HEADER UNKNOWN FUNCTION 13-APR-12 2LRV TITLE ASSIGNMENT OF E COLI PERIPLASMIC PROTEIN YMGD COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN YMGD; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 20-109; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: YMGD, B1171, JW5177; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET21C KEYWDS UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.WU,M.INOUYE,J.BAUM,S.HSU,H.MASUDA REVDAT 2 14-JUN-23 2LRV 1 REMARK REVDAT 1 17-APR-13 2LRV 0 JRNL AUTH K.WU,H.MASUDA,S.D.HSU,J.BAUM,M.INOUYE JRNL TITL SOLUTION STRUCTURE OF HOMODIMERIC PERIPLASMIC PROTEIN YMGD JRNL TITL 2 IN E. COLI JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, XPLOR-NIH REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), SCHWIETERS, KUSZEWSKI, TJANDRA AND REMARK 3 CLORE (XPLOR-NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NOE, DIHEDRAL ANGLES, RDC AND SYMMETRY REMARK 3 RESTRAINTS, EXPLICIT SOLVENT REFINEMENT AND FULL ELECTROSTATICS REMARK 4 REMARK 4 2LRV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000102755. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-99% 13C; U-99% 15N] REMARK 210 YMGD, 90 % H2O, 10 % D2O, 100 MM REMARK 210 SODIUM ACETATE, 50 MM NACL, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC ALIPHATIC; 3D REMARK 210 HNCO; 3D HN(CA)CO; 3D C(CO)NH; REMARK 210 3D HNCACB; 3D H(CCO)NH; 3D HCCH- REMARK 210 TOCSY; 3D CBCA(CO)NH; 3D 1H-15N REMARK 210 NOESY; 3D 1H-15N TOCSY; 3D 1H- REMARK 210 13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLN A 1 REMARK 465 ASP A 2 REMARK 465 TYR A 3 REMARK 465 ASN A 4 REMARK 465 ILE A 5 REMARK 465 LYS A 6 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 LEU A 48 -7.34 73.33 REMARK 500 4 ALA A 44 -9.60 -58.73 REMARK 500 4 ASP A 47 67.20 -111.25 REMARK 500 4 LEU A 48 -5.04 -58.91 REMARK 500 5 LEU A 48 -17.39 76.87 REMARK 500 6 THR A 26 -37.08 -130.21 REMARK 500 6 ASP A 27 50.63 -119.37 REMARK 500 6 LEU A 48 -7.85 77.07 REMARK 500 6 GLN A 52 8.85 58.94 REMARK 500 7 LEU A 48 -32.10 73.18 REMARK 500 8 THR A 26 -38.76 -131.60 REMARK 500 8 ASP A 27 47.22 -109.73 REMARK 500 9 ASP A 47 -60.50 -94.19 REMARK 500 10 ASP A 47 -34.69 -136.93 REMARK 500 10 LEU A 48 -40.25 74.17 REMARK 500 11 LEU A 48 -19.29 70.67 REMARK 500 12 LEU A 48 -0.50 69.94 REMARK 500 13 LEU A 48 -8.00 74.82 REMARK 500 14 LEU A 48 -40.06 69.27 REMARK 500 15 LEU A 48 -30.27 73.31 REMARK 500 17 LEU A 48 -57.98 70.65 REMARK 500 17 LYS A 49 32.40 -81.63 REMARK 500 18 ASP A 71 111.72 -164.22 REMARK 500 20 GLN A 52 89.75 -68.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18283 RELATED DB: BMRB DBREF 2LRV A 1 90 UNP P0AB46 YMGD_ECOLI 20 109 SEQRES 1 A 90 GLN ASP TYR ASN ILE LYS ASN GLY LEU PRO SER GLU THR SEQRES 2 A 90 TYR ILE THR CYS ALA GLU ALA ASN GLU MET ALA LYS THR SEQRES 3 A 90 ASP SER ALA GLN VAL ALA GLU ILE VAL ALA VAL MET GLY SEQRES 4 A 90 ASN ALA SER VAL ALA SER ARG ASP LEU LYS ILE GLU GLN SEQRES 5 A 90 SER PRO GLU LEU SER ALA LYS VAL VAL GLU LYS LEU ASN SEQRES 6 A 90 GLN VAL CYS ALA LYS ASP PRO GLN MET LEU LEU ILE THR SEQRES 7 A 90 ALA ILE ASP ASP THR MET ARG ALA ILE GLY LYS LYS HELIX 1 1 PRO A 10 ILE A 15 1 6 HELIX 2 2 THR A 16 LYS A 25 1 10 HELIX 3 3 ASP A 27 ASP A 47 1 21 HELIX 4 4 SER A 53 ASP A 71 1 19 HELIX 5 5 LEU A 75 ILE A 87 1 13 SSBOND 1 CYS A 17 CYS A 68 1555 1555 2.02 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