PDB Short entry for 5KZX HEADER HYDROLASE 25-JUL-16 5KZX TITLE CRYSTAL STRUCTURE OF HUMAN GAA COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOSOMAL ALPHA-GLUCOSIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 79-952; COMPND 5 SYNONYM: ACID MALTASE,AGLUCOSIDASE ALFA; COMPND 6 EC: 3.2.1.20; COMPND 7 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: GAA; SOURCE 6 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: CHO CELLS KEYWDS POMPE DISEASE, GLYCOGEN STORAGE DISEASE 2, HUMAN ACID ALPHA KEYWDS 2 GLUCOSIDASE, GLYCOPROTEIN, N-LINKED GLYCOSYLATION, LYSOSOMAL ENZYME, KEYWDS 3 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.T.DEMING,S.C.GARMAN REVDAT 5 04-OCT-23 5KZX 1 HETSYN REVDAT 4 29-JUL-20 5KZX 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 04-DEC-19 5KZX 1 REMARK REVDAT 2 17-JAN-18 5KZX 1 REMARK REVDAT 1 26-JUL-17 5KZX 0 JRNL AUTH D.T.DEMING,S.C.GARMAN JRNL TITL THE STRUCTURE OF HUMAN GAA: STRUCTURAL BASIS OF POMPE JRNL TITL 2 DISEASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 80.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 83.5 REMARK 3 NUMBER OF REFLECTIONS : 69337 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3547 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5701 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.2080 REMARK 3 BIN FREE R VALUE SET COUNT : 269 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6690 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 269 REMARK 3 SOLVENT ATOMS : 792 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.01000 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): 0.151 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.697 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7231 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6608 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9897 ; 1.469 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 15259 ; 0.916 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 864 ; 6.914 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 319 ;35.793 ;23.542 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1051 ;12.501 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 44 ;18.200 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1120 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7999 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1671 ; 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): 3414 ; 2.730 ; 6.878 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3413 ; 2.729 ; 6.877 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4265 ; 3.577 ;10.226 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 79 A 952 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9270 -24.8710 -22.8410 REMARK 3 T TENSOR REMARK 3 T11: 0.0160 T22: 0.0226 REMARK 3 T33: 0.0114 T12: -0.0059 REMARK 3 T13: 0.0078 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.2397 L22: 0.2461 REMARK 3 L33: 0.3438 L12: -0.0139 REMARK 3 L13: -0.0308 L23: 0.1222 REMARK 3 S TENSOR REMARK 3 S11: -0.0258 S12: 0.0092 S13: -0.0301 REMARK 3 S21: -0.0291 S22: 0.0329 S23: -0.0167 REMARK 3 S31: -0.0176 S32: 0.0118 S33: -0.0071 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 4 REMARK 4 5KZX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000222977. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.18076 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 OPTICS : TOROIDAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.12 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 90718 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 80.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.2 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 47.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.36300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 5KZR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 SODIUM HEPES, 2% (V/V) PEG 400, 2M REMARK 280 AMMONIUM SULFATE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 48.55500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.27500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.29500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.27500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.55500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.29500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 GLY A 116 REMARK 465 LEU A 117 REMARK 465 GLN A 118 REMARK 465 GLY A 119 REMARK 465 ALA A 120 REMARK 465 GLN A 121 REMARK 465 HIS A 199 REMARK 465 VAL A 200 REMARK 465 HIS A 201 REMARK 465 SER A 202 REMARK 465 ARG A 203 REMARK 465 ALA A 204 REMARK 465 PRO A 205 REMARK 465 ALA A 782 REMARK 465 LEU A 783 REMARK 465 GLY A 784 REMARK 465 SER A 785 REMARK 465 LEU A 786 REMARK 465 PRO A 787 REMARK 465 PRO A 788 REMARK 465 PRO A 789 REMARK 465 PRO A 790 REMARK 465 ALA A 791 REMARK 465 ALA A 792 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 C1 GLC A 1016 O6 BGC A 1017 1.98 REMARK 500 OE1 GLU A 460 O HOH A 1101 2.14 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 594 NE - CZ - NH2 ANGL. DEV. = -3.6 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 SER A 135 -147.03 -122.50 REMARK 500 GLU A 216 106.96 -160.34 REMARK 500 LEU A 291 -152.08 -103.84 REMARK 500 ASP A 404 -156.45 -90.41 REMARK 500 ASP A 419 -99.37 -111.09 REMARK 500 ASN A 470 -168.31 -107.18 REMARK 500 VAL A 480 -153.16 -137.64 REMARK 500 SER A 566 -172.83 -174.55 REMARK 500 CYS A 647 -0.35 75.80 REMARK 500 GLN A 682 30.51 -141.55 REMARK 500 VAL A 723 -67.33 -97.03 REMARK 500 ASP A 741 17.89 -140.13 REMARK 500 ALA A 809 66.61 -154.18 REMARK 500 GLU A 863 -9.04 -151.89 REMARK 500 ALA A 872 56.52 -90.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 GLC A 1016 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KZR RELATED DB: PDB REMARK 900 5KZR IS HUMAN GAA IN COMPLEX WITH DNJ REMARK 900 RELATED ID: 5KZW RELATED DB: PDB REMARK 900 5KZW IS HUMAN GAA IN COMPLEX WITH ISOMALTOSE DBREF 5KZX A 79 952 UNP P10253 LYAG_HUMAN 79 952 SEQADV 5KZX HIS A 223 UNP P10253 ARG 223 CONFLICT SEQADV 5KZX ILE A 780 UNP P10253 VAL 780 CONFLICT SEQRES 1 A 874 PRO THR GLN CYS ASP VAL PRO PRO ASN SER ARG PHE ASP SEQRES 2 A 874 CYS ALA PRO ASP LYS ALA ILE THR GLN GLU GLN CYS GLU SEQRES 3 A 874 ALA ARG GLY CYS CYS TYR ILE PRO ALA LYS GLN GLY LEU SEQRES 4 A 874 GLN GLY ALA GLN MET GLY GLN PRO TRP CYS PHE PHE PRO SEQRES 5 A 874 PRO SER TYR PRO SER TYR LYS LEU GLU ASN LEU SER SER SEQRES 6 A 874 SER GLU MET GLY TYR THR ALA THR LEU THR ARG THR THR SEQRES 7 A 874 PRO THR PHE PHE PRO LYS ASP ILE LEU THR LEU ARG LEU SEQRES 8 A 874 ASP VAL MET MET GLU THR GLU ASN ARG LEU HIS PHE THR SEQRES 9 A 874 ILE LYS ASP PRO ALA ASN ARG ARG TYR GLU VAL PRO LEU SEQRES 10 A 874 GLU THR PRO HIS VAL HIS SER ARG ALA PRO SER PRO LEU SEQRES 11 A 874 TYR SER VAL GLU PHE SER GLU GLU PRO PHE GLY VAL ILE SEQRES 12 A 874 VAL HIS ARG GLN LEU ASP GLY ARG VAL LEU LEU ASN THR SEQRES 13 A 874 THR VAL ALA PRO LEU PHE PHE ALA ASP GLN PHE LEU GLN SEQRES 14 A 874 LEU SER THR SER LEU PRO SER GLN TYR ILE THR GLY LEU SEQRES 15 A 874 ALA GLU HIS LEU SER PRO LEU MET LEU SER THR SER TRP SEQRES 16 A 874 THR ARG ILE THR LEU TRP ASN ARG ASP LEU ALA PRO THR SEQRES 17 A 874 PRO GLY ALA ASN LEU TYR GLY SER HIS PRO PHE TYR LEU SEQRES 18 A 874 ALA LEU GLU ASP GLY GLY SER ALA HIS GLY VAL PHE LEU SEQRES 19 A 874 LEU ASN SER ASN ALA MET ASP VAL VAL LEU GLN PRO SER SEQRES 20 A 874 PRO ALA LEU SER TRP ARG SER THR GLY GLY ILE LEU ASP SEQRES 21 A 874 VAL TYR ILE PHE LEU GLY PRO GLU PRO LYS SER VAL VAL SEQRES 22 A 874 GLN GLN TYR LEU ASP VAL VAL GLY TYR PRO PHE MET PRO SEQRES 23 A 874 PRO TYR TRP GLY LEU GLY PHE HIS LEU CYS ARG TRP GLY SEQRES 24 A 874 TYR SER SER THR ALA ILE THR ARG GLN VAL VAL GLU ASN SEQRES 25 A 874 MET THR ARG ALA HIS PHE PRO LEU ASP VAL GLN TRP ASN SEQRES 26 A 874 ASP LEU ASP TYR MET ASP SER ARG ARG ASP PHE THR PHE SEQRES 27 A 874 ASN LYS ASP GLY PHE ARG ASP PHE PRO ALA MET VAL GLN SEQRES 28 A 874 GLU LEU HIS GLN GLY GLY ARG ARG TYR MET MET ILE VAL SEQRES 29 A 874 ASP PRO ALA ILE SER SER SER GLY PRO ALA GLY SER TYR SEQRES 30 A 874 ARG PRO TYR ASP GLU GLY LEU ARG ARG GLY VAL PHE ILE SEQRES 31 A 874 THR ASN GLU THR GLY GLN PRO LEU ILE GLY LYS VAL TRP SEQRES 32 A 874 PRO GLY SER THR ALA PHE PRO ASP PHE THR ASN PRO THR SEQRES 33 A 874 ALA LEU ALA TRP TRP GLU ASP MET VAL ALA GLU PHE HIS SEQRES 34 A 874 ASP GLN VAL PRO PHE ASP GLY MET TRP ILE ASP MET ASN SEQRES 35 A 874 GLU PRO SER ASN PHE ILE ARG GLY SER GLU ASP GLY CYS SEQRES 36 A 874 PRO ASN ASN GLU LEU GLU ASN PRO PRO TYR VAL PRO GLY SEQRES 37 A 874 VAL VAL GLY GLY THR LEU GLN ALA ALA THR ILE CYS ALA SEQRES 38 A 874 SER SER HIS GLN PHE LEU SER THR HIS TYR ASN LEU HIS SEQRES 39 A 874 ASN LEU TYR GLY LEU THR GLU ALA ILE ALA SER HIS ARG SEQRES 40 A 874 ALA LEU VAL LYS ALA ARG GLY THR ARG PRO PHE VAL ILE SEQRES 41 A 874 SER ARG SER THR PHE ALA GLY HIS GLY ARG TYR ALA GLY SEQRES 42 A 874 HIS TRP THR GLY ASP VAL TRP SER SER TRP GLU GLN LEU SEQRES 43 A 874 ALA SER SER VAL PRO GLU ILE LEU GLN PHE ASN LEU LEU SEQRES 44 A 874 GLY VAL PRO LEU VAL GLY ALA ASP VAL CYS GLY PHE LEU SEQRES 45 A 874 GLY ASN THR SER GLU GLU LEU CYS VAL ARG TRP THR GLN SEQRES 46 A 874 LEU GLY ALA PHE TYR PRO PHE MET ARG ASN HIS ASN SER SEQRES 47 A 874 LEU LEU SER LEU PRO GLN GLU PRO TYR SER PHE SER GLU SEQRES 48 A 874 PRO ALA GLN GLN ALA MET ARG LYS ALA LEU THR LEU ARG SEQRES 49 A 874 TYR ALA LEU LEU PRO HIS LEU TYR THR LEU PHE HIS GLN SEQRES 50 A 874 ALA HIS VAL ALA GLY GLU THR VAL ALA ARG PRO LEU PHE SEQRES 51 A 874 LEU GLU PHE PRO LYS ASP SER SER THR TRP THR VAL ASP SEQRES 52 A 874 HIS GLN LEU LEU TRP GLY GLU ALA LEU LEU ILE THR PRO SEQRES 53 A 874 VAL LEU GLN ALA GLY LYS ALA GLU VAL THR GLY TYR PHE SEQRES 54 A 874 PRO LEU GLY THR TRP TYR ASP LEU GLN THR VAL PRO ILE SEQRES 55 A 874 GLU ALA LEU GLY SER LEU PRO PRO PRO PRO ALA ALA PRO SEQRES 56 A 874 ARG GLU PRO ALA ILE HIS SER GLU GLY GLN TRP VAL THR SEQRES 57 A 874 LEU PRO ALA PRO LEU ASP THR ILE ASN VAL HIS LEU ARG SEQRES 58 A 874 ALA GLY TYR ILE ILE PRO LEU GLN GLY PRO GLY LEU THR SEQRES 59 A 874 THR THR GLU SER ARG GLN GLN PRO MET ALA LEU ALA VAL SEQRES 60 A 874 ALA LEU THR LYS GLY GLY GLU ALA ARG GLY GLU LEU PHE SEQRES 61 A 874 TRP ASP ASP GLY GLU SER LEU GLU VAL LEU GLU ARG GLY SEQRES 62 A 874 ALA TYR THR GLN VAL ILE PHE LEU ALA ARG ASN ASN THR SEQRES 63 A 874 ILE VAL ASN GLU LEU VAL ARG VAL THR SER GLU GLY ALA SEQRES 64 A 874 GLY LEU GLN LEU GLN LYS VAL THR VAL LEU GLY VAL ALA SEQRES 65 A 874 THR ALA PRO GLN GLN VAL LEU SER ASN GLY VAL PRO VAL SEQRES 66 A 874 SER ASN PHE THR TYR SER PRO ASP THR LYS VAL LEU ASP SEQRES 67 A 874 ILE CYS VAL SER LEU LEU MET GLY GLU GLN PHE LEU VAL SEQRES 68 A 874 SER TRP CYS HET NAG B 1 14 HET NAG B 2 14 HET FCA B 3 10 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET NAG F 1 14 HET FCA F 2 10 HET NAG A1013 14 HET GLC A1014 12 HET BGC A1015 12 HET GLC A1016 11 HET BGC A1017 12 HET EDO A1018 4 HET EDO A1019 4 HET PGE A1020 10 HET PEG A1021 7 HET SO4 A1022 5 HET SO4 A1023 5 HET PEG A1024 7 HET SO4 A1025 5 HET EDO A1026 4 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FCA ALPHA-D-FUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM SO4 SULFATE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN FCA ALPHA-D-FUCOSE; 6-DEOXY-ALPHA-D-GALACTOPYRANOSE; D- HETSYN 2 FCA FUCOSE; FUCOSE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NAG 10(C8 H15 N O6) FORMUL 2 FCA 2(C6 H12 O5) FORMUL 5 BMA C6 H12 O6 FORMUL 8 GLC 2(C6 H12 O6) FORMUL 9 BGC 2(C6 H12 O6) FORMUL 12 EDO 3(C2 H6 O2) FORMUL 14 PGE C6 H14 O4 FORMUL 15 PEG 2(C4 H10 O3) FORMUL 16 SO4 3(O4 S 2-) FORMUL 21 HOH *792(H2 O) HELIX 1 AA1 PRO A 79 ASP A 83 5 5 HELIX 2 AA2 PRO A 85 ARG A 89 5 5 HELIX 3 AA3 THR A 99 ARG A 106 1 8 HELIX 4 AA4 THR A 235 ALA A 237 5 3 HELIX 5 AA5 GLU A 346 GLY A 359 1 14 HELIX 6 AA6 PRO A 365 GLY A 370 5 6 HELIX 7 AA7 SER A 380 ALA A 394 1 15 HELIX 8 AA8 ASP A 404 MET A 408 5 5 HELIX 9 AA9 ASP A 423 GLY A 434 1 12 HELIX 10 AB1 TYR A 455 GLY A 465 1 11 HELIX 11 AB2 ASN A 492 VAL A 510 1 19 HELIX 12 AB3 THR A 567 HIS A 572 1 6 HELIX 13 AB4 LEU A 574 GLY A 592 1 19 HELIX 14 AB5 GLY A 605 TYR A 609 5 5 HELIX 15 AB6 SER A 620 LEU A 637 1 18 HELIX 16 AB7 SER A 654 ALA A 666 1 13 HELIX 17 AB8 GLU A 683 PHE A 687 5 5 HELIX 18 AB9 SER A 688 GLY A 720 1 33 HELIX 19 AC1 PRO A 726 PHE A 731 1 6 HELIX 20 AC2 ASP A 734 TRP A 738 5 5 HELIX 21 AC3 GLN A 776 VAL A 778 5 3 HELIX 22 AC4 THR A 832 ARG A 837 1 6 HELIX 23 AC5 GLU A 866 GLY A 871 1 6 SHEET 1 AA1 2 CYS A 109 TYR A 110 0 SHEET 2 AA1 2 CYS A 127 PHE A 128 -1 O PHE A 128 N CYS A 109 SHEET 1 AA2 8 LYS A 137 SER A 143 0 SHEET 2 AA2 8 GLY A 147 THR A 153 -1 O THR A 151 N GLU A 139 SHEET 3 AA2 8 THR A 166 MET A 173 -1 O LEU A 167 N LEU A 152 SHEET 4 AA2 8 ARG A 178 LYS A 184 -1 O HIS A 180 N MET A 172 SHEET 5 AA2 8 LEU A 337 PHE A 342 -1 O VAL A 339 N PHE A 181 SHEET 6 AA2 8 ALA A 307 LEU A 312 -1 N GLY A 309 O PHE A 342 SHEET 7 AA2 8 PHE A 297 LEU A 301 -1 N ALA A 300 O HIS A 308 SHEET 8 AA2 8 ILE A 257 GLY A 259 -1 N THR A 258 O LEU A 299 SHEET 1 AA3 3 TYR A 209 SER A 214 0 SHEET 2 AA3 3 GLY A 219 ARG A 224 -1 O ILE A 221 N GLU A 212 SHEET 3 AA3 3 VAL A 230 ASN A 233 -1 O LEU A 231 N VAL A 222 SHEET 1 AA4 5 PHE A 240 ALA A 242 0 SHEET 2 AA4 5 PHE A 245 SER A 251 -1 O PHE A 245 N ALA A 242 SHEET 3 AA4 5 ALA A 327 SER A 332 -1 O TRP A 330 N LEU A 248 SHEET 4 AA4 5 MET A 318 GLN A 323 -1 N ASP A 319 O ARG A 331 SHEET 5 AA4 5 THR A 274 LEU A 278 -1 N LEU A 278 O MET A 318 SHEET 1 AA5 8 VAL A 642 GLY A 643 0 SHEET 2 AA5 8 GLY A 611 TRP A 613 1 N HIS A 612 O GLY A 643 SHEET 3 AA5 8 VAL A 597 SER A 599 1 N VAL A 597 O GLY A 611 SHEET 4 AA5 8 MET A 515 ILE A 517 1 N ILE A 517 O ILE A 598 SHEET 5 AA5 8 ARG A 437 VAL A 442 1 N VAL A 442 O TRP A 516 SHEET 6 AA5 8 VAL A 400 ASN A 403 1 N GLN A 401 O ARG A 437 SHEET 7 AA5 8 HIS A 372 LEU A 373 1 N LEU A 373 O TRP A 402 SHEET 8 AA5 8 ARG A 672 ASN A 673 1 O ASN A 673 N HIS A 372 SHEET 1 AA6 3 ILE A 446 SER A 447 0 SHEET 2 AA6 3 GLY A 483 ALA A 486 -1 O ALA A 486 N ILE A 446 SHEET 3 AA6 3 ILE A 477 VAL A 480 -1 N GLY A 478 O THR A 485 SHEET 1 AA7 6 ALA A 724 ARG A 725 0 SHEET 2 AA7 6 LEU A 744 TRP A 746 -1 O LEU A 745 N ARG A 725 SHEET 3 AA7 6 LEU A 750 THR A 753 -1 O ILE A 752 N LEU A 744 SHEET 4 AA7 6 ASN A 815 ARG A 819 -1 O HIS A 817 N LEU A 751 SHEET 5 AA7 6 GLY A 770 ASP A 774 -1 N TYR A 773 O LEU A 818 SHEET 6 AA7 6 ALA A 797 SER A 800 -1 O ILE A 798 N TRP A 772 SHEET 1 AA8 2 GLU A 762 PHE A 767 0 SHEET 2 AA8 2 GLN A 803 PRO A 808 -1 O LEU A 807 N VAL A 763 SHEET 1 AA911 VAL A 921 PRO A 922 0 SHEET 2 AA911 VAL A 916 SER A 918 -1 N SER A 918 O VAL A 921 SHEET 3 AA911 LEU A 948 TRP A 951 -1 O SER A 950 N LEU A 917 SHEET 4 AA911 THR A 884 ARG A 891 -1 N ILE A 885 O VAL A 949 SHEET 5 AA911 THR A 874 ARG A 881 -1 N ILE A 877 O GLU A 888 SHEET 6 AA911 ALA A 853 TRP A 859 -1 N TRP A 859 O THR A 874 SHEET 7 AA911 TYR A 822 GLN A 827 1 N ILE A 823 O ARG A 854 SHEET 8 AA911 MET A 841 ALA A 846 -1 O ALA A 842 N LEU A 826 SHEET 9 AA911 GLN A 900 LEU A 907 1 O GLN A 900 N MET A 841 SHEET 10 AA911 VAL A 934 LEU A 942 -1 O LEU A 935 N VAL A 906 SHEET 11 AA911 ASN A 925 SER A 929 -1 N THR A 927 O ASP A 936 SSBOND 1 CYS A 82 CYS A 109 1555 1555 2.08 SSBOND 2 CYS A 92 CYS A 108 1555 1555 1.99 SSBOND 3 CYS A 103 CYS A 127 1555 1555 2.12 SSBOND 4 CYS A 533 CYS A 558 1555 1555 2.12 SSBOND 5 CYS A 647 CYS A 658 1555 1555 2.03 LINK ND2 ASN A 140 C1 NAG B 1 1555 1555 1.45 LINK ND2 ASN A 233 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 390 C1 NAG D 1 1555 1555 1.43 LINK ND2 ASN A 470 C1 NAG E 1 1555 1555 1.44 LINK ND2 ASN A 652 C1 NAG F 1 1555 1555 1.46 LINK ND2 ASN A 882 C1 NAG A1013 1555 1555 1.45 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK O6 NAG B 1 C1 FCA B 3 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.43 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.44 LINK O6 NAG F 1 C1 FCA F 2 1555 1555 1.45 CISPEP 1 GLU A 216 PRO A 217 0 -1.11 CISPEP 2 ALA A 261 GLU A 262 0 2.67 CISPEP 3 SER A 325 PRO A 326 0 1.91 CISPEP 4 GLY A 344 PRO A 345 0 6.47 CISPEP 5 GLU A 521 PRO A 522 0 -0.81 CRYST1 97.110 102.590 128.550 90.00 90.00 90.00 P 21 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 0.010298 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009748 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007779 0.00000