PDB Short entry for 7D9C HEADER HYDROLASE 13-OCT-20 7D9C TITLE ALPHA-GLUCOSIDASE FROM WEISSELLA CIBARIA BBK-1 BOUND WITH MALTOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-GLYCOSIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.20; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: WEISSELLA CONFUSA; SOURCE 3 ORGANISM_TAXID: 1583; SOURCE 4 GENE: C6P08_07940; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS GLYCOSIDE HYDROLASE, MALTOOLIGOSACCHARIDES, CARBOHYDRATE METABOLISM, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.KRUSONG,K.WANGPAIBOON,S.KIM,T.MORI,T.HAKOSHIMA REVDAT 3 29-NOV-23 7D9C 1 REMARK REVDAT 2 18-AUG-21 7D9C 1 JRNL REVDAT 1 11-AUG-21 7D9C 0 JRNL AUTH K.WANGPAIBOON,P.LAOHAWUTTICHAI,S.Y.KIM,T.MORI,S.NAKAPONG, JRNL AUTH 2 R.PICHYANGKURA,P.PONGSAWASDI,T.HAKOSHIMA,K.KRUSONG JRNL TITL A GH13 ALPHA-GLUCOSIDASE FROM WEISSELLA CIBARIA UNCOMMONLY JRNL TITL 2 ACTS ON SHORT-CHAIN MALTOOLIGOSACCHARIDES. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 77 1064 2021 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 34342279 JRNL DOI 10.1107/S205979832100677X REMARK 2 REMARK 2 RESOLUTION. 1.36 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17_3644 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.76 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 152843 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.140 REMARK 3 FREE R VALUE : 0.153 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 7635 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 26.7600 - 4.2300 0.99 5174 271 0.1616 0.1635 REMARK 3 2 4.2300 - 3.3600 1.00 4997 266 0.1341 0.1520 REMARK 3 3 3.3600 - 2.9300 1.00 4939 266 0.1625 0.1732 REMARK 3 4 2.9300 - 2.6700 1.00 4896 257 0.1664 0.1752 REMARK 3 5 2.6700 - 2.4700 1.00 4890 259 0.1537 0.1536 REMARK 3 6 2.4700 - 2.3300 1.00 4881 264 0.1394 0.1582 REMARK 3 7 2.3300 - 2.2100 1.00 4849 253 0.1316 0.1557 REMARK 3 8 2.2100 - 2.1200 1.00 4863 250 0.1276 0.1262 REMARK 3 9 2.1200 - 2.0300 1.00 4852 253 0.1209 0.1316 REMARK 3 10 2.0300 - 1.9600 1.00 4839 252 0.1207 0.1426 REMARK 3 11 1.9600 - 1.9000 1.00 4826 257 0.1164 0.1325 REMARK 3 12 1.9000 - 1.8500 1.00 4806 267 0.1119 0.1287 REMARK 3 13 1.8500 - 1.8000 1.00 4857 234 0.1150 0.1314 REMARK 3 14 1.8000 - 1.7600 1.00 4815 256 0.1129 0.1338 REMARK 3 15 1.7600 - 1.7200 1.00 4806 268 0.1152 0.1324 REMARK 3 16 1.7200 - 1.6800 1.00 4827 240 0.1112 0.1340 REMARK 3 17 1.6800 - 1.6500 1.00 4820 252 0.1145 0.1310 REMARK 3 18 1.6500 - 1.6100 1.00 4791 247 0.1126 0.1345 REMARK 3 19 1.6100 - 1.5900 1.00 4782 255 0.1135 0.1376 REMARK 3 20 1.5900 - 1.5600 1.00 4800 263 0.1210 0.1438 REMARK 3 21 1.5600 - 1.5300 1.00 4809 269 0.1229 0.1485 REMARK 3 22 1.5300 - 1.5100 1.00 4803 231 0.1273 0.1501 REMARK 3 23 1.5100 - 1.4900 1.00 4789 256 0.1286 0.1583 REMARK 3 24 1.4900 - 1.4700 1.00 4797 251 0.1334 0.1624 REMARK 3 25 1.4700 - 1.4500 1.00 4769 252 0.1402 0.1576 REMARK 3 26 1.4500 - 1.4300 1.00 4792 255 0.1548 0.1716 REMARK 3 27 1.4300 - 1.4100 1.00 4799 239 0.1625 0.2003 REMARK 3 28 1.4100 - 1.3900 1.00 4803 254 0.1801 0.2030 REMARK 3 29 1.3900 - 1.3800 1.00 4758 251 0.1901 0.1981 REMARK 3 30 1.3800 - 1.3600 1.00 4779 247 0.2074 0.2166 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.111 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 12.148 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.46 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.016 5218 REMARK 3 ANGLE : 1.430 7148 REMARK 3 CHIRALITY : 0.111 770 REMARK 3 PLANARITY : 0.010 926 REMARK 3 DIHEDRAL : 10.685 709 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7D9C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-OCT-20. REMARK 100 THE DEPOSITION ID IS D_1300018988. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 152899 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.360 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 48.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.41 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL 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: 7D9B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, DIOXANE, MES, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+3/4 REMARK 290 8555 -Y,-X,-Z+1/4 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 53.08150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 26.54075 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 79.62225 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 53.08150 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 79.62225 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 26.54075 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -160.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 -26.54075 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 A 607 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1144 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1246 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1305 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 21 CD OE1 OE2 REMARK 470 GLU A 55 CG CD OE1 OE2 REMARK 470 MET A 96 CE REMARK 470 MET A 125 CE REMARK 470 GLU A 138 CD OE1 OE2 REMARK 470 LYS A 232 CE NZ REMARK 470 SER A 521 OG REMARK 470 ASP A 523 CG OD1 OD2 REMARK 470 GLN A 543 CG CD OE1 NE2 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 OE1 GLU A 271 O HOH A 701 1.47 REMARK 500 OE2 GLU A 271 O HOH A 702 1.63 REMARK 500 OE1 GLN A 374 O1 BGC A 611 2.13 REMARK 500 OE1 GLN A 402 NZ LYS A 416 2.19 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 TYR A 203 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 MET A 392 CG - SD - CE ANGL. DEV. = -13.8 DEGREES REMARK 500 MET A 506 CG - SD - CE ANGL. DEV. = -11.2 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 ALA A 16 99.75 -162.14 REMARK 500 ASP A 217 70.68 -103.08 REMARK 500 GLU A 271 -134.80 59.60 REMARK 500 ASP A 300 25.92 -140.55 REMARK 500 ASP A 307 -126.39 48.48 REMARK 500 GLU A 387 -97.00 -132.53 REMARK 500 ASN A 393 52.44 -94.49 REMARK 500 ASN A 393 52.44 -94.32 REMARK 500 GLU A 406 -151.38 -122.15 REMARK 500 SER A 438 -169.78 -165.14 REMARK 500 VAL A 516 -61.95 -120.42 REMARK 500 ASP A 541 -158.12 -109.56 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 ARG A 124 MET A 125 149.64 REMARK 500 ARG A 124 MET A 125 149.95 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 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 155 OD1 REMARK 620 2 ASP A 157 O 76.7 REMARK 620 3 ASN A 160 OD1 145.6 70.7 REMARK 620 4 ASP A 161 OD1 88.1 85.4 99.6 REMARK 620 5 GLY A 181 O 73.1 149.8 139.0 92.8 REMARK 620 6 ASP A 183 OD2 80.7 86.4 86.7 167.4 89.6 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE NUTRIENT REMARK 630 MOLECULE NAME: ALPHA-D-GLUCOPYRANOSE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 GLC A 610 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: OLIGOSACCHARIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7D9B RELATED DB: PDB REMARK 900 7D9B IS AN APO-ENZYME REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THE GENEBANK ACCESSION NUMBER IS MG_256496 FOR REMARK 999 THE PROTEIN. DBREF 7D9C A 1 589 PDB 7D9C 7D9C 1 589 SEQRES 1 A 589 MET GLY ASN LEU ALA GLY ILE MET HIS ARG PRO ASP SER SEQRES 2 A 589 GLU MET ALA TYR VAL VAL ASN GLU GLN THR VAL ASN ILE SEQRES 3 A 589 ARG LEU ARG THR ALA LYS ASP ASP ILE VAL SER VAL GLU SEQRES 4 A 589 LEU LEU ALA GLY ASP PRO TYR SER LEU ARG SER LEU PRO SEQRES 5 A 589 THR ASP GLU LYS PHE TYR GLN VAL PRO LYS GLN MET THR SEQRES 6 A 589 LYS ILE MET SER ASP GLY ILE SER ASP PHE TRP GLN VAL SEQRES 7 A 589 THR VAL THR GLU PRO LYS ARG ARG LEU ALA TYR ALA PHE SEQRES 8 A 589 LEU VAL THR ASP MET LEU GLY ILE GLN LYS ILE TYR SER SEQRES 9 A 589 ASP LYS GLY PHE PHE LYS VAL ALA ASP ALA ASP LEU MET SEQRES 10 A 589 ASP MET ASN PHE TYR PHE ARG MET PRO PHE PHE GLN THR SEQRES 11 A 589 ILE ASP GLN TYR ASN ALA PRO GLU TRP VAL THR ASP THR SEQRES 12 A 589 VAL TRP TYR GLN ILE PHE PRO GLU ARG PHE ALA ASN GLY SEQRES 13 A 589 ASP VAL SER ASN ASP PRO VAL GLY THR LYS PRO TRP ASP SEQRES 14 A 589 SER THR ASP HIS PRO GLY ARG GLU ASP PHE TYR GLY GLY SEQRES 15 A 589 ASP LEU GLN GLY ILE LEU ASP HIS LEU ASP HIS LEU GLN SEQRES 16 A 589 GLU LEU GLY ILE SER GLY ILE TYR LEU ASN PRO ILE PHE SEQRES 17 A 589 GLN ALA PRO SER ASN HIS LYS TYR ASP THR GLN ASP TYR SEQRES 18 A 589 MET THR VAL ASP PRO HIS PHE GLY ASP ALA LYS LEU PHE SEQRES 19 A 589 LYS GLN LEU VAL GLN ALA ALA HIS GLU ARG GLY ILE ARG SEQRES 20 A 589 VAL MET LEU ASP ALA VAL PHE ASN HIS ILE GLY ASP LYS SEQRES 21 A 589 SER VAL GLN TRP GLN ASP VAL LEU LYS ASN GLU GLN ALA SEQRES 22 A 589 SER PRO TYR ALA ASP TRP PHE HIS ILE HIS GLN PHE PRO SEQRES 23 A 589 ALA THR TYR THR PRO THR ASP ASN PHE GLU PHE ALA ALA SEQRES 24 A 589 ASP ALA THR TYR ASP THR PHE ASP TYR THR PRO HIS MET SEQRES 25 A 589 PRO LYS LEU ASN THR SER ASN PRO GLU VAL VAL ASP TYR SEQRES 26 A 589 LEU LEU ASN ILE ALA THR TYR TRP VAL LYS GLU PHE ASP SEQRES 27 A 589 ILE ASP ALA TRP ARG LEU ASP VAL ALA ASN GLU ILE ASP SEQRES 28 A 589 HIS HIS PHE TRP ARG LYS PHE HIS ASP ALA MET MET ALA SEQRES 29 A 589 LEU LYS PRO ASP PHE TYR ILE LEU GLY GLN ILE TRP HIS SEQRES 30 A 589 THR SER GLN SER TRP LEU VAL GLY ASP GLU PHE THR ALA SEQRES 31 A 589 VAL MET ASN TYR SER TYR THR GLY ALA ILE LEU GLN TYR SEQRES 32 A 589 PHE LEU GLU ASN GLU SER ALA ASP ALA LEU VAL GLN LYS SEQRES 33 A 589 MET SER HIS GLN LEU MET LEU TYR ARG ASP ALA THR ASN SEQRES 34 A 589 ARG MET MET PHE ASN THR VAL ASP SER HIS ASP THR PRO SEQRES 35 A 589 ARG LEU MET THR LEU ALA HIS GLU ASP LYS GLN LEU ALA SEQRES 36 A 589 LYS SER ILE LEU THR PHE THR PHE MET GLN PRO GLY VAL SEQRES 37 A 589 PRO SER ILE TYR TYR GLY THR GLU TYR GLY MET THR GLY SEQRES 38 A 589 GLU ASN ASP PRO ASP ASP ARG LYS PRO MET VAL TRP GLN SEQRES 39 A 589 PRO GLU LEU GLN ASP HIS ASP LEU TYR ASP PHE MET GLN SEQRES 40 A 589 LYS LEU VAL GLN VAL ARG ARG GLN VAL ILE ALA LYS LEU SEQRES 41 A 589 SER ASP ASP LYS ILE ILE PHE ASP VAL ILE GLY GLU ARG SEQRES 42 A 589 GLN ILE ARG LEU THR ARG GLU ASP ASN GLN THR ARG ILE SEQRES 43 A 589 VAL GLY VAL PHE ASN ASN GLY THR THR ASP LEU THR VAL SEQRES 44 A 589 ALA GLN PRO THR SER ILE LEU LEU LYS THR ASN GLN SER SEQRES 45 A 589 GLU THR GLN LEU ALA PRO ASN ASP PHE MET ILE TRP THR SEQRES 46 A 589 GLU PRO VAL ARG HET GLC B 1 12 HET GLC B 2 11 HET CA A 601 1 HET SO4 A 602 5 HET SO4 A 603 5 HET SO4 A 604 5 HET SO4 A 605 5 HET SO4 A 606 5 HET SO4 A 607 5 HET MES A 608 12 HET MES A 609 12 HET GLC A 610 11 HET BGC A 611 12 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM SO4 SULFATE ION HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM BGC BETA-D-GLUCOPYRANOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 2 GLC 3(C6 H12 O6) FORMUL 3 CA CA 2+ FORMUL 4 SO4 6(O4 S 2-) FORMUL 10 MES 2(C6 H13 N O4 S) FORMUL 13 BGC C6 H12 O6 FORMUL 14 HOH *614(H2 O) HELIX 1 AA1 ASN A 3 ILE A 7 5 5 HELIX 2 AA2 TYR A 46 LEU A 51 1 6 HELIX 3 AA3 LYS A 56 VAL A 60 5 5 HELIX 4 AA4 LYS A 110 ALA A 114 5 5 HELIX 5 AA5 ASP A 118 TYR A 122 5 5 HELIX 6 AA6 GLN A 129 GLN A 133 5 5 HELIX 7 AA7 PRO A 137 ASP A 142 1 6 HELIX 8 AA8 PHE A 149 PHE A 153 5 5 HELIX 9 AA9 ASP A 157 ASP A 161 5 5 HELIX 10 AB1 ASP A 183 HIS A 190 1 8 HELIX 11 AB2 HIS A 190 GLY A 198 1 9 HELIX 12 AB3 ASP A 230 ARG A 244 1 15 HELIX 13 AB4 SER A 261 GLU A 271 1 11 HELIX 14 AB5 GLN A 272 SER A 274 5 3 HELIX 15 AB6 TYR A 276 PHE A 280 5 5 HELIX 16 AB7 ASN A 319 ASP A 338 1 20 HELIX 17 AB8 VAL A 346 ILE A 350 5 5 HELIX 18 AB9 ASP A 351 LYS A 366 1 16 HELIX 19 AC1 SER A 379 LEU A 383 5 5 HELIX 20 AC2 ASN A 393 GLU A 406 1 14 HELIX 21 AC3 SER A 409 LEU A 423 1 15 HELIX 22 AC4 ARG A 425 MET A 432 1 8 HELIX 23 AC5 ARG A 443 ALA A 448 1 6 HELIX 24 AC6 ASP A 451 MET A 464 1 14 HELIX 25 AC7 GLY A 474 GLY A 478 5 5 HELIX 26 AC8 GLN A 494 GLN A 498 5 5 HELIX 27 AC9 ASP A 499 VAL A 516 1 18 HELIX 28 AD1 ILE A 517 LEU A 520 5 4 SHEET 1 AA1 4 ALA A 16 ASN A 20 0 SHEET 2 AA1 4 THR A 23 ALA A 31 -1 O THR A 23 N VAL A 19 SHEET 3 AA1 4 SER A 73 THR A 81 -1 O VAL A 78 N ILE A 26 SHEET 4 AA1 4 THR A 65 SER A 69 -1 N MET A 68 O PHE A 75 SHEET 1 AA2 5 LYS A 62 GLN A 63 0 SHEET 2 AA2 5 ILE A 35 GLY A 43 -1 N LEU A 40 O LYS A 62 SHEET 3 AA2 5 LEU A 87 ASP A 95 -1 O LEU A 92 N GLU A 39 SHEET 4 AA2 5 GLN A 100 SER A 104 -1 O TYR A 103 N PHE A 91 SHEET 5 AA2 5 GLY A 107 PHE A 109 -1 O PHE A 109 N ILE A 102 SHEET 1 AA3 4 LYS A 62 GLN A 63 0 SHEET 2 AA3 4 ILE A 35 GLY A 43 -1 N LEU A 40 O LYS A 62 SHEET 3 AA3 4 LEU A 87 ASP A 95 -1 O LEU A 92 N GLU A 39 SHEET 4 AA3 4 PHE A 123 MET A 125 -1 O MET A 125 N LEU A 87 SHEET 1 AA4 8 ALA A 390 VAL A 391 0 SHEET 2 AA4 8 TYR A 370 GLY A 373 1 N GLY A 373 O ALA A 390 SHEET 3 AA4 8 ALA A 341 LEU A 344 1 N LEU A 344 O LEU A 372 SHEET 4 AA4 8 ARG A 247 ALA A 252 1 N ALA A 252 O ARG A 343 SHEET 5 AA4 8 GLY A 201 LEU A 204 1 N ILE A 202 O ARG A 247 SHEET 6 AA4 8 TRP A 145 ILE A 148 1 N ILE A 148 O TYR A 203 SHEET 7 AA4 8 VAL A 468 TYR A 472 1 O PRO A 469 N TRP A 145 SHEET 8 AA4 8 PHE A 433 ASN A 434 1 N ASN A 434 O VAL A 468 SHEET 1 AA5 2 PHE A 208 GLN A 209 0 SHEET 2 AA5 2 ASP A 220 VAL A 224 -1 O THR A 223 N GLN A 209 SHEET 1 AA6 5 LYS A 524 GLY A 531 0 SHEET 2 AA6 5 GLN A 534 GLU A 540 -1 O ARG A 536 N ASP A 528 SHEET 3 AA6 5 THR A 544 ASN A 551 -1 O GLY A 548 N LEU A 537 SHEET 4 AA6 5 PHE A 581 PRO A 587 -1 O TRP A 584 N VAL A 547 SHEET 5 AA6 5 SER A 564 LYS A 568 -1 N LEU A 567 O ILE A 583 SHEET 1 AA7 2 LEU A 557 THR A 558 0 SHEET 2 AA7 2 GLN A 575 LEU A 576 -1 O LEU A 576 N LEU A 557 LINK C1 BGLC A 610 O4 BBGC A 611 1555 1555 1.41 LINK O4 AGLC B 1 C1 AGLC B 2 1555 1555 1.39 LINK OD1 ASN A 155 CA CA A 601 1555 1555 2.39 LINK O ASP A 157 CA CA A 601 1555 1555 2.38 LINK OD1 ASN A 160 CA CA A 601 1555 1555 2.33 LINK OD1 ASP A 161 CA CA A 601 1555 1555 2.26 LINK O GLY A 181 CA CA A 601 1555 1555 2.39 LINK OD2 ASP A 183 CA CA A 601 1555 1555 2.30 CISPEP 1 PHE A 285 PRO A 286 0 -6.40 CISPEP 2 ASP A 484 PRO A 485 0 12.44 CRYST1 115.636 115.636 106.163 90.00 90.00 90.00 P 41 2 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 0.008648 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008648 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009419 0.00000