353 REMARK 465 SER A 354 REMARK 465 ILE A 355 REMARK 465 GLN A 356 REMARK 465 ILE A 357 REMARK 465 LYS A 358 REMARK 465 LEU A 359 REMARK 465 GLU A 360 REMARK 465 ASN A 361 REMARK 465 GLU A 362 REMARK 465 GLY A 363 REMARK 465 SER A 364 REMARK 465 ASP A 365 REMARK 465 GLU A 366 REMARK 465 ASP A 367 REMARK 465 ILE A 368 REMARK 465 GLU A 369 REMARK 465 THR A 370 REMARK 465 ASP A 371 REMARK 465 VAL A 372 REMARK 465 LEU A 373 REMARK 465 SER A 541 REMARK 465 ARG A 542 REMARK 465 GLY A 543 REMARK 465 GLY A 544 REMARK 465 GLY A 545 REMARK 465 GLY A 546 REMARK 465 SER A 547 REMARK 465 GLY A 548 REMARK 465 GLY A 549 REMARK 465 GLY A 550 REMARK 465 GLY A 551 REMARK 465 SER A 552 REMARK 465 SER A 593 REMARK 465 VAL A 594 REMARK 465 ASN A 595 REMARK 465 CYS A 596 REMARK 465 LYS A 597 REMARK 465 GLY A 598 REMARK 465 LYS A 599 REMARK 465 ASP A 600 REMARK 465 SER A 601 REMARK 465 GLU A 602 REMARK 465 LYS A 603 REMARK 465 HIS A 666 REMARK 465 SER A 667 REMARK 465 SER A 668 REMARK 465 ALA A 669 REMARK 465 GLN A 670 REMARK 465 PHE A 671 REMARK 465 LEU A 672 REMARK 465 ILE A 673 REMARK 465 GLY A 674 REMARK 465 ASP A 675 REMARK 465 GLN A 676 REMARK 465 GLU A 677 REMARK 465 PRO A 678 REMARK 465 LEU A 701 REMARK 465 PHE A 702 REMARK 465 PHE A 703 REMARK 465 GLN A 704 REMARK 465 VAL B 392 REMARK 465 ALA B 397 REMARK 465 GLN B 398 REMARK 465 ASN C 337 REMARK 465 GLY C 338 REMARK 465 VAL C 339 REMARK 465 ARG C 340 REMARK 465 LYS C 341 REMARK 465 ASP C 342 REMARK 465 VAL C 343 REMARK 465 VAL C 344 REMARK 465 MET C 345 REMARK 465 THR C 346 REMARK 465 ASP C 347 REMARK 465 SER C 348 REMARK 465 GLU C 349 REMARK 465 ASP C 350 REMARK 465 SER C 351 REMARK 465 THR C 352 REMARK 465 VAL C 353 REMARK 465 SER C 354 REMARK 465 ILE C 355 REMARK 465 GLN C 356 REMARK 465 ILE C 357 REMARK 465 LYS C 358 REMARK 465 LEU C 359 REMARK 465 GLU C 360 REMARK 465 ASN C 361 REMARK 465 GLU C 362 REMARK 465 GLY C 363 REMARK 465 SER C 364 REMARK 465 ASP C 365 REMARK 465 GLU C 366 REMARK 465 ASP C 367 REMARK 465 ILE C 368 REMARK 465 GLU C 369 REMARK 465 THR C 370 REMARK 465 ASP C 371 REMARK 465 VAL C 372 REMARK 465 GLY C 534 REMARK 465 VAL C 535 REMARK 465 PRO C 536 REMARK 465 HIS C 537 REMARK 465 GLN C 538 REMARK 465 TYR C 539 REMARK 465 SER C 540 REMARK 465 SER C 541 REMARK 465 ARG C 542 REMARK 465 GLY C 543 REMARK 465 GLY C 544 REMARK 465 GLY C 545 REMARK 465 GLY C 546 REMARK 465 SER C 547 REMARK 465 GLY C 548 REMARK 465 GLY C 549 REMARK 465 GLY C 550 REMARK 465 GLY C 551 REMARK 465 SER C 593 REMARK 465 VAL C 594 REMARK 465 ASN C 595 REMARK 465 CYS C 596 REMARK 465 LYS C 597 REMARK 465 GLY C 598 REMARK 465 LYS C 599 REMARK 465 ASP C 600 REMARK 465 SER C 601 REMARK 465 GLU C 602 REMARK 465 LYS C 603 REMARK 465 ILE C 695 REMARK 465 ASP C 696 REMARK 465 GLY C 697 REMARK 465 ALA C 698 REMARK 465 ASN C 699 REMARK 465 ASP C 700 REMARK 465 LEU C 701 REMARK 465 PHE C 702 REMARK 465 PHE C 703 REMARK 465 GLN C 704 REMARK 465 VAL D 392 REMARK 465 ALA D 397 REMARK 465 GLN D 398 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 O GLN C 160 O HOH C 801 1.86 REMARK 500 NH1 ARG C 83 CE LYS C 87 2.01 REMARK 500 OG SER D 395 O5 NAG D 401 2.07 REMARK 500 O LYS A 333 O HOH A 801 2.15 REMARK 500 O PRO A 216 O HOH A 802 2.17 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 CYS A 663 CA - CB - SG ANGL. DEV. = 10.4 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 ALA A 96 41.28 -151.93 REMARK 500 ARG A 104 -64.13 -135.91 REMARK 500 SER A 112 -179.67 -65.24 REMARK 500 ASN A 175 61.28 62.10 REMARK 500 HIS A 193 -37.12 -39.68 REMARK 500 GLN A 230 35.85 -140.18 REMARK 500 PRO A 243 -15.30 -49.28 REMARK 500 PRO A 314 -167.93 -108.48 REMARK 500 TYR A 566 -88.28 -108.76 REMARK 500 CYS A 663 -175.89 -68.02 REMARK 500 ALA A 698 20.11 -75.07 REMARK 500 ASN A 699 43.24 -151.92 REMARK 500 ALA C 96 48.70 -148.56 REMARK 500 ARG C 104 -57.59 -132.06 REMARK 500 GLU C 208 70.19 51.97 REMARK 500 GLU C 210 -71.43 -42.97 REMARK 500 ASP C 287 112.52 -169.36 REMARK 500 TYR C 566 -86.90 -107.16 REMARK 500 VAL C 591 15.84 -68.77 REMARK 500 TYR D 394 -153.17 -121.62 REMARK 500 SER D 395 -0.82 -57.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5VVO RELATED DB: PDB REMARK 900 RELATED ID: 5VVT RELATED DB: PDB REMARK 900 RELATED ID: 5VVV RELATED DB: PDB REMARK 900 RELATED ID: 5VVX RELATED DB: PDB DBREF 5VVU A 60 542 UNP O60502 OGA_HUMAN 60 400 DBREF 5VVU A 553 704 UNP O60502 OGA_HUMAN 553 704 DBREF 5VVU B 392 398 PDB 5VVU 5VVU 392 398 DBREF 5VVU C 60 542 UNP O60502 OGA_HUMAN 60 400 DBREF 5VVU C 553 704 UNP O60502 OGA_HUMAN 553 704 DBREF 5VVU D 392 398 PDB 5VVU 5VVU 392 398 SEQADV 5VVU HIS A 59 UNP O60502 EXPRESSION TAG SEQADV 5VVU ASN A 175 UNP O60502 ASP 175 CONFLICT SEQADV 5VVU GLY A 543 UNP O60502 LINKER SEQADV 5VVU GLY A 544 UNP O60502 LINKER SEQADV 5VVU GLY A 545 UNP O60502 LINKER SEQADV 5VVU GLY A 546 UNP O60502 LINKER SEQADV 5VVU SER A 547 UNP O60502 LINKER SEQADV 5VVU GLY A 548 UNP O60502 LINKER SEQADV 5VVU GLY A 549 UNP O60502 LINKER SEQADV 5VVU GLY A 550 UNP O60502 LINKER SEQADV 5VVU GLY A 551 UNP O60502 LINKER SEQADV 5VVU SER A 552 UNP O60502 LINKER SEQADV 5VVU HIS C 59 UNP O60502 EXPRESSION TAG SEQADV 5VVU ASN C 175 UNP O60502 ASP 175 CONFLICT SEQADV 5VVU GLY C 543 UNP O60502 LINKER SEQADV 5VVU GLY C 544 UNP O60502 LINKER SEQADV 5VVU GLY C 545 UNP O60502 LINKER SEQADV 5VVU GLY C 546 UNP O60502 LINKER SEQADV 5VVU SER C 547 UNP O60502 LINKER SEQADV 5VVU GLY C 548 UNP O60502 LINKER SEQADV 5VVU GLY C 549 UNP O60502 LINKER SEQADV 5VVU GLY C 550 UNP O60502 LINKER SEQADV 5VVU GLY C 551 UNP O60502 LINKER SEQADV 5VVU SER C 552 UNP O60502 LINKER SEQRES 1 A 504 HIS PHE LEU CYS GLY VAL VAL GLU GLY PHE TYR GLY ARG SEQRES 2 A 504 PRO TRP VAL MET GLU GLN ARG LYS GLU LEU PHE ARG ARG SEQRES 3 A 504 LEU GLN LYS TRP GLU LEU ASN THR TYR LEU TYR ALA PRO SEQRES 4 A 504 LYS ASP ASP TYR LYS HIS ARG MET PHE TRP ARG GLU MET SEQRES 5 A 504 TYR SER VAL GLU GLU ALA GLU GLN LEU MET THR LEU ILE SEQRES 6 A 504 SER ALA ALA ARG GLU TYR GLU ILE GLU PHE ILE TYR ALA SEQRES 7 A 504 ILE SER PRO GLY LEU ASP ILE THR PHE SER ASN PRO LYS SEQRES 8 A 504 GLU VAL SER THR LEU LYS ARG LYS LEU ASP GLN VAL SER SEQRES 9 A 504 GLN PHE GLY CYS ARG SER PHE ALA LEU LEU PHE ASP ASN SEQRES 10 A 504 ILE ASP HIS ASN MET CYS ALA ALA ASP LYS GLU VAL PHE SEQRES 11 A 504 SER SER PHE ALA HIS ALA GLN VAL SER ILE THR ASN GLU SEQRES 12 A 504 ILE TYR GLN TYR LEU GLY GLU PRO GLU THR PHE LEU PHE SEQRES 13 A 504 CYS PRO THR GLU TYR CYS GLY THR PHE CYS TYR PRO ASN SEQRES 14 A 504 VAL SER GLN SER PRO TYR LEU ARG THR VAL GLY GLU LYS SEQRES 15 A 504 LEU LEU PRO GLY ILE GLU VAL LEU TRP THR GLY PRO LYS SEQRES 16 A 504 VAL VAL SER LYS GLU ILE PRO VAL GLU SER ILE GLU GLU SEQRES 17 A 504 VAL SER LYS ILE ILE LYS ARG ALA PRO VAL ILE TRP ASP SEQRES 18 A 504 ASN ILE HIS ALA ASN ASP TYR ASP GLN LYS ARG LEU PHE SEQRES 19 A 504 LEU GLY PRO TYR LYS GLY ARG SER THR GLU LEU ILE PRO SEQRES 20 A 504 ARG LEU LYS GLY VAL LEU THR ASN PRO ASN CYS GLU PHE SEQRES 21 A 504 GLU ALA ASN TYR VAL ALA ILE HIS THR LEU ALA THR TRP SEQRES 22 A 504 TYR LYS SER ASN MET ASN GLY VAL ARG LYS ASP VAL VAL SEQRES 23 A 504 MET THR ASP SER GLU ASP SER THR VAL SER ILE GLN ILE SEQRES 24 A 504 LYS LEU GLU ASN GLU GLY SER ASP GLU ASP ILE GLU THR SEQRES 25 A 504 ASP VAL LEU TYR SER PRO GLN MET ALA LEU LYS LEU ALA SEQRES 26 A 504 LEU THR GLU TRP LEU GLN GLU PHE GLY VAL PRO HIS GLN SEQRES 27 A 504 TYR SER SER ARG GLY GLY GLY GLY SER GLY GLY GLY GLY SEQRES 28 A 504 SER VAL THR LEU GLU ASP LEU GLN LEU LEU ALA ASP LEU SEQRES 29 A 504 PHE TYR LEU PRO TYR GLU HIS GLY PRO LYS GLY ALA GLN SEQRES 30 A 504 MET LEU ARG GLU PHE GLN TRP LEU ARG ALA ASN SER SER SEQRES 31 A 504 VAL VAL SER VAL ASN CYS LYS GLY LYS ASP SER GLU LYS SEQRES 32 A 504 ILE GLU GLU TRP ARG SER ARG ALA ALA LYS PHE GLU GLU SEQRES 33 A 504 MET CYS GLY LEU VAL MET GLY MET PHE THR ARG LEU SER SEQRES 34 A 504 ASN CYS ALA ASN ARG THR ILE LEU TYR ASP MET TYR SER SEQRES 35 A 504 TYR VAL TRP ASP ILE LYS SER ILE MET SER MET VAL LYS SEQRES 36 A 504 SER PHE VAL GLN TRP LEU GLY CYS ARG SER HIS SER SER SEQRES 37 A 504 ALA GLN PHE LEU ILE GLY ASP GLN GLU PRO TRP ALA PHE SEQRES 38 A 504 ARG GLY GLY LEU ALA GLY GLU PHE GLN ARG LEU LEU PRO SEQRES 39 A 504 ILE ASP GLY ALA ASN ASP LEU PHE PHE GLN SEQRES 1 B 7 VAL PRO TYR SER SER ALA GLN SEQRES 1 C 504 HIS PHE LEU CYS GLY VAL VAL GLU GLY PHE TYR GLY ARG SEQRES 2 C 504 PRO TRP VAL MET GLU GLN ARG LYS GLU LEU PHE ARG ARG SEQRES 3 C 504 LEU GLN LYS TRP GLU LEU ASN THR TYR LEU TYR ALA PRO SEQRES 4 C 504 LYS ASP ASP TYR LYS HIS ARG MET PHE TRP ARG GLU MET SEQRES 5 C 504 TYR SER VAL GLU GLU ALA GLU GLN LEU MET THR LEU ILE SEQRES 6 C 504 SER ALA ALA ARG GLU TYR GLU ILE GLU PHE ILE TYR ALA SEQRES 7 C 504 ILE SER PRO GLY LEU ASP ILE THR PHE SER ASN PRO LYS SEQRES 8 C 504 GLU VAL SER THR LEU LYS ARG LYS LEU ASP GLN VAL SER SEQRES 9 C 504 GLN PHE GLY CYS ARG SER PHE ALA LEU LEU PHE ASP ASN SEQRES 10 C 504 ILE ASP HIS ASN MET CYS ALA ALA ASP LYS GLU VAL PHE SEQRES 11 C 504 SER SER PHE ALA HIS ALA GLN VAL SER ILE THR ASN GLU SEQRES 12 C 504 ILE TYR GLN TYR LEU GLY GLU PRO GLU THR PHE LEU PHE SEQRES 13 C 504 CYS PRO THR GLU TYR CYS GLY THR PHE CYS TYR PRO ASN SEQRES 14 C 504 VAL SER GLN SER PRO TYR LEU ARG THR VAL GLY GLU LYS SEQRES 15 C 504 LEU LEU PRO GLY ILE GLU VAL LEU TRP THR GLY PRO LYS SEQRES 16 C 504 VAL VAL SER LYS GLU ILE PRO VAL GLU SER ILE GLU GLU SEQRES 17 C 504 VAL SER LYS ILE ILE LYS ARG ALA PRO VAL ILE TRP ASP SEQRES 18 C 504 ASN ILE HIS ALA ASN ASP TYR ASP GLN LYS ARG LEU PHE SEQRES 19 C 504 LEU GLY PRO TYR LYS GLY ARG SER THR GLU LEU ILE PRO SEQRES 20 C 504 ARG LEU LYS GLY VAL LEU THR ASN PRO ASN CYS GLU PHE SEQRES 21 C 504 GLU ALA ASN TYR VAL ALA ILE HIS THR LEU ALA THR TRP SEQRES 22 C 504 TYR LYS SER ASN MET ASN GLY VAL ARG LYS ASP VAL VAL SEQRES 23 C 504 MET THR ASP SER GLU ASP SER THR VAL SER ILE GLN ILE SEQRES 24 C 504 LYS LEU GLU ASN GLU GLY SER ASP GLU ASP ILE GLU THR SEQRES 25 C 504 ASP VAL LEU TYR SER PRO GLN MET ALA LEU LYS LEU ALA SEQRES 26 C 504 LEU THR GLU TRP LEU GLN GLU PHE GLY VAL PRO HIS GLN SEQRES 27 C 504 TYR SER SER ARG GLY GLY GLY GLY SER GLY GLY GLY GLY SEQRES 28 C 504 SER VAL THR LEU GLU ASP LEU GLN LEU LEU ALA ASP LEU SEQRES 29 C 504 PHE TYR LEU PRO TYR GLU HIS GLY PRO LYS GLY ALA GLN SEQRES 30 C 504 MET LEU ARG GLU PHE GLN TRP LEU ARG ALA ASN SER SER SEQRES 31 C 504 VAL VAL SER VAL ASN CYS LYS GLY LYS ASP SER GLU LYS SEQRES 32 C 504 ILE GLU GLU TRP ARG SER ARG ALA ALA LYS PHE GLU GLU SEQRES 33 C 504 MET CYS GLY LEU VAL MET GLY MET PHE THR ARG LEU SER SEQRES 34 C 504 ASN CYS ALA ASN ARG THR ILE LEU TYR ASP MET TYR SER SEQRES 35 C 504 TYR VAL TRP ASP ILE LYS SER ILE MET SER MET VAL LYS SEQRES 36 C 504 SER PHE VAL GLN TRP LEU GLY CYS ARG SER HIS SER SER SEQRES 37 C 504 ALA GLN PHE LEU ILE GLY ASP GLN GLU PRO TRP ALA PHE SEQRES 38 C 504 ARG GLY GLY LEU ALA GLY GLU PHE GLN ARG LEU LEU PRO SEQRES 39 C 504 ILE ASP GLY ALA ASN ASP LEU PHE PHE GLN SEQRES 1 D 7 VAL PRO TYR SER SER ALA GLN HET NAG B 401 14 HET NAG D 401 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 FORMUL 5 NAG 2(C8 H15 N O6) FORMUL 7 HOH *50(H2 O) HELIX 1 AA1 VAL A 74 TRP A 88 1 15 HELIX 2 AA2 SER A 112 TYR A 129 1 18 HELIX 3 AA3 ASN A 147 GLN A 163 1 17 HELIX 4 AA4 CYS A 181 GLU A 186 1 6 HELIX 5 AA5 SER A 190 LEU A 206 1 17 HELIX 6 AA6 CYS A 220 CYS A 224 5 5 HELIX 7 AA7 SER A 231 LEU A 241 1 11 HELIX 8 AA8 PRO A 260 LYS A 272 1 13 HELIX 9 AA9 SER A 300 LEU A 307 5 8 HELIX 10 AB1 GLU A 317 ALA A 320 5 4 HELIX 11 AB2 ASN A 321 LYS A 333 1 13 HELIX 12 AB3 SER A 375 LEU A 388 1 14 HELIX 13 AB4 GLN A 389 PHE A 391 5 3 HELIX 14 AB5 THR A 554 PHE A 565 1 12 HELIX 15 AB6 GLY A 572 ASN A 588 1 17 HELIX 16 AB7 SER A 589 VAL A 592 5 4 HELIX 17 AB8 ILE A 604 ILE A 604 5 1 HELIX 18 AB9 GLU A 605 ASN A 630 1 26 HELIX 19 AC1 ASN A 633 CYS A 663 1 31 HELIX 20 AC2 GLY A 683 ARG A 691 1 9 HELIX 21 AC3 VAL C 74 TRP C 88 1 15 HELIX 22 AC4 SER C 112 TYR C 129 1 18 HELIX 23 AC5 ASN C 147 GLN C 163 1 17 HELIX 24 AC6 CYS C 181 PHE C 188 1 8 HELIX 25 AC7 SER C 190 LEU C 206 1 17 HELIX 26 AC8 CYS C 220 CYS C 224 5 5 HELIX 27 AC9 ASN C 227 GLN C 230 5 4 HELIX 28 AD1 SER C 231 LEU C 241 1 11 HELIX 29 AD2 PRO C 260 LYS C 272 1 13 HELIX 30 AD3 SER C 300 LEU C 307 5 8 HELIX 31 AD4 GLU C 317 GLU C 319 5 3 HELIX 32 AD5 ALA C 320 ASN C 335 1 16 HELIX 33 AD6 SER C 375 GLN C 389 1 15 HELIX 34 AD7 THR C 554 PHE C 565 1 12 HELIX 35 AD8 GLY C 572 ASN C 588 1 17 HELIX 36 AD9 SER C 589 VAL C 592 5 4 HELIX 37 AE1 GLU C 605 ASN C 630 1 26 HELIX 38 AE2 ASN C 633 CYS C 663 1 31 HELIX 39 AE3 ARG C 664 SER C 667 5 4 HELIX 40 AE4 GLU C 677 PHE C 681 5 5 HELIX 41 AE5 GLY C 683 ARG C 691 1 9 SHEET 1 AA1 9 LEU A 61 GLU A 66 0 SHEET 2 AA1 9 THR A 92 TYR A 95 1 O LEU A 94 N VAL A 64 SHEET 3 AA1 9 GLU A 132 ILE A 137 1 O ILE A 134 N TYR A 95 SHEET 4 AA1 9 SER A 168 LEU A 172 1 O ALA A 170 N TYR A 135 SHEET 5 AA1 9 PHE A 212 CYS A 215 1 O LEU A 213 N PHE A 169 SHEET 6 AA1 9 GLU A 246 TRP A 249 1 O GLU A 246 N PHE A 214 SHEET 7 AA1 9 VAL A 276 ASP A 279 1 O VAL A 276 N VAL A 247 SHEET 8 AA1 9 GLY A 309 THR A 312 1 O LEU A 311 N ASP A 279 SHEET 9 AA1 9 LEU A 61 GLU A 66 1 N GLY A 63 O THR A 312 SHEET 1 AA2 9 LEU C 61 GLU C 66 0 SHEET 2 AA2 9 THR C 92 TYR C 95 1 O LEU C 94 N GLU C 66 SHEET 3 AA2 9 GLU C 132 ILE C 137 1 O ILE C 134 N TYR C 93 SHEET 4 AA2 9 SER C 168 LEU C 172 1 O LEU C 172 N ILE C 137 SHEET 5 AA2 9 PHE C 212 CYS C 215 1 O LEU C 213 N LEU C 171 SHEET 6 AA2 9 GLU C 246 TRP C 249 1 O LEU C 248 N PHE C 214 SHEET 7 AA2 9 VAL C 276 ASP C 279 1 O TRP C 278 N TRP C 249 SHEET 8 AA2 9 GLY C 309 THR C 312 1 O GLY C 309 N ILE C 277 SHEET 9 AA2 9 LEU C 61 GLU C 66 1 N GLY C 63 O THR C 312 SSBOND 1 CYS A 663 CYS C 663 1555 2955 2.33 LINK OG SER B 395 C1 NAG B 401 1555 1555 1.37 LINK NH1 ARG C 83 NZ LYS C 87 1555 1555 1.23 LINK OG SER D 395 C1 NAG D 401 1555 1555 1.36 CISPEP 1 TYR A 225 PRO A 226 0 -5.48 CISPEP 2 TYR C 225 PRO C 226 0 -2.97 CRYST1 82.507 96.060 88.968 90.00 114.51 90.00 P 1 21 1 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 0.012120 0.000000 0.005526 0.00000 SCALE2 0.000000 0.010410 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012353 0.00000