HEADER CHAPERONE 17-DEC-08 2KC5 TITLE SOLUTION STRUCTURE OF HYBE FROM ESCHERICHIA COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYDROGENASE-2 OPERON PROTEIN HYBE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: HYBE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET21A KEYWDS CHAPERONE EXPDTA SOLUTION NMR NUMMDL 20 MDLTYP MINIMIZED AVERAGE AUTHOR C.JIN,X.SHAO,J.LU,Y.LI REVDAT 2 13-JUL-11 2KC5 1 VERSN REVDAT 1 20-OCT-09 2KC5 0 JRNL AUTH X.SHAO,J.LU,Y.HU,B.XIA,C.JIN JRNL TITL SOLUTION STRUCTURE OF THE ESCHERICHIA COLI HYBE REVEALS A JRNL TITL 2 NOVEL FOLD JRNL REF PROTEINS V. 75 1051 2009 JRNL REFN ISSN 0887-3585 JRNL PMID 19291739 JRNL DOI 10.1002/PROT.22391 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 9 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, KOLLM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KC5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-DEC-08. REMARK 100 THE RCSB ID CODE IS RCSB100937. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM [U-99% 15N] 50MM NACL, 50MM REMARK 210 PBS-1, 1MM [U-99% 13C; U-99% 15N] REMARK 210 50MM NACL, 50MM PBS-2, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D HCCH REMARK 210 -TOCSY; 3D HCCH-COSY; 3D HNCO; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, NMRPIPE, NMRVIEW, CYANA REMARK 210 2.0 REMARK 210 METHOD USED : MOLECULAR DYNAMICS 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: 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 HG SER A 11 OD1 ASP A 44 1.58 REMARK 500 REMARK 500 REMARK: NULL 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 9 TYR A 105 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 9 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 15 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -3.1 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 PRO A 12 49.38 -75.89 REMARK 500 1 HIS A 29 -169.01 63.02 REMARK 500 1 SER A 32 157.56 61.68 REMARK 500 1 THR A 46 165.14 58.52 REMARK 500 1 LEU A 47 58.30 -115.84 REMARK 500 1 SER A 103 -150.52 60.16 REMARK 500 1 ASP A 143 42.00 -142.89 REMARK 500 1 PRO A 145 159.73 -49.21 REMARK 500 2 MET A 28 -150.51 42.56 REMARK 500 2 SER A 32 -42.78 65.00 REMARK 500 2 PRO A 36 13.50 -58.79 REMARK 500 2 VAL A 40 56.58 -109.04 REMARK 500 2 THR A 46 -179.78 47.97 REMARK 500 2 GLU A 49 56.75 -147.07 REMARK 500 2 SER A 103 -156.01 59.66 REMARK 500 2 LEU A 114 81.94 -156.48 REMARK 500 3 GLU A 4 167.24 53.85 REMARK 500 3 ASP A 30 -50.57 63.55 REMARK 500 3 PHE A 33 57.06 -116.21 REMARK 500 3 LEU A 34 15.73 55.89 REMARK 500 3 THR A 46 158.33 58.46 REMARK 500 3 LEU A 47 66.04 -111.19 REMARK 500 3 PRO A 68 152.51 -44.38 REMARK 500 3 ASP A 71 89.57 -161.42 REMARK 500 3 VAL A 102 -121.87 -122.39 REMARK 500 3 PRO A 113 37.03 -82.77 REMARK 500 3 LEU A 137 77.26 64.60 REMARK 500 3 THR A 140 56.64 -114.59 REMARK 500 3 PRO A 145 177.95 -58.04 REMARK 500 4 GLU A 3 42.82 -87.88 REMARK 500 4 PRO A 12 44.65 -81.89 REMARK 500 4 ARG A 25 -100.30 -85.25 REMARK 500 4 ARG A 26 27.05 48.36 REMARK 500 4 PHE A 33 32.16 -95.34 REMARK 500 4 SER A 103 -150.09 57.39 REMARK 500 4 LEU A 135 -73.38 -81.94 REMARK 500 4 SER A 136 30.26 -147.57 REMARK 500 4 PRO A 145 -175.68 -68.17 REMARK 500 5 GLN A 9 16.32 58.90 REMARK 500 5 MET A 28 44.35 -92.18 REMARK 500 5 SER A 32 -133.11 53.54 REMARK 500 5 THR A 46 166.27 54.58 REMARK 500 5 VAL A 102 -113.23 -124.75 REMARK 500 5 PRO A 113 -71.29 -77.32 REMARK 500 5 LEU A 135 -83.80 -74.90 REMARK 500 5 SER A 136 10.36 -155.78 REMARK 500 5 HIS A 146 25.42 49.90 REMARK 500 6 PRO A 12 42.28 -80.60 REMARK 500 6 LEU A 34 -135.40 49.91 REMARK 500 6 PHE A 45 159.35 176.59 REMARK 500 REMARK 500 THIS ENTRY HAS 163 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KC5 A 1 162 UNP P0AAN1 HYBE_ECOLI 1 162 SEQRES 1 A 162 MET THR GLU GLU ILE ALA GLY PHE GLN THR SER PRO LYS SEQRES 2 A 162 ALA GLN VAL GLN ALA ALA PHE GLU GLU ILE ALA ARG ARG SEQRES 3 A 162 SER MET HIS ASP LEU SER PHE LEU HIS PRO SER MET PRO SEQRES 4 A 162 VAL TYR VAL SER ASP PHE THR LEU PHE GLU GLY GLN TRP SEQRES 5 A 162 THR GLY CYS VAL ILE THR PRO TRP MET LEU SER ALA VAL SEQRES 6 A 162 ILE PHE PRO GLY PRO ASP GLN LEU TRP PRO LEU ARG LYS SEQRES 7 A 162 VAL SER GLU LYS ILE GLY LEU GLN LEU PRO TYR GLY THR SEQRES 8 A 162 MET THR PHE THR VAL GLY GLU LEU ASP GLY VAL SER GLN SEQRES 9 A 162 TYR LEU SER CYS SER LEU MET SER PRO LEU SER HIS SER SEQRES 10 A 162 MET SER ILE GLU GLU GLY GLN ARG LEU THR ASP ASP CYS SEQRES 11 A 162 ALA ARG MET ILE LEU SER LEU PRO VAL THR ASN PRO ASP SEQRES 12 A 162 VAL PRO HIS ALA GLY ARG ARG ALA LEU LEU PHE GLY ARG SEQRES 13 A 162 ARG SER GLY GLU ASN ALA HELIX 1 1 PRO A 12 ALA A 24 1 13 HELIX 2 2 MET A 28 SER A 32 5 5 HELIX 3 3 SER A 119 SER A 136 1 18 SHEET 1 A 2 GLU A 4 ALA A 6 0 SHEET 2 A 2 LEU A 73 PRO A 75 -1 O TRP A 74 N ILE A 5 SHEET 1 B 6 TYR A 41 PHE A 48 0 SHEET 2 B 6 GLN A 51 ILE A 57 -1 O ILE A 57 N TYR A 41 SHEET 3 B 6 LEU A 62 PRO A 68 -1 O SER A 63 N VAL A 56 SHEET 4 B 6 SER A 103 MET A 111 -1 O LEU A 110 N LEU A 62 SHEET 5 B 6 MET A 92 LEU A 99 -1 N THR A 95 O SER A 107 SHEET 6 B 6 LYS A 82 LEU A 85 -1 N ILE A 83 O PHE A 94 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