HEADER CHAPERONE 27-JAN-15 2MYJ TITLE SOLUTION STRUCTURE OF A BACTERIAL CHAPERONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACID STRESS CHAPERONE HDEB; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 10K-L PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: HDEB, YHHD, YHIC, B3509, JW5669; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-28A(+) KEYWDS CHAPERONE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.JIN,Y.HU,J.DING REVDAT 1 06-JAN-16 2MYJ 0 JRNL AUTH J.DING,C.YANG,X.NIU,Y.HU,C.JIN JRNL TITL HDEB CHAPERONE ACTIVITY IS COUPLED TO ITS INTRINSIC DYNAMIC JRNL TITL 2 PROPERTIES. JRNL REF SCI REP V. 5 16856 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 26593705 JRNL DOI 10.1038/SREP16856 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MYJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-15. REMARK 100 THE RCSB ID CODE IS RCSB104199. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 0.17 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM [U-13C; U-15N] PROTEIN, 50 REMARK 210 MM SODIUM PHOSPHATE, 45 MM CITRIC REMARK 210 ACID, 90% H2O/10% D2O; 2 MM [U- REMARK 210 15N] PROTEIN, 50 MM SODIUM REMARK 210 PHOSPHATE, 45 MM CITRIC ACID, 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 AROMATIC; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB; 3D HN(CO) REMARK 210 CA; 3D HNCO; 3D HCCH-COSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY; 3D 1H REMARK 210 -13C NOESY AROMATIC; 3D (H)CCH- REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 700 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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: DIMERIC 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 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 1 TRP A 26 CB - CG - CD2 ANGL. DEV. = 7.8 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 1 SER A 4 93.16 97.07 REMARK 500 1 GLU A 32 17.91 52.58 REMARK 500 1 TYR A 35 120.34 71.60 REMARK 500 1 VAL A 41 2.06 -67.00 REMARK 500 1 ASN A 75 -96.29 52.56 REMARK 500 1 ASP A 76 -31.71 -168.75 REMARK 500 1 ASN B 81 66.65 68.02 REMARK 500 1 GLU B 111 2.14 -63.10 REMARK 500 1 SER B 153 30.77 -84.97 REMARK 500 1 ASP B 155 44.44 -84.88 REMARK 500 2 GLU A 31 163.57 65.57 REMARK 500 2 SER A 74 -41.55 62.62 REMARK 500 2 ASN A 75 167.00 66.96 REMARK 500 2 ASP A 76 22.39 -72.34 REMARK 500 2 SER B 83 99.74 97.63 REMARK 500 2 GLU B 110 -1.30 57.95 REMARK 500 2 GLU B 111 -67.90 62.42 REMARK 500 2 THR B 112 46.18 38.15 REMARK 500 2 VAL B 113 -1.14 52.74 REMARK 500 2 LYS B 115 123.91 -38.60 REMARK 500 2 THR B 119 43.60 -77.34 REMARK 500 3 ASN A 2 113.07 -165.94 REMARK 500 3 GLU A 3 -166.07 -166.28 REMARK 500 3 HIS A 30 -35.80 -134.36 REMARK 500 3 GLU A 31 168.59 63.06 REMARK 500 3 GLU A 32 35.69 -76.34 REMARK 500 3 THR A 40 48.79 -76.99 REMARK 500 3 ASN A 75 179.76 58.98 REMARK 500 3 GLU B 110 156.75 59.52 REMARK 500 3 VAL B 120 96.54 -41.80 REMARK 500 4 SER A 4 100.46 101.92 REMARK 500 4 GLU A 31 170.67 62.38 REMARK 500 4 THR A 33 14.81 -65.79 REMARK 500 4 VAL A 34 127.68 61.61 REMARK 500 4 ASN A 75 172.55 61.66 REMARK 500 4 ASP A 76 42.15 -80.23 REMARK 500 4 SER B 83 78.91 117.99 REMARK 500 4 GLU B 110 142.62 70.48 REMARK 500 4 THR B 119 33.72 -71.47 REMARK 500 4 ASP B 155 -6.60 59.39 REMARK 500 5 SER A 4 99.76 90.69 REMARK 500 5 GLU A 31 -179.53 57.08 REMARK 500 5 GLU A 32 41.67 -73.62 REMARK 500 5 THR A 40 44.75 -78.71 REMARK 500 5 VAL A 41 14.53 -68.63 REMARK 500 5 ASN B 81 -64.68 65.73 REMARK 500 5 GLU B 82 -26.23 58.57 REMARK 500 5 SER B 83 79.80 107.48 REMARK 500 5 GLU B 110 166.42 64.37 REMARK 500 5 GLU B 111 20.94 -70.43 REMARK 500 REMARK 500 THIS ENTRY HAS 215 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 9 LEU B 122 25.0 L L OUTSIDE RANGE REMARK 500 11 VAL A 41 24.4 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25454 RELATED DB: BMRB DBREF 2MYJ A 1 79 UNP P0AET2 HDEB_ECOLI 30 108 DBREF 2MYJ B 80 158 UNP P0AET2 HDEB_ECOLI 30 108 SEQRES 1 A 79 ALA ASN GLU SER ALA LYS ASP MET THR CYS GLN GLU PHE SEQRES 2 A 79 ILE ASP LEU ASN PRO LYS ALA MET THR PRO VAL ALA TRP SEQRES 3 A 79 TRP MET LEU HIS GLU GLU THR VAL TYR LYS GLY GLY ASP SEQRES 4 A 79 THR VAL THR LEU ASN GLU THR ASP LEU THR GLN ILE PRO SEQRES 5 A 79 LYS VAL ILE GLU TYR CYS LYS LYS ASN PRO GLN LYS ASN SEQRES 6 A 79 LEU TYR THR PHE LYS ASN GLN ALA SER ASN ASP LEU PRO SEQRES 7 A 79 ASN SEQRES 1 B 79 ALA ASN GLU SER ALA LYS ASP MET THR CYS GLN GLU PHE SEQRES 2 B 79 ILE ASP LEU ASN PRO LYS ALA MET THR PRO VAL ALA TRP SEQRES 3 B 79 TRP MET LEU HIS GLU GLU THR VAL TYR LYS GLY GLY ASP SEQRES 4 B 79 THR VAL THR LEU ASN GLU THR ASP LEU THR GLN ILE PRO SEQRES 5 B 79 LYS VAL ILE GLU TYR CYS LYS LYS ASN PRO GLN LYS ASN SEQRES 6 B 79 LEU TYR THR PHE LYS ASN GLN ALA SER ASN ASP LEU PRO SEQRES 7 B 79 ASN HELIX 1 1 SER A 4 MET A 8 5 5 HELIX 2 2 THR A 9 ILE A 14 1 6 HELIX 3 3 ASN A 17 HIS A 30 1 14 HELIX 4 4 ASN A 44 ASN A 61 1 18 HELIX 5 5 LEU A 66 ASN A 71 5 6 HELIX 6 6 SER B 83 MET B 87 5 5 HELIX 7 7 THR B 88 ILE B 93 1 6 HELIX 8 8 ASN B 96 HIS B 109 1 14 HELIX 9 9 ASN B 123 ASN B 140 1 18 HELIX 10 10 ASN B 144 ASN B 150 5 7 SSBOND 1 CYS A 10 CYS A 58 1555 1555 2.05 SSBOND 2 CYS B 89 CYS B 137 1555 1555 2.05 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