0.014963 0.008639 0.000000 0.000000 0.017277 0.000000 0.000000 0.000000 0.024422 0.000000 0.000000 0.000000 Ihee, H. Rajagopal, S. Srajer, V. Pahl, R. Anderson, S. Schmidt, M. Schotte, F. Anfinrud, P.A. Wulff, M. Moffat, K. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 66.833 66.833 40.947 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C9 H8 O3 164.158 4'-HYDROXYCINNAMIC ACID PARA-COUMARIC ACID non-polymer C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking US Proc.Natl.Acad.Sci.Usa PNASA6 0040 0027-8424 102 7145 7150 10.1073/pnas.0409035102 15870207 Visualizing reaction pathways in photoactive yellow protein from nanoseconds to seconds. 2005 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 288 1 LAUE L x-ray 1 1.0 14-ID-B APS SYNCHROTRON APS BEAMLINE 14-ID-B 13888.575 Photoactive yellow protein 1 man polymer 164.158 4'-HYDROXYCINNAMIC ACID 1 syn non-polymer PYP no no MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Halorhodospira Escherichia sample PYP 1053 Halorhodospira halophila 562 Escherichia coli 1.90 35.29 VAPOR DIFFUSION, HANGING DROP 7 2.6 M ammonium sulfate, 50 mM sodium phosphate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 refine software repository Initial release Version format compliance Version format compliance Other Refinement description 1 0 2005-07-05 1 1 2008-04-30 1 2 2011-07-13 1 3 2015-09-09 1 4 2017-10-11 _refine.ls_number_reflns_obs _refine.ls_percent_reflns_obs _software.name RCSB Y RCSB 2004-06-21 REL REL HC4 4'-HYDROXYCINNAMIC ACID CYS 69 2 HC4 HC4 169 A MET 1 n 1 MET 1 A GLU 2 n 2 GLU 2 A HIS 3 n 3 HIS 3 A VAL 4 n 4 VAL 4 A ALA 5 n 5 ALA 5 A PHE 6 n 6 PHE 6 A GLY 7 n 7 GLY 7 A SER 8 n 8 SER 8 A GLU 9 n 9 GLU 9 A ASP 10 n 10 ASP 10 A ILE 11 n 11 ILE 11 A GLU 12 n 12 GLU 12 A ASN 13 n 13 ASN 13 A THR 14 n 14 THR 14 A LEU 15 n 15 LEU 15 A ALA 16 n 16 ALA 16 A LYS 17 n 17 LYS 17 A MET 18 n 18 MET 18 A ASP 19 n 19 ASP 19 A ASP 20 n 20 ASP 20 A GLY 21 n 21 GLY 21 A GLN 22 n 22 GLN 22 A LEU 23 n 23 LEU 23 A ASP 24 n 24 ASP 24 A GLY 25 n 25 GLY 25 A LEU 26 n 26 LEU 26 A ALA 27 n 27 ALA 27 A PHE 28 n 28 PHE 28 A GLY 29 n 29 GLY 29 A ALA 30 n 30 ALA 30 A ILE 31 n 31 ILE 31 A GLN 32 n 32 GLN 32 A LEU 33 n 33 LEU 33 A ASP 34 n 34 ASP 34 A GLY 35 n 35 GLY 35 A ASP 36 n 36 ASP 36 A GLY 37 n 37 GLY 37 A ASN 38 n 38 ASN 38 A ILE 39 n 39 ILE 39 A LEU 40 n 40 LEU 40 A GLN 41 n 41 GLN 41 A TYR 42 n 42 TYR 42 A ASN 43 n 43 ASN 43 A ALA 44 n 44 ALA 44 A ALA 45 n 45 ALA 45 A GLU 46 n 46 GLU 46 A GLY 47 n 47 GLY 47 A ASP 48 n 48 ASP 48 A ILE 49 n 49 ILE 49 A THR 50 n 50 THR 50 A GLY 51 n 51 GLY 51 A ARG 52 n 52 ARG 52 A ASP 53 n 53 ASP 53 A PRO 54 n 54 PRO 54 A LYS 55 n 55 LYS 55 A GLN 56 n 56 GLN 56 A VAL 57 n 57 VAL 57 A ILE 58 n 58 ILE 58 A GLY 59 n 59 GLY 59 A LYS 60 n 60 LYS 60 A ASN 61 n 61 ASN 61 A PHE 62 n 62 PHE 62 A PHE 63 n 63 PHE 63 A LYS 64 n 64 LYS 64 A ASP 65 n 65 ASP 65 A VAL 66 n 66 VAL 66 A ALA 67 n 67 ALA 67 A PRO 68 n 68 PRO 68 A CYS 69 n 69 CYS 69 A THR 70 n 70 THR 70 A ASP 71 n 71 ASP 71 A SER 72 n 72 SER 72 A PRO 73 n 73 PRO 73 A GLU 74 n 74 GLU 74 A PHE 75 n 75 PHE 75 A TYR 76 n 76 TYR 76 A GLY 77 n 77 GLY 77 A LYS 78 n 78 LYS 78 A PHE 79 n 79 PHE 79 A LYS 80 n 80 LYS 80 A GLU 81 n 81 GLU 81 A GLY 82 n 82 GLY 82 A VAL 83 n 83 VAL 83 A ALA 84 n 84 ALA 84 A SER 85 n 85 SER 85 A GLY 86 n 86 GLY 86 A ASN 87 n 87 ASN 87 A LEU 88 n 88 LEU 88 A ASN 89 n 89 ASN 89 A THR 90 n 90 THR 90 A MET 91 n 91 MET 91 A PHE 92 n 92 PHE 92 A GLU 93 n 93 GLU 93 A TYR 94 n 94 TYR 94 A THR 95 n 95 THR 95 A PHE 96 n 96 PHE 96 A ASP 97 n 97 ASP 97 A TYR 98 n 98 TYR 98 A GLN 99 n 99 GLN 99 A MET 100 n 100 MET 100 A THR 101 n 101 THR 101 A PRO 102 n 102 PRO 102 A THR 103 n 103 THR 103 A LYS 104 n 104 LYS 104 A VAL 105 n 105 VAL 105 A LYS 106 n 106 LYS 106 A VAL 107 n 107 VAL 107 A HIS 108 n 108 HIS 108 A MET 109 n 109 MET 109 A LYS 110 n 110 LYS 110 A LYS 111 n 111 LYS 111 A ALA 112 n 112 ALA 112 A LEU 113 n 113 LEU 113 A SER 114 n 114 SER 114 A GLY 115 n 115 GLY 115 A ASP 116 n 116 ASP 116 A SER 117 n 117 SER 117 A TYR 118 n 118 TYR 118 A TRP 119 n 119 TRP 119 A VAL 120 n 120 VAL 120 A PHE 121 n 121 PHE 121 A VAL 122 n 122 VAL 122 A LYS 123 n 123 LYS 123 A ARG 124 n 124 ARG 124 A VAL 125 n 125 VAL 125 A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A O LEU 40 A O LEU 40 A N GLN 32 A N GLN 32 A N LEU 33 A N LEU 33 A O TYR 118 A O TYR 118 A O TRP 119 A O TRP 119 A N LYS 110 A N LYS 110 A O VAL 107 A O VAL 107 A N PHE 92 A N PHE 92 1 -6.68 0.90 118.30 111.62 A A A CB CG OD1 ASP ASP ASP 65 65 65 N 1 5.88 0.90 118.30 124.18 A A A CB CG OD2 ASP ASP ASP 65 65 65 N 1 4.30 0.70 120.80 125.10 A A A CB CG CD1 PHE PHE PHE 75 75 75 N 1 14.53 2.20 113.40 127.93 A A A CA CB CG ASN ASN ASN 87 87 87 N 1 -3.81 0.50 120.30 116.49 A A A NE CZ NH2 ARG ARG ARG 124 124 124 N 2 10.45 1.10 114.20 124.65 A A A CA CB SG CYS CYS CYS 69 69 69 N 3 A A C OXT VAL VAL 125 125 0.237 0.019 1.229 1.466 N 1 A PHE 75 -130.28 -73.62 1 A ASN 89 -160.33 95.21 1 A ASP 97 -143.43 16.45 2 A PHE 75 -128.08 -71.68 2 A ASP 97 -144.61 19.23 2 A SER 114 -60.40 -165.73 2 A ASP 116 -115.43 52.86 3 A ASP 10 -91.93 47.01 3 A LEU 26 -48.40 152.38 3 A PHE 75 -122.52 -72.62 3 A ASP 97 -142.49 19.66 3 A SER 114 -63.47 -150.01 3 A ASP 116 -108.18 49.23 0.391 0.3658 0.3704 0.3704 1.6 30 1318 13891 13891 1 0 Difference Fourier 1.6 30 0 987 11 0 976 1.6 30 1TS7 13891 13891 1 100 data reduction LaueView refinement SHELXL-97 data scaling LaueView Photoactive yellow protein Structure of the pR cis wobble and pR E46Q intermediates from time-resolved Laue crystallography 1 N N 2 N N A ASP 10 A ASP 10 HELX_P A ALA 16 A ALA 16 1 1 7 A ASP 19 A ASP 19 HELX_P A ASP 24 A ASP 24 1 2 6 A ASN 43 A ASN 43 HELX_P A GLY 51 A GLY 51 1 3 9 A ASP 53 A ASP 53 HELX_P A ILE 58 A ILE 58 1 4 6 A ALA 67 A ALA 67 HELX_P A ASP 71 A ASP 71 5 5 5 A PHE 75 A PHE 75 HELX_P A GLY 86 A GLY 86 1 6 12 covale 1.775 A CYS 69 A SG CYS 69 1_555 A HC4 169 B C1 HC4 1_555 photoreceptor photoreceptor PYP_ECTHA UNP 1 1 P16113 MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV 1 125 1TS7 1 125 P16113 A 1 1 125 5 anti-parallel anti-parallel anti-parallel anti-parallel A ILE 39 A ILE 39 A TYR 42 A TYR 42 A GLY 29 A GLY 29 A ASP 34 A ASP 34 A SER 117 A SER 117 A ARG 124 A ARG 124 A THR 103 A THR 103 A LYS 111 A LYS 111 A ASN 89 A ASN 89 A PHE 96 A PHE 96 BINDING SITE FOR RESIDUE HC4 A 169 Software 9 A TYR 42 A TYR 42 9 1_555 A GLU 46 A GLU 46 9 1_555 A THR 50 A THR 50 9 1_555 A ARG 52 A ARG 52 9 1_555 A ALA 67 A ALA 67 9 1_555 A PRO 68 A PRO 68 9 1_555 A CYS 69 A CYS 69 9 1_555 A PHE 96 A PHE 96 9 1_555 A TYR 98 A TYR 98 9 1_555 173 P 63