HEADER TRANSPORT PROTEIN 11-JAN-17 5UHS TITLE STRUCTURE OF A SEMISWEET D57A MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUGAR TRANSPORTER SEMISWEET; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEPTOSPIRA BIFLEXA SEROVAR PATOC (STRAIN PATOC SOURCE 3 1 / ATCC 23582 / PARIS); SOURCE 4 ORGANISM_TAXID: 456481; SOURCE 5 STRAIN: PATOC 1 / ATCC 23582 / PARIS; SOURCE 6 GENE: LEPBI_I1613; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MEMBRANE, TRANSPORTER, SEMISWEET, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.M.FASTMAN,L.FENG REVDAT 3 04-OCT-23 5UHS 1 HETSYN REVDAT 2 29-JUL-20 5UHS 1 COMPND REMARK HETNAM SITE REVDAT 1 02-AUG-17 5UHS 0 JRNL AUTH N.R.LATORRACA,N.M.FASTMAN,A.J.VENKATAKRISHNAN,W.B.FROMMER, JRNL AUTH 2 R.O.DROR,L.FENG JRNL TITL MECHANISM OF SUBSTRATE TRANSLOCATION IN AN ALTERNATING JRNL TITL 2 ACCESS TRANSPORTER. JRNL REF CELL V. 169 96 2017 JRNL REFN ISSN 1097-4172 JRNL PMID 28340354 JRNL DOI 10.1016/J.CELL.2017.03.010 REMARK 2 REMARK 2 RESOLUTION. 2.80 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 3919 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 12.250 REMARK 3 FREE R VALUE TEST SET COUNT : 480 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 29.0122 - 4.0276 1.00 1198 177 0.2312 0.2574 REMARK 3 2 4.0276 - 3.1981 1.00 1190 155 0.2442 0.2666 REMARK 3 3 3.1981 - 2.7942 0.90 1051 148 0.2771 0.3126 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.110 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 : 0.005 1395 REMARK 3 ANGLE : 0.876 1892 REMARK 3 CHIRALITY : 0.049 239 REMARK 3 PLANARITY : 0.006 217 REMARK 3 DIHEDRAL : 14.829 799 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 5UHS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1000225894. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03327 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 4006 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 96.9 REMARK 200 DATA REDUNDANCY : 9.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7300 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: 4QNC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 11.7 MAG 50 MM TRIS PH 8 100 MM LISO4 REMARK 280 35% PEG 400 40 MM GLUCOSE, LIPIDIC CUBIC PHASE, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 18.46000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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: 8750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 GLY A 82 REMARK 465 ASN A 83 REMARK 465 GLN A 84 REMARK 465 THR A 85 REMARK 465 GLY A 86 REMARK 465 SER A 87 REMARK 465 LEU A 88 REMARK 465 GLU A 89 REMARK 465 VAL A 90 REMARK 465 LEU A 91 REMARK 465 PHE A 92 REMARK 465 GLN A 93 REMARK 465 GLY B 82 REMARK 465 ASN B 83 REMARK 465 GLN B 84 REMARK 465 THR B 85 REMARK 465 GLY B 86 REMARK 465 SER B 87 REMARK 465 LEU B 88 REMARK 465 GLU B 89 REMARK 465 VAL B 90 REMARK 465 LEU B 91 REMARK 465 PHE B 92 REMARK 465 GLN B 93 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 MVC A 101 REMARK 610 MVC B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UHQ RELATED DB: PDB DBREF 5UHS A 1 85 UNP B0SR19 SWEET_LEPBP 1 85 DBREF 5UHS B 1 85 UNP B0SR19 SWEET_LEPBP 1 85 SEQADV 5UHS ALA A 57 UNP B0SR19 ASP 57 CONFLICT SEQADV 5UHS GLY A 86 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS SER A 87 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS LEU A 88 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS GLU A 89 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS VAL A 90 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS LEU A 91 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS PHE A 92 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS GLN A 93 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS ALA B 57 UNP B0SR19 ASP 57 CONFLICT SEQADV 5UHS GLY B 86 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS SER B 87 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS LEU B 88 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS GLU B 89 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS VAL B 90 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS LEU B 91 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS PHE B 92 UNP B0SR19 EXPRESSION TAG SEQADV 5UHS GLN B 93 UNP B0SR19 EXPRESSION TAG SEQRES 1 A 93 MET GLU ASN LEU ILE GLY TYR VAL ALA ALA PHE LEU THR SEQRES 2 A 93 THR VAL SER PHE LEU PRO GLN VAL LEU ARG VAL VAL MET SEQRES 3 A 93 THR LYS GLN THR ARG ASP ILE SER ARG ASN MET TYR ILE SEQRES 4 A 93 MET PHE PHE LEU GLY VAL VAL LEU TRP PHE VAL TYR GLY SEQRES 5 A 93 ILE LEU ARG SER ALA LEU PRO ILE ILE LEU ALA ASN VAL SEQRES 6 A 93 VAL THR LEU PHE PHE VAL THR ILE ILE LEU TYR TYR LYS SEQRES 7 A 93 LEU THR GLU GLY ASN GLN THR GLY SER LEU GLU VAL LEU SEQRES 8 A 93 PHE GLN SEQRES 1 B 93 MET GLU ASN LEU ILE GLY TYR VAL ALA ALA PHE LEU THR SEQRES 2 B 93 THR VAL SER PHE LEU PRO GLN VAL LEU ARG VAL VAL MET SEQRES 3 B 93 THR LYS GLN THR ARG ASP ILE SER ARG ASN MET TYR ILE SEQRES 4 B 93 MET PHE PHE LEU GLY VAL VAL LEU TRP PHE VAL TYR GLY SEQRES 5 B 93 ILE LEU ARG SER ALA LEU PRO ILE ILE LEU ALA ASN VAL SEQRES 6 B 93 VAL THR LEU PHE PHE VAL THR ILE ILE LEU TYR TYR LYS SEQRES 7 B 93 LEU THR GLU GLY ASN GLN THR GLY SER LEU GLU VAL LEU SEQRES 8 B 93 PHE GLN HET MVC A 101 20 HET MVC B 101 9 HET BGC B 102 12 HETNAM MVC MONOVACCENIN HETNAM BGC BETA-D-GLUCOPYRANOSE HETSYN MVC 11.7 MAG HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 3 MVC 2(C21 H40 O4) FORMUL 5 BGC C6 H12 O6 HELIX 1 AA1 MET A 1 LYS A 28 1 28 HELIX 2 AA2 SER A 34 ARG A 55 1 22 HELIX 3 AA3 ALA A 57 THR A 80 1 24 HELIX 4 AA4 GLU B 2 SER B 16 1 15 HELIX 5 AA5 SER B 16 LYS B 28 1 13 HELIX 6 AA6 SER B 34 ARG B 55 1 22 HELIX 7 AA7 ALA B 57 THR B 80 1 24 CRYST1 47.021 36.920 47.514 90.00 104.27 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.021267 0.000000 0.005411 0.00000 SCALE2 0.000000 0.027086 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021717 0.00000