From: psa@darwin.bu.edu (Protein Structure Analysis server) To: wb@darwin.bu.edu Subject: Request 14756 result (1 of 4): [Seq 23] Date: Wed, 18 Nov 1998 17:55:15 -0500 The analysis of your protein sequence has been completed. A search of the Protein Data Bank, using Blast, indicates that your sequence is similar to the proteins 1A7D (length 118), 2MHR (length 118), 1A7E (length 118), 1HRB (length 113), 2HMQA (length 113), 2HMZA (length 113), 1HMDA (length 113), and 1HMOA (length 113), which all have known structures. The following analysis results were generated without reference to these known structures or any of their known homologs. The tertiary class and secondary structure probabilities we computed for your sequence are appended below. 3 pages of additional graphical outputs, in PostScript format, are being sent to you in 3 additional e-mail messages. These files show (1) the tertiary-class probability distributions, (2) the secondary structure probability distributions in conventional xy plots, and (3) the secondary structure probability distributions in a contour plot, which is a topographic map of probability that shows additional information about amphipathicity. You may find it helpful to first look at the xy plots before interpreting the contour plot. Note that areas of high probability in the contour plot correspond to dark regions with closely spaced contour lines. The contour lines show probability increments of 0.1. If your mail reader is MIME-compliant, it may be able to preview or print these graphics for you. Otherwise, you will need to use an editor to remove the e-mail header from each PostScript message manually, in order to send the result to a PostScript previewer or printer. Two widely used previewers are `ghostview' (which runs on Unix and MS-DOS systems), and `GSview' (for OS/2 and Windows variants). Both use `ghostscript', which also runs on the Macintosh, and both are freely available. See http://www.cs.wisc.edu/~ghost/ or http://www.fsf.org/software/ghostscript/ghostscript.html for more information. ------------------------------- Sequence ------------------------------- ; This is the actual sequence used. Sequence 23 GWEIP EPYVW DESFR VFYEQ LDEEH KKIFK GIFDC IRDNS APNLA TLVKV TTNHF THEEA MMDAA KYSEV VPHKK MHKDF LEKIG GLSAP VDAKN VDYCK EWLVN HIKGT DFKYK GKL1 ------------------------------ Transcript ------------------------------ Analyzing Sequence 23. This is 18-Nov-98 (17:51:3). Using the Type-1 DSM library mdata11o. The sequence contains 118 residues. 30 length-compatible Type-1 DSMs are available for analyzing this sequence. FILTERING RESULTS: 3 Most Probable Super Classes: 1st Superclass alpha has probability 0.41285 2nd Superclass irregular has probability 0.32734 3rd Superclass alpha-beta has probability 0.23807 3 Most Probable Macro Classes: 1st Macroclass apb has probability 0.41285 2nd Macroclass ir has probability 0.32734 3rd Macroclass sab has probability 0.15959 Secondary-Structure Probabilities: RESIDUE LOOP HELIX TURN STRAND 1 1 0 0 0 2 0.995 0.000 0 0.004 3 0.967 0.012 0 0.021 4 0.953 0.017 0 0.030 5 0.945 0.022 0.001 0.032 6 0.913 0.038 0.005 0.043 7 0.878 0.053 0.005 0.063 8 0.754 0.127 0.007 0.112 9 0.687 0.183 0.010 0.119 10 0.483 0.386 0.022 0.109 11 0.436 0.437 0.077 0.050 12 0.281 0.592 0.090 0.037 13 0.189 0.683 0.091 0.038 14 0.163 0.709 0.076 0.053 15 0.151 0.727 0.024 0.097 16 0.136 0.743 0.012 0.109 17 0.117 0.767 0.012 0.104 18 0.073 0.837 0.016 0.074 19 0.052 0.883 0.014 0.052 20 0.033 0.928 0.016 0.024 21 0.027 0.946 0.013 0.015 22 0.047 0.930 0.013 0.010 23 0.058 0.920 0.014 0.008 24 0.123 0.853 0.011 0.012 25 0.216 0.754 0.013 0.017 26 0.263 0.706 0.008 0.023 27 0.311 0.656 0.006 0.026 28 0.351 0.612 0.007 0.030 29 0.430 0.520 0.019 0.031 30 0.458 0.487 0.020 0.034 31 0.528 0.395 0.025 0.053 32 0.534 0.372 0.026 0.068 33 0.552 0.332 0.013 0.103 34 0.569 0.308 0.014 0.110 35 0.589 0.260 0.012 0.138 36 0.596 0.248 0.017 0.139 37 0.617 0.226 0.045 0.112 38 0.652 0.191 0.067 0.090 39 0.688 0.146 0.097 0.069 40 0.709 0.131 0.089 0.072 41 0.713 0.122 0.120 0.045 42 0.711 0.113 0.118 0.058 43 0.682 0.128 0.090 0.099 44 0.616 0.168 0.078 0.138 45 0.561 0.202 0.018 0.219 46 0.479 0.241 0.013 0.267 47 0.416 0.267 0.009 0.308 48 0.305 0.349 0.005 0.340 49 0.206 0.456 0.013 0.325 50 0.204 0.465 0.029 0.303 51 0.199 0.494 0.129 0.178 52 0.213 0.514 0.166 0.107 53 0.195 0.557 0.170 0.079 54 0.193 0.566 0.159 0.083 55 0.175 0.592 0.067 0.166 56 0.157 0.630 0.036 0.177 57 0.118 0.699 0.032 0.152 58 0.078 0.785 0.024 0.112 59 0.052 0.883 0.017 0.048 60 0.053 0.895 0.017 0.036 61 0.061 0.893 0.014 0.032 62 0.094 0.850 0.028 0.028 63 0.136 0.796 0.048 0.020 64 0.180 0.744 0.058 0.017 65 0.215 0.679 0.088 0.017 66 0.281 0.577 0.121 0.021 67 0.342 0.500 0.125 0.034 68 0.348 0.498 0.114 0.040 69 0.333 0.533 0.084 0.049 70 0.324 0.579 0.040 0.057 71 0.321 0.572 0.064 0.043 72 0.292 0.606 0.073 0.030 73 0.084 0.824 0.071 0.020 74 0.069 0.844 0.071 0.016 75 0.042 0.915 0.024 0.019 76 0.036 0.925 0.017 0.022 77 0.032 0.930 0.018 0.019 78 0.027 0.941 0.012 0.021 79 0.024 0.947 0.009 0.019 80 0.023 0.947 0.008 0.022 81 0.026 0.946 0.003 0.026 82 0.036 0.935 0.002 0.026 83 0.093 0.845 0.034 0.028 84 0.188 0.679 0.090 0.043 85 0.563 0.272 0.101 0.065 86 0.682 0.125 0.109 0.083 87 0.716 0.080 0.084 0.119 88 0.733 0.061 0.033 0.173 89 0.730 0.061 0.034 0.176 90 0.727 0.059 0.050 0.163 91 0.709 0.064 0.046 0.181 92 0.706 0.076 0.078 0.140 93 0.677 0.111 0.112 0.101 94 0.597 0.198 0.089 0.116 95 0.578 0.228 0.113 0.081 96 0.426 0.386 0.084 0.103 97 0.245 0.607 0.047 0.101 98 0.226 0.626 0.046 0.102 99 0.183 0.705 0.023 0.089 100 0.185 0.718 0.025 0.072 101 0.183 0.729 0.019 0.069 102 0.190 0.725 0.017 0.068 103 0.206 0.712 0.018 0.064 104 0.249 0.669 0.019 0.063 105 0.303 0.628 0.022 0.048 106 0.329 0.607 0.022 0.041 107 0.361 0.566 0.036 0.037 108 0.413 0.510 0.048 0.029 109 0.686 0.235 0.058 0.021 110 0.756 0.161 0.052 0.031 111 0.808 0.104 0.026 0.062 112 0.850 0.055 0.014 0.081 113 0.875 0.030 0.004 0.091 114 0.893 0.018 0.003 0.087 115 0.913 0.011 0.004 0.071 116 0.947 0.003 0.004 0.046 117 0.967 0.001 0.002 0.030 118 1 0 0 0 End of Log file for Sequence 23.