10 20 30 40 50 60 70 80 3DHP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 18-JUN-08 3DHP
TITLE PROBING THE ROLE OF AROMATIC RESIDUES AT THE SECONDARY TITLE 2 SACCHARIDE BINDING SITES OF HUMAN SALIVARY ALPHA-AMYLASE TITLE 3 IN SUBSTRATE HYDROLYSIS AND BACTERIAL BINDING
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-AMYLASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-ALPHA-D-GLUCAN GLUCANOHYDROLASE 1, SALIVARY COMPND 5 ALPHA-AMYLASE; COMPND 6 EC: 3.2.1.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PVL1392
KEYWDS AMYLASE ACARBOSE AROMATIC RESIDUES MUTAGENESIS, CALCIUM, KEYWDS 2 CARBOHYDRATE METABOLISM, CHLORIDE, GLYCOPROTEIN, KEYWDS 3 GLYCOSIDASE, HYDROLASE, METAL-BINDING, PYRROLIDONE KEYWDS 4 CARBOXYLIC ACID, SECRETED
EXPDTA X-RAY DIFFRACTION
AUTHOR C.RAGUNATH,S.G.A MANUEL,H.M.SAIT,C.KASINATHAN
REVDAT 2 24-FEB-09 3DHP 1 VERSN REVDAT 1 01-JUL-08 3DHP 0
JRNL AUTH C.RAGUNATH,S.G.A MANUEL,H.M.SAIT,C.KASINATHAN, JRNL AUTH 2 N.RAMASUBBU JRNL TITL PROBING THE ROLE OF AROMATIC RESIDUES JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0077 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 83812 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4199 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5883 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE SET COUNT : 278 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3932 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 444 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.067 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.120 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4097 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5575 ; 1.329 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 513 ; 5.865 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 207 ;35.666 ;23.913 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 631 ;11.705 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;18.036 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 581 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3226 ; 0.008 ; 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): 2479 ; 0.782 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3991 ; 1.410 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1618 ; 2.163 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1575 ; 3.239 ; 4.500 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 : BABINET MODEL WITH 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 REMARK 3 RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY
REMARK 4 REMARK 4 3DHP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUN-08. REMARK 100 THE RCSB ID CODE IS RCSB048050.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9777 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84017 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : 0.10200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.36800 REMARK 200 R SYM FOR SHELL (I) : 0.36800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: N/A REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1SMD REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, PH 9.0, HANGING DROP, REMARK 280 TEMPERATURE 298K
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 26.36800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.04750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.86100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.04750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.36800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.86100 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 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 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 O5 GLC A 503 O4 HMC A 504 1.98 REMARK 500 O HOH A 746 O HOH A 758 2.13 REMARK 500 O HOH A 762 O HOH A 928 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 CYS A 70 CA - CB - SG ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 252 NE - CZ - NH2 ANGL. DEV. = -3.2 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 TYR A 31 -52.49 -142.70 REMARK 500 PRO A 54 -177.89 -69.65 REMARK 500 MET A 102 -153.70 -102.10 REMARK 500 ASP A 317 64.10 -113.06 REMARK 500 THR A 376 2.14 83.53 REMARK 500 SER A 414 -108.95 -136.30 REMARK 500 ASP A 433 32.71 -91.47 REMARK 500 ASN A 459 58.02 25.72 REMARK 500 PRO A 486 47.63 -86.64 REMARK 500 REMARK 500 REMARK: NULL
REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 497 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 100 OD1 REMARK 620 2 ARG A 158 O 157.4 REMARK 620 3 ASP A 167 OD1 80.2 113.6 REMARK 620 4 ASP A 167 OD2 124.9 75.9 50.3 REMARK 620 5 HIS A 201 O 75.9 82.6 141.1 158.3 REMARK 620 6 HOH A 536 O 70.7 128.2 78.0 76.1 120.8 REMARK 620 7 HOH A 562 O 109.0 74.5 135.6 94.9 81.8 65.7 REMARK 620 8 HOH A 529 O 96.1 73.6 70.2 89.1 82.1 147.3 145.8 REMARK 620 N 1 2 3 4 5 6 7
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLC A 503 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLC A 506 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AGL A 505 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 497 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 498 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HMC A 504
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1SMD RELATED DB: PDB REMARK 900 NATIVE ENZYME REMARK 900 RELATED ID: 1MFV RELATED DB: PDB REMARK 900 RECOMBINANT ENZYME ACARBOSE COMPLEX
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUE AT POSITION 16 IS A AROMATIC MUTATION OF GLN.
DBREF 3DHP A 1 496 UNP P04745 AMY1_HUMAN 16 511
SEQADV 3DHP PCA A 1 UNP P04745 GLN 16 SEE REMARK 999 SEQADV 3DHP ALA A 134 UNP P04745 TRP 149 ENGINEERED SEQADV 3DHP ALA A 203 UNP P04745 TRP 218 ENGINEERED SEQADV 3DHP ALA A 276 UNP P04745 TYR 291 ENGINEERED SEQADV 3DHP ALA A 284 UNP P04745 TRP 299 ENGINEERED SEQADV 3DHP ALA A 316 UNP P04745 TRP 331 ENGINEERED SEQADV 3DHP ALA A 388 UNP P04745 TRP 403 ENGINEERED
SEQRES 1 A 496 PCA TYR SER SER ASN THR GLN GLN GLY ARG THR SER ILE SEQRES 2 A 496 VAL HIS LEU PHE GLU TRP ARG TRP VAL ASP ILE ALA LEU SEQRES 3 A 496 GLU CYS GLU ARG TYR LEU ALA PRO LYS GLY PHE GLY GLY SEQRES 4 A 496 VAL GLN VAL SER PRO PRO ASN GLU ASN VAL ALA ILE HIS SEQRES 5 A 496 ASN PRO PHE ARG PRO TRP TRP GLU ARG TYR GLN PRO VAL SEQRES 6 A 496 SER TYR LYS LEU CYS THR ARG SER GLY ASN GLU ASP GLU SEQRES 7 A 496 PHE ARG ASN MET VAL THR ARG CYS ASN ASN VAL GLY VAL SEQRES 8 A 496 ARG ILE TYR VAL ASP ALA VAL ILE ASN HIS MET CYS GLY SEQRES 9 A 496 ASN ALA VAL SER ALA GLY THR SER SER THR CYS GLY SER SEQRES 10 A 496 TYR PHE ASN PRO GLY SER ARG ASP PHE PRO ALA VAL PRO SEQRES 11 A 496 TYR SER GLY ALA ASP PHE ASN ASP GLY LYS CYS LYS THR SEQRES 12 A 496 GLY SER GLY ASP ILE GLU ASN TYR ASN ASP ALA THR GLN SEQRES 13 A 496 VAL ARG ASP CYS ARG LEU SER GLY LEU LEU ASP LEU ALA SEQRES 14 A 496 LEU GLY LYS ASP TYR VAL ARG SER LYS ILE ALA GLU TYR SEQRES 15 A 496 MET ASN HIS LEU ILE ASP ILE GLY VAL ALA GLY PHE ARG SEQRES 16 A 496 ILE ASP ALA SER LYS HIS MET ALA PRO GLY ASP ILE LYS SEQRES 17 A 496 ALA ILE LEU ASP LYS LEU HIS ASN LEU ASN SER ASN TRP SEQRES 18 A 496 PHE PRO GLU GLY SER LYS PRO PHE ILE TYR GLN GLU VAL SEQRES 19 A 496 ILE ASP LEU GLY GLY GLU PRO ILE LYS SER SER ASP TYR SEQRES 20 A 496 PHE GLY ASN GLY ARG VAL THR GLU PHE LYS TYR GLY ALA SEQRES 21 A 496 LYS LEU GLY THR VAL ILE ARG LYS TRP ASN GLY GLU LYS SEQRES 22 A 496 MET SER ALA LEU LYS ASN TRP GLY GLU GLY ALA GLY PHE SEQRES 23 A 496 MET PRO SER ASP ARG ALA LEU VAL PHE VAL ASP ASN HIS SEQRES 24 A 496 ASP ASN GLN ARG GLY HIS GLY ALA GLY GLY ALA SER ILE SEQRES 25 A 496 LEU THR PHE ALA ASP ALA ARG LEU TYR LYS MET ALA VAL SEQRES 26 A 496 GLY PHE MET LEU ALA HIS PRO TYR GLY PHE THR ARG VAL SEQRES 27 A 496 MET SER SER TYR ARG TRP PRO ARG TYR PHE GLU ASN GLY SEQRES 28 A 496 LYS ASP VAL ASN ASP TRP VAL GLY PRO PRO ASN ASP ASN SEQRES 29 A 496 GLY VAL THR LYS GLU VAL THR ILE ASN PRO ASP THR THR SEQRES 30 A 496 CYS GLY ASN ASP TRP VAL CYS GLU HIS ARG ALA ARG GLN SEQRES 31 A 496 ILE ARG ASN MET VAL ASN PHE ARG ASN VAL VAL ASP GLY SEQRES 32 A 496 GLN PRO PHE THR ASN TRP TYR ASP ASN GLY SER ASN GLN SEQRES 33 A 496 VAL ALA PHE GLY ARG GLY ASN ARG GLY PHE ILE VAL PHE SEQRES 34 A 496 ASN ASN ASP ASP TRP THR PHE SER LEU THR LEU GLN THR SEQRES 35 A 496 GLY LEU PRO ALA GLY THR TYR CYS ASP VAL ILE SER GLY SEQRES 36 A 496 ASP LYS ILE ASN GLY ASN CYS THR GLY ILE LYS ILE TYR SEQRES 37 A 496 VAL SER ASP ASP GLY LYS ALA HIS PHE SER ILE SER ASN SEQRES 38 A 496 SER ALA GLU ASP PRO PHE ILE ALA ILE HIS ALA GLU SER SEQRES 39 A 496 LYS LEU
MODRES 3DHP PCA A 1 GLU PYROGLUTAMIC ACID
HET PCA A 1 8 HET GLC A 503 11 HET GLC A 506 12 HET AGL A 505 10 HET CA A 497 1 HET CL A 498 1 HET HMC A 504 11
HETNAM PCA PYROGLUTAMIC ACID HETNAM GLC ALPHA-D-GLUCOSE HETNAM AGL 4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOSE HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM HMC 5-HYDROXYMETHYL-CHONDURITOL
FORMUL 1 PCA C5 H7 N O3 FORMUL 2 GLC 2(C6 H12 O6) FORMUL 3 AGL C6 H13 N O4 FORMUL 4 CA CA 2+ FORMUL 5 CL CL 1- FORMUL 6 HMC C7 H12 O5 FORMUL 7 HOH *444(H2 O)
HELIX 1 1 ARG A 20 TYR A 31 1 12 HELIX 2 2 PRO A 57 GLN A 63 5 7 HELIX 3 3 ASN A 75 VAL A 89 1 15 HELIX 4 4 SER A 132 PHE A 136 5 5 HELIX 5 5 ASP A 153 CYS A 160 1 8 HELIX 6 6 ARG A 161 SER A 163 5 3 HELIX 7 7 LYS A 172 GLY A 190 1 19 HELIX 8 8 ALA A 198 MET A 202 5 5 HELIX 9 9 ALA A 203 ASP A 212 1 10 HELIX 10 10 LYS A 243 PHE A 248 5 6 HELIX 11 11 PHE A 256 LYS A 268 1 13 HELIX 12 12 LYS A 273 TRP A 280 5 8 HELIX 13 13 GLY A 281 GLY A 285 5 5 HELIX 14 14 ASP A 300 GLY A 304 5 5 HELIX 15 15 THR A 314 ALA A 316 5 3 HELIX 16 16 ASP A 317 HIS A 331 1 15 HELIX 17 17 CYS A 384 ARG A 387 5 4 HELIX 18 18 ALA A 388 VAL A 401 1 14 HELIX 19 19 GLU A 493 LYS A 495 5 3
SHEET 1 A 9 SER A 12 LEU A 16 0 SHEET 2 A 9 GLY A 39 VAL A 42 1 O GLN A 41 N VAL A 14 SHEET 3 A 9 ARG A 92 ALA A 97 1 O TYR A 94 N VAL A 40 SHEET 4 A 9 GLY A 193 ILE A 196 1 O ARG A 195 N ALA A 97 SHEET 5 A 9 PHE A 229 GLN A 232 1 O PHE A 229 N PHE A 194 SHEET 6 A 9 ARG A 252 THR A 254 1 O THR A 254 N GLN A 232 SHEET 7 A 9 ALA A 292 VAL A 294 1 O LEU A 293 N VAL A 253 SHEET 8 A 9 PHE A 335 SER A 340 1 O PHE A 335 N VAL A 294 SHEET 9 A 9 SER A 12 LEU A 16 1 N ILE A 13 O VAL A 338 SHEET 1 B 2 HIS A 101 GLY A 104 0 SHEET 2 B 2 LEU A 165 ASP A 167 -1 O LEU A 166 N CYS A 103 SHEET 1 C 2 PHE A 348 GLU A 349 0 SHEET 2 C 2 LYS A 352 ASP A 353 -1 O LYS A 352 N GLU A 349 SHEET 1 D 2 ASN A 362 ASP A 363 0 SHEET 2 D 2 VAL A 366 THR A 367 -1 O VAL A 366 N ASP A 363 SHEET 1 E 4 PHE A 406 ASP A 411 0 SHEET 2 E 4 GLN A 416 ARG A 421 -1 O GLY A 420 N THR A 407 SHEET 3 E 4 GLY A 425 ASN A 430 -1 O PHE A 429 N VAL A 417 SHEET 4 E 4 PHE A 487 HIS A 491 -1 O ILE A 490 N PHE A 426 SHEET 1 F 2 PHE A 436 GLN A 441 0 SHEET 2 F 2 LYS A 474 ILE A 479 -1 O ALA A 475 N LEU A 440 SHEET 1 G 2 GLY A 447 CYS A 450 0 SHEET 2 G 2 LYS A 466 VAL A 469 -1 O ILE A 467 N TYR A 449 SHEET 1 H 2 LYS A 457 ILE A 458 0 SHEET 2 H 2 ASN A 461 CYS A 462 -1 O ASN A 461 N ILE A 458
SSBOND 1 CYS A 28 CYS A 86 1555 1555 2.08 SSBOND 2 CYS A 70 CYS A 115 1555 1555 2.09 SSBOND 3 CYS A 141 CYS A 160 1555 1555 2.09 SSBOND 4 CYS A 378 CYS A 384 1555 1555 2.04 SSBOND 5 CYS A 450 CYS A 462 1555 1555 2.03
LINK C PCA A 1 N TYR A 2 1555 1555 1.33 LINK OD1 ASN A 100 CA CA A 497 1555 1555 2.47 LINK O ARG A 158 CA CA A 497 1555 1555 2.43 LINK OD1 ASP A 167 CA CA A 497 1555 1555 2.59 LINK OD2 ASP A 167 CA CA A 497 1555 1555 2.55 LINK O HIS A 201 CA CA A 497 1555 1555 2.42 LINK O4 GLC A 506 C1 AGL A 505 1555 1555 1.45 LINK CA CA A 497 O HOH A 536 1555 1555 2.42 LINK CA CA A 497 O HOH A 562 1555 1555 2.54 LINK CA CA A 497 O HOH A 529 1555 1555 2.50 LINK N4 AGL A 505 C1 HMC A 504 1555 1555 1.32 LINK C1 GLC A 503 O4 HMC A 504 1555 1555 1.33
CISPEP 1 ASN A 53 PRO A 54 0 -4.82 CISPEP 2 VAL A 129 PRO A 130 0 -3.45
SITE 1 AC1 5 TRP A 58 TRP A 59 TYR A 62 GLN A 63 SITE 2 AC1 5 HIS A 305 SITE 1 AC2 9 TYR A 151 LYS A 200 ILE A 235 GLU A 240 SITE 2 AC2 9 GLY A 306 ALA A 307 HOH A 659 HOH A 717 SITE 3 AC2 9 HOH A 887 SITE 1 AC3 7 ALA A 198 HIS A 201 GLU A 233 ASP A 300 SITE 2 AC3 7 GLY A 306 HOH A 554 HOH A 576 SITE 1 AC4 7 ASN A 100 ARG A 158 ASP A 167 HIS A 201 SITE 2 AC4 7 HOH A 529 HOH A 536 HOH A 562 SITE 1 AC5 3 ARG A 195 ASN A 298 ARG A 337 SITE 1 AC6 8 TRP A 58 TYR A 62 HIS A 101 ARG A 195 SITE 2 AC6 8 ASP A 197 GLU A 233 HIS A 299 ASP A 300
CRYST1 52.736 73.722 134.095 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 0.018962 0.000000 0.000000 0.00000
SCALE2 0.000000 0.013564 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007457 0.00000