10 20 30 40 50 60 70 80 1YZC - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ELECTRON TRANSPORT 28-FEB-05 1YZC
TITLE THE SOLUTION STRUCTURE OF A REDESIGNED APOCYTOCHROME B562 TITLE 2 (RD-APOCYT B562) WITH THE N- AND A PART OF THE C-TERMINAL TITLE 3 HELICES UNFOLDED
COMPND MOL_ID: 1; COMPND 2 MOLECULE: EDESIGNED APO-CYTOCHROME B562; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PLYSS CELLS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: ET17B
KEYWDS FOLDING INTERMEDIATES, NATIVE-STATE HYDROGEN EXCHANGE, KEYWDS 2 PROTEIN ENGINEERING, PROTEIN STRUCTURE, NMR, STRUCTURAL KEYWDS 3 GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE, BERKELEY KEYWDS 4 STRUCTURAL GENOMICS CENTER, BSGC, ELECTRON TRANSPORT
EXPDTA SOLUTION NMR
NUMMDL 10
AUTHOR H.FENG,Z.ZHOU,Y.BAI,BERKELEY STRUCTURAL GENOMICS CENTER AUTHOR 2 (BSGC)
REVDAT 2 24-FEB-09 1YZC 1 VERSN REVDAT 1 28-MAR-06 1YZC 0
JRNL AUTH H.FENG,Z.ZHOU,Y.BAI JRNL TITL A PROTEIN FOLDING PATHWAY WITH MULTIPLE FOLDING JRNL TITL 2 INTERMEDIATES AT ATOMIC RESOLUTION JRNL REF PROC.NATL.ACAD.SCI.USA V. 102 5026 2005 JRNL REFN ISSN 0027-8424 JRNL PMID 15793003 JRNL DOI 10.1073/PNAS.0501372102
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH-2.9 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1YZC COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-MAR-05. REMARK 100 THE RCSB ID CODE IS RCSB032101.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.84 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50MM SODIUM ACETATE; 92.5% REMARK 210 H2O, 7.5% D2O; 50MM SODIUM REMARK 210 ACETATE; 99% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D HSQC, 3D_15N-SEPARATED_ REMARK 210 NOESY, 3D_13C-SEPARATED_NOESY, REMARK 210 HNHA, 3D HNCACB, 3D CBCACONH, REMARK 210 3D HAHBCONH, 3D HNCO, 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 5.0.4, X-PLOR NIH-2.9 REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING MOLECULAR DYNAMICS REMARK 210 MATRIX RELAXATION TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 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 3 -80.42 -89.84 REMARK 500 1 GLU A 4 -157.21 59.99 REMARK 500 1 ASP A 5 23.89 49.87 REMARK 500 1 ASP A 7 -37.44 -150.62 REMARK 500 1 THR A 9 34.23 -89.12 REMARK 500 1 ASN A 13 -33.56 -156.12 REMARK 500 1 LYS A 15 -81.34 -156.98 REMARK 500 1 LYS A 19 -85.40 47.18 REMARK 500 1 ASP A 21 -83.57 -85.65 REMARK 500 1 ASN A 22 95.61 -161.87 REMARK 500 1 ALA A 23 -23.34 79.21 REMARK 500 1 GLN A 41 -148.65 -69.41 REMARK 500 1 ALA A 43 -51.82 -141.89 REMARK 500 1 PRO A 45 97.47 -33.27 REMARK 500 1 LYS A 47 25.27 -148.89 REMARK 500 1 LEU A 48 -91.94 -73.30 REMARK 500 1 GLU A 49 26.45 44.67 REMARK 500 1 ASP A 50 26.86 -172.35 REMARK 500 1 LYS A 51 -61.35 -146.62 REMARK 500 1 SER A 52 -174.20 55.20 REMARK 500 1 PRO A 53 58.65 -59.14 REMARK 500 1 SER A 55 -172.46 82.03 REMARK 500 1 PRO A 56 2.55 -53.63 REMARK 500 1 LYS A 83 -162.30 -78.61 REMARK 500 1 THR A 97 -78.97 -87.18 REMARK 500 1 ALA A 100 -62.00 -162.91 REMARK 500 1 ASN A 102 -40.70 65.86 REMARK 500 1 GLN A 103 -152.05 -97.66 REMARK 500 1 LYS A 104 120.01 52.80 REMARK 500 2 GLU A 4 -70.15 -85.08 REMARK 500 2 ASN A 6 43.30 -146.63 REMARK 500 2 GLU A 8 -16.48 58.82 REMARK 500 2 THR A 9 25.39 38.48 REMARK 500 2 ASN A 13 -6.43 60.53 REMARK 500 2 GLU A 18 17.32 -147.75 REMARK 500 2 LYS A 19 -88.83 53.41 REMARK 500 2 ALA A 20 88.79 52.01 REMARK 500 2 ASP A 21 -56.87 -148.55 REMARK 500 2 ASN A 22 65.18 -155.28 REMARK 500 2 ALA A 23 -3.17 65.37 REMARK 500 2 GLN A 41 -137.30 -73.73 REMARK 500 2 ALA A 43 -52.02 -139.18 REMARK 500 2 PRO A 45 88.28 -25.76 REMARK 500 2 PRO A 46 -62.42 -90.92 REMARK 500 2 ASP A 50 51.04 -170.26 REMARK 500 2 LYS A 51 -65.54 -140.87 REMARK 500 2 SER A 52 -174.48 52.72 REMARK 500 2 PRO A 53 49.64 -58.22 REMARK 500 2 ASP A 54 -74.73 -107.80 REMARK 500 2 PRO A 56 -0.05 -57.61 REMARK 500 2 THR A 97 -90.57 -93.56 REMARK 500 2 ARG A 99 -64.30 70.45 REMARK 500 2 ALA A 100 -25.03 81.12 REMARK 500 2 ASN A 102 -140.54 -150.62 REMARK 500 2 GLN A 103 -69.10 -141.06 REMARK 500 3 GLU A 4 -79.13 -78.28 REMARK 500 3 ASN A 6 -137.49 -144.11 REMARK 500 3 ASP A 7 25.88 -143.54 REMARK 500 3 GLU A 8 23.76 47.70 REMARK 500 3 ASN A 11 -141.96 -84.15 REMARK 500 3 ASN A 13 21.30 -155.89 REMARK 500 3 GLU A 18 15.87 59.17 REMARK 500 3 LYS A 19 103.84 46.91 REMARK 500 3 ASP A 21 -47.80 -150.49 REMARK 500 3 ASN A 22 -74.68 -160.55 REMARK 500 3 GLN A 41 -150.69 -69.10 REMARK 500 3 LYS A 42 54.42 -67.02 REMARK 500 3 ALA A 43 -49.13 -142.73 REMARK 500 3 PRO A 45 94.35 -30.15 REMARK 500 3 PRO A 46 -76.22 -80.67 REMARK 500 3 GLU A 49 -2.49 -146.37 REMARK 500 3 ASP A 50 58.89 -175.36 REMARK 500 3 LYS A 51 -60.33 -148.16 REMARK 500 3 SER A 52 -175.33 55.40 REMARK 500 3 PRO A 53 44.14 -63.41 REMARK 500 3 PRO A 56 -1.42 -52.23 REMARK 500 3 ASN A 80 -70.31 -60.29 REMARK 500 3 ARG A 99 159.82 57.56 REMARK 500 3 GLN A 103 -50.63 -144.51 REMARK 500 3 LYS A 104 -75.65 -81.15 REMARK 500 4 ASP A 2 24.48 -169.38 REMARK 500 4 GLU A 4 174.31 52.73 REMARK 500 4 ASP A 7 52.06 -95.12 REMARK 500 4 GLU A 8 0.75 55.29 REMARK 500 4 ASN A 11 -68.77 51.68 REMARK 500 4 LYS A 15 5.40 52.69 REMARK 500 4 LYS A 19 -85.37 -74.04 REMARK 500 4 ASN A 22 -70.95 76.00 REMARK 500 4 GLN A 41 -150.09 -69.45 REMARK 500 4 LYS A 42 53.83 -69.29 REMARK 500 4 ALA A 43 -52.18 -135.41 REMARK 500 4 PRO A 45 97.33 -36.32 REMARK 500 4 LYS A 51 -44.07 -145.71 REMARK 500 4 SER A 52 -172.89 61.24 REMARK 500 4 PRO A 53 49.93 -59.18 REMARK 500 4 SER A 55 -173.57 81.43 REMARK 500 4 PRO A 56 10.94 -53.07 REMARK 500 4 ASN A 80 -71.22 -61.84 REMARK 500 4 GLU A 81 7.90 -68.61 REMARK 500 4 ASN A 102 -71.54 60.54 REMARK 500 4 LYS A 104 -90.77 -156.08 REMARK 500 5 LEU A 3 -78.27 -86.61 REMARK 500 5 GLU A 4 107.19 55.25 REMARK 500 5 ASP A 5 99.05 45.21 REMARK 500 5 THR A 9 37.29 -89.82 REMARK 500 5 ASN A 11 -78.56 43.00 REMARK 500 5 LYS A 15 3.74 57.38 REMARK 500 5 LYS A 19 -81.51 56.33 REMARK 500 5 ALA A 20 -22.09 74.98 REMARK 500 5 ASP A 21 5.54 47.58 REMARK 500 5 ASN A 22 -54.82 60.29 REMARK 500 5 ALA A 43 -49.58 -136.03 REMARK 500 5 PRO A 45 87.49 -27.22 REMARK 500 5 PRO A 46 -70.76 -91.74 REMARK 500 5 ASP A 50 48.29 90.60 REMARK 500 5 SER A 52 -171.18 47.54 REMARK 500 5 PRO A 53 36.09 -59.78 REMARK 500 5 SER A 55 -173.37 85.21 REMARK 500 5 PRO A 56 -0.83 -54.86 REMARK 500 5 ASN A 80 -71.43 -59.29 REMARK 500 5 THR A 97 -94.10 -88.72 REMARK 500 5 ARG A 99 -175.73 54.24 REMARK 500 5 ALA A 100 -55.36 -161.04 REMARK 500 5 ASN A 102 22.11 46.60 REMARK 500 6 LEU A 3 -24.31 -152.08 REMARK 500 6 GLU A 4 -179.27 56.92 REMARK 500 6 ASP A 7 39.69 -145.49 REMARK 500 6 GLU A 8 29.62 49.91 REMARK 500 6 GLU A 18 -8.80 -149.32 REMARK 500 6 LYS A 19 -158.40 34.90 REMARK 500 6 ALA A 20 59.82 -148.66 REMARK 500 6 ASN A 22 -62.70 63.89 REMARK 500 6 VAL A 26 -83.47 -64.69 REMARK 500 6 LYS A 42 52.30 38.51 REMARK 500 6 ALA A 43 -47.94 -137.74 REMARK 500 6 PRO A 45 92.34 -29.64 REMARK 500 6 ASP A 50 45.77 -172.43 REMARK 500 6 LYS A 51 -75.79 -90.23 REMARK 500 6 SER A 52 -174.49 68.47 REMARK 500 6 PRO A 53 36.12 -61.08 REMARK 500 6 PRO A 56 2.13 -56.13 REMARK 500 6 THR A 97 -41.25 -141.60 REMARK 500 6 ALA A 100 -0.46 66.04 REMARK 500 6 LYS A 104 -78.81 -88.10 REMARK 500 7 GLU A 8 -0.24 55.97 REMARK 500 7 LYS A 15 51.81 -152.17 REMARK 500 7 GLU A 18 56.00 -149.09 REMARK 500 7 ASN A 22 -1.29 79.78 REMARK 500 7 ALA A 23 -36.81 -171.69 REMARK 500 7 GLN A 41 -156.21 -64.99 REMARK 500 7 LYS A 42 41.68 -81.90 REMARK 500 7 PRO A 45 96.71 -32.52 REMARK 500 7 PRO A 46 -94.65 -82.90 REMARK 500 7 GLU A 49 38.52 -147.69 REMARK 500 7 ASP A 50 32.25 -173.49 REMARK 500 7 LYS A 51 -67.90 -148.14 REMARK 500 7 SER A 52 -173.66 51.60 REMARK 500 7 PRO A 53 41.42 -60.27 REMARK 500 7 ASP A 54 -72.68 -109.32 REMARK 500 7 SER A 55 -172.58 -69.67 REMARK 500 7 PRO A 56 27.06 -61.00 REMARK 500 7 MET A 58 31.69 -63.69 REMARK 500 7 LYS A 59 -55.08 -167.57 REMARK 500 7 LYS A 83 -168.50 -78.64 REMARK 500 7 ARG A 99 -127.78 47.36 REMARK 500 7 ALA A 100 -11.93 71.83 REMARK 500 7 ASN A 102 51.56 -150.56 REMARK 500 7 GLN A 103 -38.72 -138.93 REMARK 500 7 LYS A 104 -75.02 -87.05 REMARK 500 8 ASP A 2 174.86 53.88 REMARK 500 8 LEU A 3 -73.09 -86.63 REMARK 500 8 GLU A 4 149.63 55.83 REMARK 500 8 ASP A 5 -60.80 50.20 REMARK 500 8 ASN A 6 159.77 55.55 REMARK 500 8 ASP A 7 -38.51 -140.24 REMARK 500 8 THR A 9 23.00 44.20 REMARK 500 8 ASN A 11 6.02 52.28 REMARK 500 8 ASP A 12 26.62 -146.25 REMARK 500 8 ASN A 13 -77.41 -80.66 REMARK 500 8 GLU A 18 49.33 -148.51 REMARK 500 8 ASN A 22 107.99 57.33 REMARK 500 8 ALA A 23 -47.61 96.31 REMARK 500 8 GLN A 41 -141.66 -66.96 REMARK 500 8 PRO A 45 105.20 -46.39 REMARK 500 8 LYS A 51 -35.84 -150.81 REMARK 500 8 SER A 52 -172.73 57.88 REMARK 500 8 PRO A 53 44.74 -60.02 REMARK 500 8 SER A 55 -177.91 82.41 REMARK 500 8 PRO A 56 10.36 -55.55 REMARK 500 8 ASN A 80 -71.71 -60.32 REMARK 500 8 GLU A 81 9.50 -69.44 REMARK 500 8 LYS A 83 -162.07 -78.38 REMARK 500 8 THR A 97 -75.32 -84.69 REMARK 500 8 ARG A 99 -85.03 52.42 REMARK 500 8 ALA A 100 46.61 84.64 REMARK 500 8 ASN A 102 32.42 -88.01 REMARK 500 9 ASP A 2 98.78 55.25 REMARK 500 9 LEU A 3 -78.68 -149.55 REMARK 500 9 GLU A 4 -149.78 43.57 REMARK 500 9 ASP A 5 7.28 50.19 REMARK 500 9 ASN A 11 24.20 45.56 REMARK 500 9 ASN A 13 18.57 -160.29 REMARK 500 9 LYS A 15 25.75 39.47 REMARK 500 9 LYS A 19 170.20 53.02 REMARK 500 9 ASN A 22 103.49 59.71 REMARK 500 9 ALA A 23 -36.71 97.21 REMARK 500 9 GLN A 41 -144.17 -71.79 REMARK 500 9 ALA A 43 -43.41 -144.33 REMARK 500 9 THR A 44 51.53 -140.77 REMARK 500 9 PRO A 45 93.66 -29.41 REMARK 500 9 PRO A 46 -96.35 -86.83 REMARK 500 9 GLU A 49 39.79 -149.40 REMARK 500 9 ASP A 50 28.08 -172.35 REMARK 500 9 LYS A 51 -55.05 -130.91 REMARK 500 9 SER A 52 -174.30 52.04 REMARK 500 9 PRO A 53 54.95 -59.64 REMARK 500 9 SER A 55 -46.84 106.83 REMARK 500 9 MET A 58 -45.69 178.97 REMARK 500 9 GLU A 81 9.23 -69.86 REMARK 500 9 LYS A 83 -166.99 -75.73 REMARK 500 9 THR A 97 -85.61 -95.66 REMARK 500 9 ALA A 100 24.46 -160.48 REMARK 500 9 GLN A 103 -136.97 -109.47 REMARK 500 9 LYS A 104 -41.58 61.16 REMARK 500 10 ASP A 2 -177.59 43.16 REMARK 500 10 ASP A 5 -137.36 -158.25 REMARK 500 10 ASP A 7 -118.08 -148.08 REMARK 500 10 ASN A 11 -136.99 -87.76 REMARK 500 10 ASN A 13 72.23 -156.53 REMARK 500 10 LYS A 15 24.70 -77.31 REMARK 500 10 GLU A 18 11.35 -147.90 REMARK 500 10 LYS A 19 -81.11 -72.90 REMARK 500 10 ASN A 22 104.40 52.18 REMARK 500 10 ALA A 23 -49.09 94.07 REMARK 500 10 ALA A 43 -42.41 -134.58 REMARK 500 10 PRO A 45 91.87 -29.17 REMARK 500 10 ASP A 50 10.75 -172.16 REMARK 500 10 LYS A 51 -66.55 -97.85 REMARK 500 10 SER A 52 -174.61 54.73 REMARK 500 10 PRO A 53 35.80 -60.55 REMARK 500 10 ASP A 54 -79.72 -86.16 REMARK 500 10 PRO A 56 5.08 -56.38 REMARK 500 10 GLU A 81 11.43 -69.01 REMARK 500 10 LYS A 83 -161.37 -77.36 REMARK 500 10 THR A 97 -80.73 -87.49 REMARK 500 10 ALA A 100 18.25 -154.95 REMARK 500 10 GLN A 103 -137.94 -120.57 REMARK 500 10 LYS A 104 -34.43 63.60 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YZA RELATED DB: PDB REMARK 900 REDESIGNED APOCYTOCHROME B562 (RD-APOCYT B562) WITH THE N- REMARK 900 TERMINAL HELIX UNFOLDED
DBREF 1YZC A 1 106 PDB 1YZC 1YZC 1 106
SEQRES 1 A 106 ALA ASP LEU GLU ASP ASN ASP GLU THR GLY ASN ASP ASN SEQRES 2 A 106 GLY LYS GLY GLY GLU LYS ALA ASP ASN ALA ALA GLN VAL SEQRES 3 A 106 LYS ASP ALA LEU THR LYS MET ARG ALA ALA ALA LEU ASP SEQRES 4 A 106 ALA GLN LYS ALA THR PRO PRO LYS LEU GLU ASP LYS SER SEQRES 5 A 106 PRO ASP SER PRO GLU MET LYS ASP PHE ARG HIS GLY PHE SEQRES 6 A 106 ASP ILE LEU VAL GLY GLN ILE ASP ASP ALA LEU LYS LEU SEQRES 7 A 106 ALA ASN GLU GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA SEQRES 8 A 106 GLU GLN LEU LYS THR THR GLY ARG ALA GLY ASN GLN LYS SEQRES 9 A 106 GLY GLY
HELIX 1 1 ALA A 23 GLN A 41 1 19 HELIX 2 2 PRO A 56 GLY A 82 1 27 HELIX 3 3 LYS A 83 GLY A 98 1 16
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