HEADER HYDROLASE, SUGAR BINDING PROTEIN 12-JUL-12 2LVX TITLE MRH DOMAIN OF THE GLUCOSIDASE II BETA SUBUNIT FROM S. POMBE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSIDASE 2 SUBUNIT BETA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 380-473; COMPND 5 SYNONYM: ALPHA-GLUCOSIDASE 2 SUBUNIT BETA; COMPND 6 EC: 3.2.1.84; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE; SOURCE 3 ORGANISM_COMMON: FISSION YEAST; SOURCE 4 ORGANISM_TAXID: 284812; SOURCE 5 STRAIN: 972 / ATCC 24843; SOURCE 6 GENE: GTB1, SPCC825.02; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21[PREP4]; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PQE30-SUMO KEYWDS MRH DOMAIN, LECTIN, GLYCOBIOLOGY, PROTEIN FOLDING, HYDROLASE, SUGAR KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.M.DAHMS,L.J.OLSON,F.C.PETERSON REVDAT 5 09-OCT-24 2LVX 1 REMARK REVDAT 4 14-JUN-23 2LVX 1 REMARK REVDAT 3 17-JUL-13 2LVX 1 JRNL REVDAT 2 22-MAY-13 2LVX 1 JRNL REVDAT 1 01-MAY-13 2LVX 0 JRNL AUTH L.J.OLSON,R.ORSI,S.G.ALCULUMBRE,F.C.PETERSON,I.D.STIGLIANO, JRNL AUTH 2 A.J.PARODI,C.D'ALESSIO,N.M.DAHMS JRNL TITL STRUCTURE OF THE LECTIN MANNOSE 6-PHOSPHATE RECEPTOR JRNL TITL 2 HOMOLOGY (MRH) DOMAIN OF GLUCOSIDASE II, AN ENZYME THAT JRNL TITL 3 REGULATES GLYCOPROTEIN FOLDING QUALITY CONTROL IN THE JRNL TITL 4 ENDOPLASMIC RETICULUM. JRNL REF J.BIOL.CHEM. V. 288 16460 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23609449 JRNL DOI 10.1074/JBC.M113.450239 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.9.3, CYANA 2.1 REMARK 3 AUTHORS : REMARK 3 SCHWIETERS,C.D.,KUSZEWSKI,J.J.,TJANDRA,N.,CLORE,G.M. (XPLOR-NIH), REMARK 3 GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES ARE BASED ON A TOTAL OF 1800 REMARK 3 NOE CONSTRAINTS (338 INTRA, 465 SEQUENTIAL, 260 MEDIUM, AND 730 REMARK 3 LONG RANGE) AND 130 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. REMARK 4 REMARK 4 2LVX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000102898. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.1 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 MM [U-100% 2H] IMIDAZOLE, 150 REMARK 210 MM SODIUM CHLORIDE, 95 % H2O, 5 % REMARK 210 [U-99% 2H] D2O, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY (AROMATIC) REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, NMRPIPE 2009, XEASY REMARK 210 1.3, GARANT 2.1, CYANA 2.1 REMARK 210 METHOD USED : AUTOMATED METHODS WERE USED FOR REMARK 210 BACKBONE CHEMICAL SHIFT REMARK 210 ASSIGNMENT AND ITERATIVE NOE REMARK 210 REFINEMENT. FINAL STRUCTURES REMARK 210 WERE OBTAINED BY MOLECULAR REMARK 210 DYNAMICS IN EXPLICIT SOLVENT. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 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 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 1 GLU A 380 -85.56 -116.68 REMARK 500 1 ASP A 385 -86.44 69.15 REMARK 500 1 GLN A 435 -76.20 -126.14 REMARK 500 1 LYS A 436 -41.31 -164.95 REMARK 500 2 GLU A 364 146.97 70.72 REMARK 500 2 GLU A 380 -83.46 -136.49 REMARK 500 2 ASP A 385 -83.35 69.44 REMARK 500 2 GLN A 435 -70.26 -116.23 REMARK 500 2 LYS A 436 -24.27 -172.99 REMARK 500 3 MET A 363 -45.52 50.04 REMARK 500 3 GLU A 364 113.50 78.24 REMARK 500 3 GLU A 380 -84.32 -120.82 REMARK 500 3 ASP A 385 -83.93 69.94 REMARK 500 3 GLN A 435 -78.44 -109.27 REMARK 500 3 LYS A 436 -40.32 -160.67 REMARK 500 4 MET A 363 -27.91 -146.39 REMARK 500 4 GLU A 364 139.53 65.70 REMARK 500 4 GLU A 380 -80.80 -125.42 REMARK 500 4 ASP A 385 -70.76 72.60 REMARK 500 4 SER A 386 -0.61 -152.87 REMARK 500 4 GLN A 435 -80.01 -127.64 REMARK 500 4 LYS A 436 -36.32 -166.73 REMARK 500 5 ARG A 358 -116.62 -134.81 REMARK 500 5 GLU A 364 124.54 69.72 REMARK 500 5 GLU A 380 -84.42 -130.93 REMARK 500 5 ASP A 385 -72.93 73.23 REMARK 500 5 SER A 386 -5.15 -148.63 REMARK 500 5 GLN A 435 -75.02 -109.33 REMARK 500 5 LYS A 436 -43.02 -165.84 REMARK 500 6 GLU A 380 -84.46 -122.61 REMARK 500 6 ASP A 385 -82.34 71.52 REMARK 500 6 GLN A 435 -76.50 -98.08 REMARK 500 6 LYS A 436 -43.85 -162.89 REMARK 500 6 SER A 445 148.55 -172.10 REMARK 500 7 GLU A 380 -83.10 -126.73 REMARK 500 7 ASP A 385 -78.57 72.45 REMARK 500 7 SER A 386 -3.06 -142.06 REMARK 500 7 ASN A 426 99.12 -67.68 REMARK 500 7 GLN A 435 -84.45 -107.04 REMARK 500 7 LYS A 436 -56.53 -147.66 REMARK 500 8 GLU A 380 -82.21 -116.30 REMARK 500 8 ASP A 385 -81.47 70.43 REMARK 500 8 GLN A 435 -73.87 -116.94 REMARK 500 8 LYS A 436 -51.79 -164.23 REMARK 500 9 GLU A 380 -91.22 -117.64 REMARK 500 9 ASP A 385 -77.06 70.17 REMARK 500 9 GLN A 435 -73.85 -142.07 REMARK 500 9 LYS A 436 -49.01 -163.69 REMARK 500 10 GLU A 380 -84.49 -118.80 REMARK 500 10 ASP A 385 -83.84 69.64 REMARK 500 REMARK 500 THIS ENTRY HAS 111 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 18 ARG A 367 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18592 RELATED DB: BMRB DBREF 2LVX A 357 450 UNP Q9USH8 GLU2B_SCHPO 380 473 SEQRES 1 A 94 TYR ARG ALA ILE LYS GLY MET GLU THR LYS ARG GLU ILE SEQRES 2 A 94 GLY GLY TYR THR TYR LYS VAL VAL PHE TYR GLU ASN VAL SEQRES 3 A 94 PHE GLN ASP SER ILE LEU LEU GLY ASN PHE ALA SER GLN SEQRES 4 A 94 GLU GLY ASN VAL LEU LYS TYR GLU ASN GLY GLN SER CYS SEQRES 5 A 94 TRP ASN GLY PRO HIS ARG SER ALA ILE VAL THR VAL GLU SEQRES 6 A 94 CYS GLY VAL GLU ASN GLU ILE VAL SER VAL LEU GLU ALA SEQRES 7 A 94 GLN LYS CYS GLU TYR LEU ILE LYS MET LYS SER PRO ALA SEQRES 8 A 94 ALA CYS SER HELIX 1 1 PRO A 446 CYS A 449 5 4 SHEET 1 A 8 GLU A 364 ILE A 369 0 SHEET 2 A 8 TYR A 372 VAL A 377 -1 O TYR A 372 N ILE A 369 SHEET 3 A 8 ASN A 381 GLN A 384 -1 O PHE A 383 N LYS A 375 SHEET 4 A 8 ILE A 387 GLU A 396 -1 O ILE A 387 N GLN A 384 SHEET 5 A 8 VAL A 399 ASN A 404 -1 O GLU A 403 N ASN A 391 SHEET 6 A 8 SER A 415 CYS A 422 -1 O VAL A 418 N LEU A 400 SHEET 7 A 8 GLU A 438 SER A 445 1 O ILE A 441 N ILE A 417 SHEET 8 A 8 GLU A 427 GLU A 433 -1 N LEU A 432 O LEU A 440 SSBOND 1 CYS A 408 CYS A 437 1555 1555 2.02 SSBOND 2 CYS A 422 CYS A 449 1555 1555 2.03 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1