HEADER LYASE 23-DEC-16 5UD4 TITLE CLASS II FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE H180Q VARIANT OF TITLE 2 HELICOBACTER PYLORI WITH TBP COMPND MOL_ID: 1; COMPND 2 MOLECULE: FRUCTOSE-BISPHOSPHATE ALDOLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: FBPA,FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE; COMPND 5 EC: 4.1.2.13; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI (STRAIN ATCC 700392 / SOURCE 3 26695); SOURCE 4 ORGANISM_TAXID: 85962; SOURCE 5 STRAIN: ATCC 700392 / 26695; SOURCE 6 GENE: FBA, HP_0176; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLYCOLYSIS, METALLOENZYME, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR B.JACQUES,J.SYGUSCH REVDAT 4 04-OCT-23 5UD4 1 LINK REVDAT 3 08-JAN-20 5UD4 1 REMARK REVDAT 2 30-MAY-18 5UD4 1 JRNL REVDAT 1 11-APR-18 5UD4 0 JRNL AUTH B.JACQUES,M.COINCON,J.SYGUSCH JRNL TITL ACTIVE SITE REMODELING DURING THE CATALYTIC CYCLE IN JRNL TITL 2 METAL-DEPENDENT FRUCTOSE-1,6-BISPHOSPHATE ALDOLASES. JRNL REF J. BIOL. CHEM. V. 293 7737 2018 JRNL REFN ESSN 1083-351X JRNL PMID 29593097 JRNL DOI 10.1074/JBC.RA117.001098 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.120 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.2 REMARK 3 NUMBER OF REFLECTIONS : 79526 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.820 REMARK 3 FREE R VALUE TEST SET COUNT : 3834 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 45.1555 - 4.4986 0.98 3171 174 0.1542 0.1801 REMARK 3 2 4.4986 - 3.5711 0.98 3177 154 0.1232 0.1612 REMARK 3 3 3.5711 - 3.1199 0.98 3185 160 0.1263 0.1591 REMARK 3 4 3.1199 - 2.8347 0.97 3134 156 0.1338 0.1531 REMARK 3 5 2.8347 - 2.6315 0.96 3135 159 0.1284 0.1706 REMARK 3 6 2.6315 - 2.4764 0.96 3110 148 0.1231 0.1615 REMARK 3 7 2.4764 - 2.3524 0.95 3133 158 0.1194 0.1680 REMARK 3 8 2.3524 - 2.2500 0.95 3077 157 0.1125 0.1473 REMARK 3 9 2.2500 - 2.1633 0.94 3012 165 0.1125 0.1702 REMARK 3 10 2.1633 - 2.0887 0.94 3062 151 0.1222 0.1420 REMARK 3 11 2.0887 - 2.0234 0.93 3052 142 0.1224 0.2064 REMARK 3 12 2.0234 - 1.9655 0.93 2955 164 0.1248 0.1555 REMARK 3 13 1.9655 - 1.9138 0.92 3029 143 0.1304 0.1796 REMARK 3 14 1.9138 - 1.8671 0.91 2965 144 0.1322 0.1847 REMARK 3 15 1.8671 - 1.8247 0.90 2974 137 0.1320 0.1861 REMARK 3 16 1.8247 - 1.7858 0.91 2883 161 0.1330 0.1896 REMARK 3 17 1.7858 - 1.7501 0.87 2883 126 0.1326 0.2029 REMARK 3 18 1.7501 - 1.7171 0.87 2827 153 0.1404 0.1916 REMARK 3 19 1.7171 - 1.6864 0.85 2785 125 0.1461 0.2080 REMARK 3 20 1.6864 - 1.6578 0.85 2754 126 0.1532 0.2103 REMARK 3 21 1.6578 - 1.6311 0.82 2633 164 0.1532 0.2246 REMARK 3 22 1.6311 - 1.6060 0.79 2570 131 0.1661 0.2368 REMARK 3 23 1.6060 - 1.5824 0.79 2527 134 0.1658 0.2338 REMARK 3 24 1.5824 - 1.5601 0.71 2306 106 0.1801 0.2623 REMARK 3 25 1.5601 - 1.5390 0.68 2267 111 0.1942 0.2338 REMARK 3 26 1.5390 - 1.5190 0.55 1733 101 0.2247 0.2716 REMARK 3 27 1.5190 - 1.5000 0.42 1353 84 0.2479 0.3064 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.008 4775 REMARK 3 ANGLE : 0.933 6443 REMARK 3 CHIRALITY : 0.075 712 REMARK 3 PLANARITY : 0.005 844 REMARK 3 DIHEDRAL : 14.222 2907 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 5UD4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1000225676. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83963 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 45.135 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.2 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : 0.07638 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 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: 3C4U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, PEG 1000, CALCIUM ACETATE, REMARK 280 TRIS-ACETIC ACID BUFFER, PH 8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -176.0 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 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 139 REMARK 465 GLY A 140 REMARK 465 ILE A 141 REMARK 465 GLU A 142 REMARK 465 ASP A 143 REMARK 465 ASN A 144 REMARK 465 ILE A 145 REMARK 465 SER A 146 REMARK 465 VAL A 147 REMARK 465 ASP A 148 REMARK 465 GLU A 149 REMARK 465 LYS A 150 REMARK 465 ASP A 151 REMARK 465 ALA A 152 REMARK 465 MET B 139 REMARK 465 GLY B 140 REMARK 465 ILE B 141 REMARK 465 GLU B 142 REMARK 465 ASP B 143 REMARK 465 ASN B 144 REMARK 465 ILE B 145 REMARK 465 SER B 146 REMARK 465 VAL B 147 REMARK 465 ASP B 148 REMARK 465 GLU B 149 REMARK 465 LYS B 150 REMARK 465 ASP B 151 REMARK 465 ALA B 152 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 HE21 GLN A 242 O HOH A 504 1.50 REMARK 500 HZ3 LYS A 54 O HOH A 512 1.53 REMARK 500 HZ2 LYS B 66 O HOH B 707 1.55 REMARK 500 HD22 ASN B 6 O HOH B 714 1.57 REMARK 500 O HOH B 709 O HOH B 970 1.93 REMARK 500 O HOH A 731 O HOH A 858 1.95 REMARK 500 OE2 GLU A 166 O HOH A 501 1.96 REMARK 500 O HOH B 708 O HOH B 717 1.97 REMARK 500 O HOH B 702 O HOH B 762 1.98 REMARK 500 OD1 ASP B 170 O HOH B 701 1.99 REMARK 500 O HOH A 823 O HOH A 862 2.03 REMARK 500 O HOH A 503 O HOH A 582 2.04 REMARK 500 O HOH B 1065 O HOH B 1084 2.05 REMARK 500 O HOH B 978 O HOH B 1065 2.06 REMARK 500 O HOH A 816 O HOH B 991 2.07 REMARK 500 O HOH B 720 O HOH B 976 2.07 REMARK 500 O HOH A 522 O HOH A 732 2.08 REMARK 500 O HOH A 819 O HOH A 878 2.08 REMARK 500 O HOH A 775 O HOH B 905 2.09 REMARK 500 OD2 ASP B 104 O HOH B 702 2.09 REMARK 500 O HOH B 884 O HOH B 986 2.09 REMARK 500 OE2 GLU A 243 O HOH A 502 2.10 REMARK 500 OE1 GLU B 70 O HOH B 703 2.10 REMARK 500 O HOH A 600 O HOH A 664 2.10 REMARK 500 O HOH A 768 O HOH B 1017 2.11 REMARK 500 O HOH B 1039 O HOH B 1083 2.13 REMARK 500 OD2 ASP A 104 O HOH A 503 2.14 REMARK 500 O HOH B 960 O HOH B 1074 2.14 REMARK 500 OD2 ASP B 273 O HOH B 704 2.16 REMARK 500 OE1 GLU B 243 O HOH B 705 2.17 REMARK 500 O HOH A 614 O HOH A 820 2.18 REMARK 500 O HOH A 511 O HOH A 515 2.18 REMARK 500 O HOH B 1076 O HOH B 1077 2.19 REMARK 500 O HOH A 590 O HOH A 653 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 755 O HOH A 815 1655 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 VAL B 153 CG1 - CB - CG2 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 PHE A 183 69.18 -117.53 REMARK 500 ILE A 215 73.45 40.27 REMARK 500 ASP A 255 -56.84 -141.06 REMARK 500 ASP B 255 -59.04 -143.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 881 DISTANCE = 6.48 ANGSTROMS REMARK 525 HOH A 882 DISTANCE = 6.51 ANGSTROMS REMARK 525 HOH B1103 DISTANCE = 6.56 ANGSTROMS REMARK 525 HOH B1104 DISTANCE = 7.60 ANGSTROMS 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 NA A 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 82 OD1 REMARK 620 2 GLU A 132 OE2 142.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 83 NE2 REMARK 620 2 GLU A 134 OE1 85.6 REMARK 620 3 GLU A 134 OE2 137.2 51.9 REMARK 620 4 HIS A 210 ND1 86.9 82.9 83.9 REMARK 620 5 HOH A 564 O 153.1 120.9 69.0 91.5 REMARK 620 6 HOH A 582 O 77.8 70.3 89.9 149.9 113.8 REMARK 620 7 HOH A 737 O 78.8 164.3 143.6 95.3 74.6 106.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 83 NE2 REMARK 620 2 P6T A 404 O2 146.8 REMARK 620 3 HOH A 737 O 86.8 125.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 82 OD1 REMARK 620 2 GLU B 132 OE2 141.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 83 NE2 REMARK 620 2 GLU B 134 OE1 86.1 REMARK 620 3 GLU B 134 OE2 139.6 53.7 REMARK 620 4 HIS B 210 ND1 86.2 83.7 85.7 REMARK 620 5 HOH B 762 O 77.8 70.9 90.7 150.7 REMARK 620 6 HOH B 776 O 147.3 126.7 73.0 96.9 109.9 REMARK 620 7 HOH B 969 O 78.8 164.7 141.5 97.8 103.0 68.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 83 NE2 REMARK 620 2 P6T B 404 O2 145.8 REMARK 620 3 HOH B 969 O 89.0 125.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6T A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6T B 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UCK RELATED DB: PDB REMARK 900 RELATED ID: 5UCN RELATED DB: PDB REMARK 900 RELATED ID: 5UCP RELATED DB: PDB REMARK 900 RELATED ID: 5UCS RELATED DB: PDB REMARK 900 RELATED ID: 5UCZ RELATED DB: PDB REMARK 900 RELATED ID: 5UD0 RELATED DB: PDB REMARK 900 RELATED ID: 5UD1 RELATED DB: PDB REMARK 900 RELATED ID: 5UD2 RELATED DB: PDB REMARK 900 RELATED ID: 5UD3 RELATED DB: PDB DBREF 5UD4 A 1 307 UNP P56109 ALF_HELPY 1 307 DBREF 5UD4 B 1 307 UNP P56109 ALF_HELPY 1 307 SEQADV 5UD4 ALA A 48 UNP P56109 THR 48 CONFLICT SEQADV 5UD4 ILE A 67 UNP P56109 THR 67 CONFLICT SEQADV 5UD4 GLN A 180 UNP P56109 HIS 180 ENGINEERED MUTATION SEQADV 5UD4 ALA B 48 UNP P56109 THR 48 CONFLICT SEQADV 5UD4 ILE B 67 UNP P56109 THR 67 CONFLICT SEQADV 5UD4 GLN B 180 UNP P56109 HIS 180 ENGINEERED MUTATION SEQRES 1 A 307 MET LEU VAL LYS GLY ASN GLU ILE LEU LEU LYS ALA HIS SEQRES 2 A 307 LYS GLU GLY TYR GLY VAL GLY ALA PHE ASN PHE VAL ASN SEQRES 3 A 307 PHE GLU MET LEU ASN ALA ILE PHE GLU ALA GLY ASN GLU SEQRES 4 A 307 GLU ASN SER PRO LEU PHE ILE GLN ALA SER GLU GLY ALA SEQRES 5 A 307 ILE LYS TYR MET GLY ILE ASP MET ALA VAL GLY MET VAL SEQRES 6 A 307 LYS ILE MET CYS GLU ARG TYR PRO HIS ILE PRO VAL ALA SEQRES 7 A 307 LEU HIS LEU ASP HIS GLY THR THR PHE GLU SER CYS GLU SEQRES 8 A 307 LYS ALA VAL LYS ALA GLY PHE THR SER VAL MET ILE ASP SEQRES 9 A 307 ALA SER HIS HIS ALA PHE GLU GLU ASN LEU GLU LEU THR SEQRES 10 A 307 SER LYS VAL VAL LYS MET ALA HIS ASN ALA GLY VAL SER SEQRES 11 A 307 VAL GLU ALA GLU LEU GLY ARG LEU MET GLY ILE GLU ASP SEQRES 12 A 307 ASN ILE SER VAL ASP GLU LYS ASP ALA VAL LEU VAL ASN SEQRES 13 A 307 PRO LYS GLU ALA GLU GLN PHE VAL LYS GLU SER GLN VAL SEQRES 14 A 307 ASP TYR LEU ALA PRO ALA ILE GLY THR SER GLN GLY ALA SEQRES 15 A 307 PHE LYS PHE LYS GLY GLU PRO LYS LEU ASP PHE GLU ARG SEQRES 16 A 307 LEU GLN GLU VAL LYS ARG LEU THR ASN ILE PRO LEU VAL SEQRES 17 A 307 LEU HIS GLY ALA SER ALA ILE PRO ASP ASN VAL ARG LYS SEQRES 18 A 307 SER TYR LEU ASP ALA GLY GLY ASP LEU LYS GLY SER LYS SEQRES 19 A 307 GLY VAL PRO PHE GLU PHE LEU GLN GLU SER VAL LYS GLY SEQRES 20 A 307 GLY ILE ASN LYS VAL ASN THR ASP THR ASP LEU ARG ILE SEQRES 21 A 307 ALA PHE ILE ALA GLU VAL ARG LYS VAL ALA ASN GLU ASP SEQRES 22 A 307 LYS SER GLN PHE ASP LEU ARG LYS PHE PHE SER PRO ALA SEQRES 23 A 307 GLN LEU ALA LEU LYS ASN VAL VAL LYS GLU ARG MET LYS SEQRES 24 A 307 LEU LEU GLY SER ALA ASN LYS ILE SEQRES 1 B 307 MET LEU VAL LYS GLY ASN GLU ILE LEU LEU LYS ALA HIS SEQRES 2 B 307 LYS GLU GLY TYR GLY VAL GLY ALA PHE ASN PHE VAL ASN SEQRES 3 B 307 PHE GLU MET LEU ASN ALA ILE PHE GLU ALA GLY ASN GLU SEQRES 4 B 307 GLU ASN SER PRO LEU PHE ILE GLN ALA SER GLU GLY ALA SEQRES 5 B 307 ILE LYS TYR MET GLY ILE ASP MET ALA VAL GLY MET VAL SEQRES 6 B 307 LYS ILE MET CYS GLU ARG TYR PRO HIS ILE PRO VAL ALA SEQRES 7 B 307 LEU HIS LEU ASP HIS GLY THR THR PHE GLU SER CYS GLU SEQRES 8 B 307 LYS ALA VAL LYS ALA GLY PHE THR SER VAL MET ILE ASP SEQRES 9 B 307 ALA SER HIS HIS ALA PHE GLU GLU ASN LEU GLU LEU THR SEQRES 10 B 307 SER LYS VAL VAL LYS MET ALA HIS ASN ALA GLY VAL SER SEQRES 11 B 307 VAL GLU ALA GLU LEU GLY ARG LEU MET GLY ILE GLU ASP SEQRES 12 B 307 ASN ILE SER VAL ASP GLU LYS ASP ALA VAL LEU VAL ASN SEQRES 13 B 307 PRO LYS GLU ALA GLU GLN PHE VAL LYS GLU SER GLN VAL SEQRES 14 B 307 ASP TYR LEU ALA PRO ALA ILE GLY THR SER GLN GLY ALA SEQRES 15 B 307 PHE LYS PHE LYS GLY GLU PRO LYS LEU ASP PHE GLU ARG SEQRES 16 B 307 LEU GLN GLU VAL LYS ARG LEU THR ASN ILE PRO LEU VAL SEQRES 17 B 307 LEU HIS GLY ALA SER ALA ILE PRO ASP ASN VAL ARG LYS SEQRES 18 B 307 SER TYR LEU ASP ALA GLY GLY ASP LEU LYS GLY SER LYS SEQRES 19 B 307 GLY VAL PRO PHE GLU PHE LEU GLN GLU SER VAL LYS GLY SEQRES 20 B 307 GLY ILE ASN LYS VAL ASN THR ASP THR ASP LEU ARG ILE SEQRES 21 B 307 ALA PHE ILE ALA GLU VAL ARG LYS VAL ALA ASN GLU ASP SEQRES 22 B 307 LYS SER GLN PHE ASP LEU ARG LYS PHE PHE SER PRO ALA SEQRES 23 B 307 GLN LEU ALA LEU LYS ASN VAL VAL LYS GLU ARG MET LYS SEQRES 24 B 307 LEU LEU GLY SER ALA ASN LYS ILE HET NA A 401 1 HET ZN A 402 1 HET ZN A 403 1 HET P6T A 404 30 HET NA B 401 1 HET ZN B 402 1 HET ZN B 403 1 HET P6T B 404 30 HETNAM NA SODIUM ION HETNAM ZN ZINC ION HETNAM P6T 1,6-DI-O-PHOSPHONO-D-TAGATOSE FORMUL 3 NA 2(NA 1+) FORMUL 4 ZN 4(ZN 2+) FORMUL 6 P6T 2(C6 H14 O12 P2) FORMUL 11 HOH *786(H2 O) HELIX 1 AA1 LYS A 4 GLY A 16 1 13 HELIX 2 AA2 ASN A 26 ASN A 41 1 16 HELIX 3 AA3 GLU A 50 GLY A 57 1 8 HELIX 4 AA4 GLY A 57 TYR A 72 1 16 HELIX 5 AA5 THR A 86 GLY A 97 1 12 HELIX 6 AA6 ALA A 109 ALA A 127 1 19 HELIX 7 AA7 ASN A 156 GLN A 168 1 13 HELIX 8 AA8 ASP A 192 ASN A 204 1 13 HELIX 9 AA9 PRO A 216 ALA A 226 1 11 HELIX 10 AB1 PRO A 237 GLY A 247 1 11 HELIX 11 AB2 ASP A 255 ASP A 273 1 19 HELIX 12 AB3 ASP A 278 GLY A 302 1 25 HELIX 13 AB4 LYS B 4 GLY B 16 1 13 HELIX 14 AB5 ASN B 26 ASN B 41 1 16 HELIX 15 AB6 GLU B 50 GLY B 57 1 8 HELIX 16 AB7 GLY B 57 TYR B 72 1 16 HELIX 17 AB8 THR B 86 GLY B 97 1 12 HELIX 18 AB9 ALA B 109 ALA B 127 1 19 HELIX 19 AC1 ASN B 156 GLN B 168 1 13 HELIX 20 AC2 ASP B 192 ASN B 204 1 13 HELIX 21 AC3 PRO B 216 ALA B 226 1 11 HELIX 22 AC4 PRO B 237 GLY B 247 1 11 HELIX 23 AC5 ASP B 255 ASP B 273 1 19 HELIX 24 AC6 ASP B 278 LEU B 301 1 24 SHEET 1 AA1 9 VAL A 19 ASN A 23 0 SHEET 2 AA1 9 LEU A 44 SER A 49 1 O PHE A 45 N PHE A 22 SHEET 3 AA1 9 VAL A 77 GLY A 84 1 O ALA A 78 N ILE A 46 SHEET 4 AA1 9 SER A 100 ILE A 103 1 O SER A 100 N LEU A 81 SHEET 5 AA1 9 SER A 130 LEU A 135 1 O GLU A 132 N VAL A 101 SHEET 6 AA1 9 TYR A 171 PRO A 174 1 O ALA A 173 N ALA A 133 SHEET 7 AA1 9 LEU A 207 LEU A 209 1 O VAL A 208 N LEU A 172 SHEET 8 AA1 9 ILE A 249 THR A 254 1 O ASN A 250 N LEU A 207 SHEET 9 AA1 9 VAL A 19 ASN A 23 1 N ALA A 21 O THR A 254 SHEET 1 AA2 9 VAL B 19 ASN B 23 0 SHEET 2 AA2 9 LEU B 44 SER B 49 1 O PHE B 45 N PHE B 22 SHEET 3 AA2 9 VAL B 77 GLY B 84 1 O HIS B 80 N ILE B 46 SHEET 4 AA2 9 SER B 100 ILE B 103 1 O SER B 100 N LEU B 81 SHEET 5 AA2 9 SER B 130 LEU B 135 1 O GLU B 132 N VAL B 101 SHEET 6 AA2 9 TYR B 171 PRO B 174 1 O ALA B 173 N ALA B 133 SHEET 7 AA2 9 LEU B 207 LEU B 209 1 O VAL B 208 N LEU B 172 SHEET 8 AA2 9 ILE B 249 THR B 254 1 O ASN B 250 N LEU B 207 SHEET 9 AA2 9 VAL B 19 ASN B 23 1 N ALA B 21 O THR B 254 LINK OD1 ASP A 82 NA NA A 401 1555 1555 2.80 LINK NE2AHIS A 83 ZN A ZN A 402 1555 1555 2.56 LINK NE2BHIS A 83 ZN B ZN A 403 1555 1555 2.17 LINK OE2 GLU A 132 NA NA A 401 1555 1555 2.96 LINK OE1 GLU A 134 ZN A ZN A 402 1555 1555 2.57 LINK OE2 GLU A 134 ZN A ZN A 402 1555 1555 2.45 LINK ND1 HIS A 210 ZN A ZN A 402 1555 1555 2.51 LINK ZN A ZN A 402 O HOH A 564 1555 1555 2.26 LINK ZN A ZN A 402 O HOH A 582 1555 1555 2.11 LINK ZN A ZN A 402 O HOH A 737 1555 1555 2.38 LINK ZN B ZN A 403 O2 P6T A 404 1555 1555 2.48 LINK ZN B ZN A 403 O HOH A 737 1555 1555 2.36 LINK OD1 ASP B 82 NA NA B 401 1555 1555 2.80 LINK NE2AHIS B 83 ZN A ZN B 402 1555 1555 2.53 LINK NE2BHIS B 83 ZN B ZN B 403 1555 1555 2.14 LINK OE2 GLU B 132 NA NA B 401 1555 1555 2.92 LINK OE1 GLU B 134 ZN A ZN B 402 1555 1555 2.48 LINK OE2 GLU B 134 ZN A ZN B 402 1555 1555 2.37 LINK ND1 HIS B 210 ZN A ZN B 402 1555 1555 2.48 LINK ZN A ZN B 402 O HOH B 762 1555 1555 2.07 LINK ZN A ZN B 402 O HOH B 776 1555 1555 2.10 LINK ZN A ZN B 402 O HOH B 969 1555 1555 2.55 LINK ZN B ZN B 403 O2 P6T B 404 1555 1555 2.61 LINK ZN B ZN B 403 O HOH B 969 1555 1555 2.36 SITE 1 AC1 6 HIS A 80 ASP A 82 MET A 102 GLU A 132 SITE 2 AC1 6 LYS A 251 ASN A 253 SITE 1 AC2 6 HIS A 83 GLU A 134 HIS A 210 HOH A 564 SITE 2 AC2 6 HOH A 582 HOH A 737 SITE 1 AC3 4 HIS A 83 HIS A 210 P6T A 404 HOH A 737 SITE 1 AC4 23 GLN A 47 SER A 49 ASP A 82 HIS A 83 SITE 2 AC4 23 GLN A 180 GLY A 181 LYS A 184 GLY A 211 SITE 3 AC4 23 ALA A 212 SER A 213 ASN A 253 ASP A 255 SITE 4 AC4 23 THR A 256 ARG A 259 ZN A 403 HOH A 516 SITE 5 AC4 23 HOH A 538 HOH A 549 HOH A 553 HOH A 573 SITE 6 AC4 23 HOH A 588 HOH A 640 ARG B 280 SITE 1 AC5 7 GLN B 47 HIS B 80 ASP B 82 MET B 102 SITE 2 AC5 7 GLU B 132 LYS B 251 ASN B 253 SITE 1 AC6 6 HIS B 83 GLU B 134 HIS B 210 HOH B 762 SITE 2 AC6 6 HOH B 776 HOH B 969 SITE 1 AC7 4 HIS B 83 HIS B 210 P6T B 404 HOH B 969 SITE 1 AC8 23 ARG A 280 GLN B 47 SER B 49 ASP B 82 SITE 2 AC8 23 HIS B 83 GLN B 180 GLY B 181 LYS B 184 SITE 3 AC8 23 GLY B 211 ALA B 212 SER B 213 ASN B 253 SITE 4 AC8 23 ASP B 255 THR B 256 ARG B 259 ZN B 403 SITE 5 AC8 23 HOH B 733 HOH B 748 HOH B 780 HOH B 783 SITE 6 AC8 23 HOH B 790 HOH B 826 HOH B 872 CRYST1 39.391 62.590 64.817 81.98 75.74 74.23 P 1 2 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 0.025387 -0.007168 -0.005911 0.00000 SCALE2 0.000000 0.016602 -0.001295 0.00000 SCALE3 0.000000 0.000000 0.015967 0.00000