HEADER TRANSPORT PROTEIN 18-FEB-13 4JA4 TITLE INWARD OPEN CONFORMATION OF THE XYLOSE TRANSPORTER XYLE FROM E. COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-XYLOSE-PROTON SYMPORTER; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: UNP RESIDUES 2-485; COMPND 5 SYNONYM: D-XYLOSE TRANSPORTER; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: XYLE, B4031, JW3991; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MODIFIED PTH27 VECTOR KEYWDS MFS GENERAL SUBSTRATE TRANSPORTER, XYLOSE TRANSPORTER, TRANSPORT KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.M.QUISTGAARD,C.LOW,P.MOBERG,L.TRESAUGUES,P.NORDLUND REVDAT 3 28-FEB-24 4JA4 1 REMARK SEQADV LINK REVDAT 2 17-JUL-13 4JA4 1 JRNL REVDAT 1 01-MAY-13 4JA4 0 JRNL AUTH E.M.QUISTGAARD,C.LOW,P.MOBERG,L.TRESAUGUES,P.NORDLUND JRNL TITL STRUCTURAL BASIS FOR SUBSTRATE TRANSPORT IN THE JRNL TITL 2 GLUT-HOMOLOGY FAMILY OF MONOSACCHARIDE TRANSPORTERS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 20 766 2013 JRNL REFN ISSN 1545-9993 JRNL PMID 23624861 JRNL DOI 10.1038/NSMB.2569 REMARK 2 REMARK 2 RESOLUTION. 4.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) 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) : 4.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 72.2 REMARK 3 NUMBER OF REFLECTIONS : 17871 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.291 REMARK 3 R VALUE (WORKING SET) : 0.288 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.660 REMARK 3 FREE R VALUE TEST SET COUNT : 1369 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 41.1862 - 9.0201 0.96 2210 191 0.3215 0.3269 REMARK 3 2 9.0201 - 7.1718 0.99 2277 208 0.2750 0.2730 REMARK 3 3 7.1718 - 6.2689 0.99 2288 148 0.2569 0.3271 REMARK 3 4 6.2689 - 5.6973 0.97 2237 174 0.2707 0.3162 REMARK 3 5 5.6973 - 5.2899 0.84 1912 162 0.2767 0.3405 REMARK 3 6 5.2899 - 4.9785 0.71 1600 154 0.2495 0.3213 REMARK 3 7 4.9785 - 4.7296 0.60 1379 107 0.2489 0.3506 REMARK 3 8 4.7296 - 4.5240 0.50 1121 101 0.2337 0.3133 REMARK 3 9 4.5240 - 4.3500 0.38 858 76 0.2707 0.3633 REMARK 3 10 4.3500 - 4.2000 0.27 620 48 0.2786 0.3284 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) : 0.670 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 42.500 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 : 0.003 10392 REMARK 3 ANGLE : 0.699 14137 REMARK 3 CHIRALITY : 0.052 1625 REMARK 3 PLANARITY : 0.002 1730 REMARK 3 DIHEDRAL : 14.096 3547 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 4JA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000077787. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.937 REMARK 200 MONOCHROMATOR : CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17942 REMARK 200 RESOLUTION RANGE HIGH (A) : 4.200 REMARK 200 RESOLUTION RANGE LOW (A) : 41.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 72.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 4.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 24.3 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 77.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40% PEG 400, 500 MM NACL, 2 MM CDCL2, REMARK 280 100 MM MES , PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 126.89333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 253.78667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 190.34000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 317.23333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 63.44667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 REMARK 350 BIOMOLECULE: 3 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: C 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 1 REMARK 465 ASN A 2 REMARK 465 THR A 3 REMARK 465 GLN A 4 REMARK 465 TYR A 5 REMARK 465 ASN A 6 REMARK 465 SER A 7 REMARK 465 SER A 8 REMARK 465 SER A 229 REMARK 465 ARG A 230 REMARK 465 GLY A 231 REMARK 465 LYS A 232 REMARK 465 ARG A 264 REMARK 465 LYS A 265 REMARK 465 THR A 266 REMARK 465 GLY A 267 REMARK 465 GLY A 268 REMARK 465 ARG A 269 REMARK 465 LEU A 270 REMARK 465 LEU A 271 REMARK 465 PHE A 304 REMARK 465 LYS A 305 REMARK 465 THR A 306 REMARK 465 LEU A 307 REMARK 465 GLY A 308 REMARK 465 ALA A 309 REMARK 465 SER A 310 REMARK 465 THR A 311 REMARK 465 ASP A 312 REMARK 465 ILE A 313 REMARK 465 ALA A 314 REMARK 465 LEU A 435 REMARK 465 VAL A 436 REMARK 465 ALA A 437 REMARK 465 HIS A 438 REMARK 465 PHE A 439 REMARK 465 HIS A 440 REMARK 465 PRO A 480 REMARK 465 GLU A 481 REMARK 465 THR A 482 REMARK 465 LYS A 483 REMARK 465 LYS A 484 REMARK 465 THR A 485 REMARK 465 GLY B 1 REMARK 465 ASN B 2 REMARK 465 THR B 3 REMARK 465 GLN B 4 REMARK 465 TYR B 5 REMARK 465 ASN B 6 REMARK 465 SER B 7 REMARK 465 SER B 8 REMARK 465 THR B 117 REMARK 465 VAL B 118 REMARK 465 SER B 229 REMARK 465 ARG B 230 REMARK 465 GLY B 231 REMARK 465 LYS B 232 REMARK 465 ARG B 264 REMARK 465 LYS B 265 REMARK 465 THR B 266 REMARK 465 GLY B 267 REMARK 465 GLY B 268 REMARK 465 ARG B 269 REMARK 465 LEU B 270 REMARK 465 LEU B 271 REMARK 465 PHE B 304 REMARK 465 LYS B 305 REMARK 465 THR B 306 REMARK 465 LEU B 307 REMARK 465 GLY B 308 REMARK 465 ALA B 309 REMARK 465 SER B 310 REMARK 465 THR B 311 REMARK 465 ASP B 312 REMARK 465 ILE B 313 REMARK 465 ALA B 314 REMARK 465 LEU B 315 REMARK 465 LEU B 435 REMARK 465 VAL B 436 REMARK 465 ALA B 437 REMARK 465 HIS B 438 REMARK 465 PHE B 439 REMARK 465 HIS B 440 REMARK 465 PRO B 480 REMARK 465 GLU B 481 REMARK 465 THR B 482 REMARK 465 LYS B 483 REMARK 465 LYS B 484 REMARK 465 THR B 485 REMARK 465 GLY C 1 REMARK 465 ASN C 2 REMARK 465 THR C 3 REMARK 465 GLN C 4 REMARK 465 TYR C 5 REMARK 465 ASN C 6 REMARK 465 SER C 7 REMARK 465 SER C 8 REMARK 465 ASP C 115 REMARK 465 ASN C 116 REMARK 465 SER C 229 REMARK 465 ARG C 230 REMARK 465 GLY C 231 REMARK 465 LYS C 232 REMARK 465 ARG C 264 REMARK 465 LYS C 265 REMARK 465 THR C 266 REMARK 465 GLY C 267 REMARK 465 GLY C 268 REMARK 465 ARG C 269 REMARK 465 LEU C 270 REMARK 465 LEU C 271 REMARK 465 PHE C 304 REMARK 465 LYS C 305 REMARK 465 THR C 306 REMARK 465 LEU C 307 REMARK 465 GLY C 308 REMARK 465 ALA C 309 REMARK 465 SER C 310 REMARK 465 THR C 311 REMARK 465 ASP C 312 REMARK 465 ILE C 313 REMARK 465 ALA C 314 REMARK 465 LEU C 315 REMARK 465 ASN C 432 REMARK 465 SER C 433 REMARK 465 TRP C 434 REMARK 465 LEU C 435 REMARK 465 VAL C 436 REMARK 465 ALA C 437 REMARK 465 HIS C 438 REMARK 465 PHE C 439 REMARK 465 HIS C 440 REMARK 465 PRO C 480 REMARK 465 GLU C 481 REMARK 465 THR C 482 REMARK 465 LYS C 483 REMARK 465 LYS C 484 REMARK 465 THR C 485 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 GLN A 46 52.67 -107.19 REMARK 500 LEU A 107 -76.04 48.39 REMARK 500 ASP A 115 -96.81 -116.16 REMARK 500 ASN A 116 -142.40 -121.71 REMARK 500 THR A 117 142.76 50.64 REMARK 500 ARG A 187 68.89 -102.61 REMARK 500 LEU A 227 -46.91 -176.58 REMARK 500 GLU A 234 -70.84 57.28 REMARK 500 ASN A 246 -154.26 58.55 REMARK 500 THR A 247 -74.78 56.46 REMARK 500 ARG A 341 31.21 -87.73 REMARK 500 LYS A 342 -48.78 -140.48 REMARK 500 GLN A 366 119.77 68.10 REMARK 500 ILE A 370 -26.86 -144.94 REMARK 500 SER A 386 -100.30 -99.66 REMARK 500 VAL A 390 -88.22 -110.88 REMARK 500 CYS A 391 -60.54 9.99 REMARK 500 MET A 429 -70.55 -101.60 REMARK 500 ASP A 430 -80.48 -77.75 REMARK 500 SER A 433 -127.19 -153.00 REMARK 500 PHE A 462 -39.86 -141.36 REMARK 500 GLN B 46 52.89 -107.29 REMARK 500 LEU B 107 -76.16 48.53 REMARK 500 ASP B 115 -96.16 60.55 REMARK 500 ARG B 187 68.93 -102.70 REMARK 500 LEU B 227 -47.23 -176.64 REMARK 500 GLU B 234 -70.60 57.07 REMARK 500 ASN B 246 -154.14 58.64 REMARK 500 THR B 247 -74.88 56.41 REMARK 500 GLN B 317 -3.50 69.64 REMARK 500 LYS B 342 -49.63 -145.07 REMARK 500 GLN B 366 119.97 68.01 REMARK 500 ILE B 370 -27.14 -145.15 REMARK 500 SER B 386 -100.47 -99.29 REMARK 500 VAL B 390 -88.79 -110.99 REMARK 500 CYS B 391 -60.46 9.47 REMARK 500 MET B 429 -70.73 -101.31 REMARK 500 ASP B 430 -80.58 -77.84 REMARK 500 SER B 433 -126.67 -153.29 REMARK 500 PHE B 462 -40.34 -141.17 REMARK 500 GLN C 46 52.65 -107.29 REMARK 500 LEU C 107 -76.22 48.40 REMARK 500 ARG C 187 69.07 -102.70 REMARK 500 LEU C 227 -47.15 -176.44 REMARK 500 GLU C 234 -70.90 57.28 REMARK 500 ASN C 246 -154.05 58.60 REMARK 500 THR C 247 -74.67 56.44 REMARK 500 GLN C 317 -4.61 68.22 REMARK 500 ARG C 341 31.44 -87.87 REMARK 500 LYS C 342 -48.96 -140.60 REMARK 500 REMARK 500 THIS ENTRY HAS 58 RAMACHANDRAN OUTLIERS. 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 CD A 501 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 258 NE2 REMARK 620 2 HIS A 262 NE2 65.9 REMARK 620 3 HIS B 258 NE2 64.8 113.3 REMARK 620 4 HIS B 262 NE2 119.8 109.7 63.9 REMARK 620 5 HIS C 258 NE2 66.6 124.6 68.1 117.7 REMARK 620 6 HIS C 262 NE2 115.2 115.0 125.2 119.2 63.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JA3 RELATED DB: PDB REMARK 900 PARTIALLY OCCLUDED INWARD OPEN CONFORMATION OF THE XYLOSE REMARK 900 TRANSPORTER XYLE FROM E. COLI DBREF 4JA4 A 2 485 UNP P0AGF4 XYLE_ECOLI 2 485 DBREF 4JA4 B 2 485 UNP P0AGF4 XYLE_ECOLI 2 485 DBREF 4JA4 C 2 485 UNP P0AGF4 XYLE_ECOLI 2 485 SEQADV 4JA4 GLY A 1 UNP P0AGF4 EXPRESSION TAG SEQADV 4JA4 GLY B 1 UNP P0AGF4 EXPRESSION TAG SEQADV 4JA4 GLY C 1 UNP P0AGF4 EXPRESSION TAG SEQRES 1 A 485 GLY ASN THR GLN TYR ASN SER SER TYR ILE PHE SER ILE SEQRES 2 A 485 THR LEU VAL ALA THR LEU GLY GLY LEU LEU PHE GLY TYR SEQRES 3 A 485 ASP THR ALA VAL ILE SER GLY THR VAL GLU SER LEU ASN SEQRES 4 A 485 THR VAL PHE VAL ALA PRO GLN ASN LEU SER GLU SER ALA SEQRES 5 A 485 ALA ASN SER LEU LEU GLY PHE CYS VAL ALA SER ALA LEU SEQRES 6 A 485 ILE GLY CYS ILE ILE GLY GLY ALA LEU GLY GLY TYR CYS SEQRES 7 A 485 SER ASN ARG PHE GLY ARG ARG ASP SER LEU LYS ILE ALA SEQRES 8 A 485 ALA VAL LEU PHE PHE ILE SER GLY VAL GLY SER ALA TRP SEQRES 9 A 485 PRO GLU LEU GLY PHE THR SER ILE ASN PRO ASP ASN THR SEQRES 10 A 485 VAL PRO VAL TYR LEU ALA GLY TYR VAL PRO GLU PHE VAL SEQRES 11 A 485 ILE TYR ARG ILE ILE GLY GLY ILE GLY VAL GLY LEU ALA SEQRES 12 A 485 SER MET LEU SER PRO MET TYR ILE ALA GLU LEU ALA PRO SEQRES 13 A 485 ALA HIS ILE ARG GLY LYS LEU VAL SER PHE ASN GLN PHE SEQRES 14 A 485 ALA ILE ILE PHE GLY GLN LEU LEU VAL TYR CYS VAL ASN SEQRES 15 A 485 TYR PHE ILE ALA ARG SER GLY ASP ALA SER TRP LEU ASN SEQRES 16 A 485 THR ASP GLY TRP ARG TYR MET PHE ALA SER GLU CYS ILE SEQRES 17 A 485 PRO ALA LEU LEU PHE LEU MET LEU LEU TYR THR VAL PRO SEQRES 18 A 485 GLU SER PRO ARG TRP LEU MET SER ARG GLY LYS GLN GLU SEQRES 19 A 485 GLN ALA GLU GLY ILE LEU ARG LYS ILE MET GLY ASN THR SEQRES 20 A 485 LEU ALA THR GLN ALA VAL GLN GLU ILE LYS HIS SER LEU SEQRES 21 A 485 ASP HIS GLY ARG LYS THR GLY GLY ARG LEU LEU MET PHE SEQRES 22 A 485 GLY VAL GLY VAL ILE VAL ILE GLY VAL MET LEU SER ILE SEQRES 23 A 485 PHE GLN GLN PHE VAL GLY ILE ASN VAL VAL LEU TYR TYR SEQRES 24 A 485 ALA PRO GLU VAL PHE LYS THR LEU GLY ALA SER THR ASP SEQRES 25 A 485 ILE ALA LEU LEU GLN THR ILE ILE VAL GLY VAL ILE ASN SEQRES 26 A 485 LEU THR PHE THR VAL LEU ALA ILE MET THR VAL ASP LYS SEQRES 27 A 485 PHE GLY ARG LYS PRO LEU GLN ILE ILE GLY ALA LEU GLY SEQRES 28 A 485 MET ALA ILE GLY MET PHE SER LEU GLY THR ALA PHE TYR SEQRES 29 A 485 THR GLN ALA PRO GLY ILE VAL ALA LEU LEU SER MET LEU SEQRES 30 A 485 PHE TYR VAL ALA ALA PHE ALA MET SER TRP GLY PRO VAL SEQRES 31 A 485 CYS TRP VAL LEU LEU SER GLU ILE PHE PRO ASN ALA ILE SEQRES 32 A 485 ARG GLY LYS ALA LEU ALA ILE ALA VAL ALA ALA GLN TRP SEQRES 33 A 485 LEU ALA ASN TYR PHE VAL SER TRP THR PHE PRO MET MET SEQRES 34 A 485 ASP LYS ASN SER TRP LEU VAL ALA HIS PHE HIS ASN GLY SEQRES 35 A 485 PHE SER TYR TRP ILE TYR GLY CYS MET GLY VAL LEU ALA SEQRES 36 A 485 ALA LEU PHE MET TRP LYS PHE VAL PRO GLU THR LYS GLY SEQRES 37 A 485 LYS THR LEU GLU GLU LEU GLU ALA LEU TRP GLU PRO GLU SEQRES 38 A 485 THR LYS LYS THR SEQRES 1 B 485 GLY ASN THR GLN TYR ASN SER SER TYR ILE PHE SER ILE SEQRES 2 B 485 THR LEU VAL ALA THR LEU GLY GLY LEU LEU PHE GLY TYR SEQRES 3 B 485 ASP THR ALA VAL ILE SER GLY THR VAL GLU SER LEU ASN SEQRES 4 B 485 THR VAL PHE VAL ALA PRO GLN ASN LEU SER GLU SER ALA SEQRES 5 B 485 ALA ASN SER LEU LEU GLY PHE CYS VAL ALA SER ALA LEU SEQRES 6 B 485 ILE GLY CYS ILE ILE GLY GLY ALA LEU GLY GLY TYR CYS SEQRES 7 B 485 SER ASN ARG PHE GLY ARG ARG ASP SER LEU LYS ILE ALA SEQRES 8 B 485 ALA VAL LEU PHE PHE ILE SER GLY VAL GLY SER ALA TRP SEQRES 9 B 485 PRO GLU LEU GLY PHE THR SER ILE ASN PRO ASP ASN THR SEQRES 10 B 485 VAL PRO VAL TYR LEU ALA GLY TYR VAL PRO GLU PHE VAL SEQRES 11 B 485 ILE TYR ARG ILE ILE GLY GLY ILE GLY VAL GLY LEU ALA SEQRES 12 B 485 SER MET LEU SER PRO MET TYR ILE ALA GLU LEU ALA PRO SEQRES 13 B 485 ALA HIS ILE ARG GLY LYS LEU VAL SER PHE ASN GLN PHE SEQRES 14 B 485 ALA ILE ILE PHE GLY GLN LEU LEU VAL TYR CYS VAL ASN SEQRES 15 B 485 TYR PHE ILE ALA ARG SER GLY ASP ALA SER TRP LEU ASN SEQRES 16 B 485 THR ASP GLY TRP ARG TYR MET PHE ALA SER GLU CYS ILE SEQRES 17 B 485 PRO ALA LEU LEU PHE LEU MET LEU LEU TYR THR VAL PRO SEQRES 18 B 485 GLU SER PRO ARG TRP LEU MET SER ARG GLY LYS GLN GLU SEQRES 19 B 485 GLN ALA GLU GLY ILE LEU ARG LYS ILE MET GLY ASN THR SEQRES 20 B 485 LEU ALA THR GLN ALA VAL GLN GLU ILE LYS HIS SER LEU SEQRES 21 B 485 ASP HIS GLY ARG LYS THR GLY GLY ARG LEU LEU MET PHE SEQRES 22 B 485 GLY VAL GLY VAL ILE VAL ILE GLY VAL MET LEU SER ILE SEQRES 23 B 485 PHE GLN GLN PHE VAL GLY ILE ASN VAL VAL LEU TYR TYR SEQRES 24 B 485 ALA PRO GLU VAL PHE LYS THR LEU GLY ALA SER THR ASP SEQRES 25 B 485 ILE ALA LEU LEU GLN THR ILE ILE VAL GLY VAL ILE ASN SEQRES 26 B 485 LEU THR PHE THR VAL LEU ALA ILE MET THR VAL ASP LYS SEQRES 27 B 485 PHE GLY ARG LYS PRO LEU GLN ILE ILE GLY ALA LEU GLY SEQRES 28 B 485 MET ALA ILE GLY MET PHE SER LEU GLY THR ALA PHE TYR SEQRES 29 B 485 THR GLN ALA PRO GLY ILE VAL ALA LEU LEU SER MET LEU SEQRES 30 B 485 PHE TYR VAL ALA ALA PHE ALA MET SER TRP GLY PRO VAL SEQRES 31 B 485 CYS TRP VAL LEU LEU SER GLU ILE PHE PRO ASN ALA ILE SEQRES 32 B 485 ARG GLY LYS ALA LEU ALA ILE ALA VAL ALA ALA GLN TRP SEQRES 33 B 485 LEU ALA ASN TYR PHE VAL SER TRP THR PHE PRO MET MET SEQRES 34 B 485 ASP LYS ASN SER TRP LEU VAL ALA HIS PHE HIS ASN GLY SEQRES 35 B 485 PHE SER TYR TRP ILE TYR GLY CYS MET GLY VAL LEU ALA SEQRES 36 B 485 ALA LEU PHE MET TRP LYS PHE VAL PRO GLU THR LYS GLY SEQRES 37 B 485 LYS THR LEU GLU GLU LEU GLU ALA LEU TRP GLU PRO GLU SEQRES 38 B 485 THR LYS LYS THR SEQRES 1 C 485 GLY ASN THR GLN TYR ASN SER SER TYR ILE PHE SER ILE SEQRES 2 C 485 THR LEU VAL ALA THR LEU GLY GLY LEU LEU PHE GLY TYR SEQRES 3 C 485 ASP THR ALA VAL ILE SER GLY THR VAL GLU SER LEU ASN SEQRES 4 C 485 THR VAL PHE VAL ALA PRO GLN ASN LEU SER GLU SER ALA SEQRES 5 C 485 ALA ASN SER LEU LEU GLY PHE CYS VAL ALA SER ALA LEU SEQRES 6 C 485 ILE GLY CYS ILE ILE GLY GLY ALA LEU GLY GLY TYR CYS SEQRES 7 C 485 SER ASN ARG PHE GLY ARG ARG ASP SER LEU LYS ILE ALA SEQRES 8 C 485 ALA VAL LEU PHE PHE ILE SER GLY VAL GLY SER ALA TRP SEQRES 9 C 485 PRO GLU LEU GLY PHE THR SER ILE ASN PRO ASP ASN THR SEQRES 10 C 485 VAL PRO VAL TYR LEU ALA GLY TYR VAL PRO GLU PHE VAL SEQRES 11 C 485 ILE TYR ARG ILE ILE GLY GLY ILE GLY VAL GLY LEU ALA SEQRES 12 C 485 SER MET LEU SER PRO MET TYR ILE ALA GLU LEU ALA PRO SEQRES 13 C 485 ALA HIS ILE ARG GLY LYS LEU VAL SER PHE ASN GLN PHE SEQRES 14 C 485 ALA ILE ILE PHE GLY GLN LEU LEU VAL TYR CYS VAL ASN SEQRES 15 C 485 TYR PHE ILE ALA ARG SER GLY ASP ALA SER TRP LEU ASN SEQRES 16 C 485 THR ASP GLY TRP ARG TYR MET PHE ALA SER GLU CYS ILE SEQRES 17 C 485 PRO ALA LEU LEU PHE LEU MET LEU LEU TYR THR VAL PRO SEQRES 18 C 485 GLU SER PRO ARG TRP LEU MET SER ARG GLY LYS GLN GLU SEQRES 19 C 485 GLN ALA GLU GLY ILE LEU ARG LYS ILE MET GLY ASN THR SEQRES 20 C 485 LEU ALA THR GLN ALA VAL GLN GLU ILE LYS HIS SER LEU SEQRES 21 C 485 ASP HIS GLY ARG LYS THR GLY GLY ARG LEU LEU MET PHE SEQRES 22 C 485 GLY VAL GLY VAL ILE VAL ILE GLY VAL MET LEU SER ILE SEQRES 23 C 485 PHE GLN GLN PHE VAL GLY ILE ASN VAL VAL LEU TYR TYR SEQRES 24 C 485 ALA PRO GLU VAL PHE LYS THR LEU GLY ALA SER THR ASP SEQRES 25 C 485 ILE ALA LEU LEU GLN THR ILE ILE VAL GLY VAL ILE ASN SEQRES 26 C 485 LEU THR PHE THR VAL LEU ALA ILE MET THR VAL ASP LYS SEQRES 27 C 485 PHE GLY ARG LYS PRO LEU GLN ILE ILE GLY ALA LEU GLY SEQRES 28 C 485 MET ALA ILE GLY MET PHE SER LEU GLY THR ALA PHE TYR SEQRES 29 C 485 THR GLN ALA PRO GLY ILE VAL ALA LEU LEU SER MET LEU SEQRES 30 C 485 PHE TYR VAL ALA ALA PHE ALA MET SER TRP GLY PRO VAL SEQRES 31 C 485 CYS TRP VAL LEU LEU SER GLU ILE PHE PRO ASN ALA ILE SEQRES 32 C 485 ARG GLY LYS ALA LEU ALA ILE ALA VAL ALA ALA GLN TRP SEQRES 33 C 485 LEU ALA ASN TYR PHE VAL SER TRP THR PHE PRO MET MET SEQRES 34 C 485 ASP LYS ASN SER TRP LEU VAL ALA HIS PHE HIS ASN GLY SEQRES 35 C 485 PHE SER TYR TRP ILE TYR GLY CYS MET GLY VAL LEU ALA SEQRES 36 C 485 ALA LEU PHE MET TRP LYS PHE VAL PRO GLU THR LYS GLY SEQRES 37 C 485 LYS THR LEU GLU GLU LEU GLU ALA LEU TRP GLU PRO GLU SEQRES 38 C 485 THR LYS LYS THR HET CD A 501 1 HETNAM CD CADMIUM ION FORMUL 4 CD CD 2+ HELIX 1 1 TYR A 9 THR A 18 1 10 HELIX 2 2 THR A 18 VAL A 30 1 13 HELIX 3 3 ILE A 31 GLY A 33 5 3 HELIX 4 4 THR A 34 VAL A 43 1 10 HELIX 5 5 ALA A 53 VAL A 61 1 9 HELIX 6 6 ALA A 62 LEU A 65 5 4 HELIX 7 7 ILE A 66 LEU A 74 1 9 HELIX 8 8 GLY A 76 PHE A 82 1 7 HELIX 9 9 ASP A 86 SER A 102 1 17 HELIX 10 10 PRO A 119 GLY A 124 5 6 HELIX 11 11 TYR A 125 ALA A 155 1 31 HELIX 12 12 ILE A 159 ILE A 185 1 27 HELIX 13 13 SER A 192 ASP A 197 1 6 HELIX 14 14 TRP A 199 ALA A 204 1 6 HELIX 15 15 GLU A 206 LEU A 217 1 12 HELIX 16 16 GLU A 234 LYS A 242 1 9 HELIX 17 17 THR A 247 GLY A 263 1 17 HELIX 18 18 GLY A 274 VAL A 291 1 18 HELIX 19 19 ILE A 293 TYR A 299 1 7 HELIX 20 20 GLN A 317 VAL A 336 1 20 HELIX 21 21 LYS A 342 THR A 365 1 24 HELIX 22 22 ILE A 370 ALA A 384 1 15 HELIX 23 23 CYS A 391 PHE A 399 1 9 HELIX 24 24 GLY A 405 PHE A 426 1 22 HELIX 25 25 GLY A 442 MET A 459 1 18 HELIX 26 26 LEU A 474 TRP A 478 5 5 HELIX 27 27 ILE B 10 THR B 18 1 9 HELIX 28 28 THR B 18 VAL B 30 1 13 HELIX 29 29 ILE B 31 GLY B 33 5 3 HELIX 30 30 THR B 34 VAL B 43 1 10 HELIX 31 31 ALA B 53 VAL B 61 1 9 HELIX 32 32 ALA B 62 LEU B 65 5 4 HELIX 33 33 ILE B 66 LEU B 74 1 9 HELIX 34 34 GLY B 76 PHE B 82 1 7 HELIX 35 35 ASP B 86 SER B 102 1 17 HELIX 36 36 PRO B 119 GLY B 124 5 6 HELIX 37 37 TYR B 125 ALA B 155 1 31 HELIX 38 38 ILE B 159 ILE B 185 1 27 HELIX 39 39 SER B 192 ASP B 197 1 6 HELIX 40 40 TRP B 199 ALA B 204 1 6 HELIX 41 41 GLU B 206 LEU B 216 1 11 HELIX 42 42 GLU B 234 LYS B 242 1 9 HELIX 43 43 THR B 247 GLY B 263 1 17 HELIX 44 44 GLY B 274 VAL B 291 1 18 HELIX 45 45 ILE B 293 TYR B 299 1 7 HELIX 46 46 GLN B 317 PHE B 339 1 23 HELIX 47 47 LYS B 342 THR B 365 1 24 HELIX 48 48 ILE B 370 ALA B 384 1 15 HELIX 49 49 CYS B 391 PHE B 399 1 9 HELIX 50 50 GLY B 405 PHE B 426 1 22 HELIX 51 51 GLY B 442 MET B 459 1 18 HELIX 52 52 LEU B 474 TRP B 478 5 5 HELIX 53 53 ILE C 10 THR C 18 1 9 HELIX 54 54 THR C 18 VAL C 30 1 13 HELIX 55 55 ILE C 31 GLY C 33 5 3 HELIX 56 56 THR C 34 VAL C 43 1 10 HELIX 57 57 ALA C 53 VAL C 61 1 9 HELIX 58 58 ALA C 62 LEU C 65 5 4 HELIX 59 59 ILE C 66 LEU C 74 1 9 HELIX 60 60 GLY C 76 PHE C 82 1 7 HELIX 61 61 ASP C 86 SER C 102 1 17 HELIX 62 62 PRO C 119 GLY C 124 5 6 HELIX 63 63 TYR C 125 ALA C 155 1 31 HELIX 64 64 ILE C 159 ILE C 185 1 27 HELIX 65 65 SER C 192 ASP C 197 1 6 HELIX 66 66 TRP C 199 ALA C 204 1 6 HELIX 67 67 GLU C 206 LEU C 216 1 11 HELIX 68 68 GLU C 234 LYS C 242 1 9 HELIX 69 69 THR C 247 GLY C 263 1 17 HELIX 70 70 GLY C 274 VAL C 291 1 18 HELIX 71 71 ILE C 293 TYR C 299 1 7 HELIX 72 72 GLN C 317 VAL C 336 1 20 HELIX 73 73 LYS C 342 THR C 365 1 24 HELIX 74 74 ILE C 370 ALA C 384 1 15 HELIX 75 75 CYS C 391 PHE C 399 1 9 HELIX 76 76 GLY C 405 PHE C 426 1 22 HELIX 77 77 GLY C 442 MET C 459 1 18 HELIX 78 78 LEU C 474 TRP C 478 5 5 LINK NE2 HIS A 258 CD CD A 501 1555 1555 2.52 LINK NE2 HIS A 262 CD CD A 501 1555 1555 2.51 LINK CD CD A 501 NE2 HIS B 258 1555 1555 2.54 LINK CD CD A 501 NE2 HIS B 262 1555 1555 2.51 LINK CD CD A 501 NE2 HIS C 258 1555 1555 2.53 LINK CD CD A 501 NE2 HIS C 262 1555 1555 2.51 CISPEP 1 LEU A 227 MET A 228 0 1.55 CISPEP 2 LYS A 431 ASN A 432 0 3.25 CISPEP 3 LEU B 227 MET B 228 0 1.69 CISPEP 4 LYS B 431 ASN B 432 0 3.40 CISPEP 5 LEU C 227 MET C 228 0 1.74 SITE 1 AC1 6 HIS A 258 HIS A 262 HIS B 258 HIS B 262 SITE 2 AC1 6 HIS C 258 HIS C 262 CRYST1 125.820 125.820 380.680 90.00 90.00 120.00 P 61 18 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 0.007948 0.004589 0.000000 0.00000 SCALE2 0.000000 0.009177 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002627 0.00000