From: psa@darwin.bu.edu (Protein Structure Analysis server) To: wb@darwin.bu.edu Subject: Request 14757 result (1 of 3): [Seq 23] Date: Wed, 18 Nov 1998 18:00:19 -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 secondary structure probabilities we computed for your sequence are appended below. 2 pages of additional graphical outputs, in PostScript format, are being sent to you in 2 additional e-mail messages. These files show (1) the secondary structure probability distributions in conventional xy plots, and (2) 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 (17:57:38). The sequence contains 118 residues. Using the Type-2 DSM library. 2 Type-2 DSMs are available for analyzing this sequence. FILTERING RESULTS: Model generic has probability 0.96541 Model mem_span has probability 0.034587 Secondary-Structure Probabilities: RESIDUE LOOP HELIX TURN STRAND 1 0.400 0.205 0.140 0.255 2 0.419 0.226 0.062 0.292 3 0.415 0.187 0.126 0.272 4 0.525 0.132 0.209 0.133 5 0.490 0.148 0.261 0.101 6 0.570 0.112 0.211 0.107 7 0.448 0.199 0.120 0.233 8 0.404 0.235 0.094 0.267 9 0.313 0.375 0.089 0.222 10 0.349 0.396 0.126 0.129 11 0.275 0.486 0.125 0.115 12 0.252 0.516 0.097 0.135 13 0.177 0.594 0.056 0.173 14 0.173 0.624 0.024 0.180 15 0.155 0.643 0.016 0.186 16 0.185 0.648 0.019 0.148 17 0.128 0.734 0.027 0.112 18 0.128 0.771 0.035 0.066 19 0.107 0.819 0.031 0.043 20 0.090 0.852 0.022 0.036 21 0.115 0.834 0.028 0.023 22 0.107 0.835 0.037 0.021 23 0.099 0.843 0.033 0.025 24 0.110 0.832 0.030 0.028 25 0.130 0.813 0.024 0.033 26 0.121 0.815 0.018 0.047 27 0.105 0.806 0.014 0.076 28 0.149 0.729 0.043 0.079 29 0.150 0.708 0.077 0.065 30 0.312 0.534 0.082 0.072 31 0.264 0.525 0.060 0.150 32 0.278 0.499 0.049 0.174 33 0.297 0.496 0.057 0.149 34 0.347 0.428 0.048 0.177 35 0.332 0.410 0.064 0.194 36 0.357 0.385 0.135 0.122 37 0.482 0.246 0.213 0.059 38 0.511 0.225 0.215 0.049 39 0.571 0.216 0.142 0.071 40 0.516 0.244 0.174 0.066 41 0.486 0.213 0.269 0.032 42 0.424 0.269 0.255 0.052 43 0.352 0.375 0.132 0.142 44 0.368 0.401 0.037 0.194 45 0.318 0.409 0.032 0.241 46 0.264 0.413 0.023 0.300 47 0.224 0.390 0.023 0.363 48 0.236 0.381 0.029 0.354 49 0.289 0.307 0.034 0.370 50 0.384 0.235 0.089 0.293 51 0.427 0.221 0.150 0.202 52 0.472 0.218 0.168 0.142 53 0.466 0.252 0.126 0.156 54 0.437 0.318 0.065 0.180 55 0.435 0.374 0.054 0.137 56 0.346 0.502 0.058 0.094 57 0.250 0.624 0.060 0.066 58 0.177 0.717 0.055 0.050 59 0.138 0.771 0.043 0.048 60 0.137 0.781 0.030 0.051 61 0.145 0.781 0.029 0.045 62 0.167 0.772 0.031 0.031 63 0.161 0.775 0.031 0.033 64 0.186 0.735 0.037 0.042 65 0.215 0.679 0.050 0.056 66 0.270 0.571 0.076 0.083 67 0.307 0.506 0.089 0.098 68 0.287 0.509 0.065 0.138 69 0.330 0.446 0.031 0.193 70 0.409 0.351 0.076 0.164 71 0.499 0.303 0.140 0.058 72 0.364 0.429 0.156 0.051 73 0.390 0.455 0.112 0.043 74 0.224 0.672 0.058 0.047 75 0.213 0.684 0.048 0.055 76 0.187 0.725 0.041 0.046 77 0.192 0.726 0.046 0.036 78 0.143 0.777 0.043 0.037 79 0.129 0.784 0.029 0.058 80 0.111 0.807 0.018 0.064 81 0.121 0.798 0.023 0.058 82 0.221 0.674 0.052 0.052 83 0.208 0.642 0.086 0.065 84 0.552 0.216 0.190 0.042 85 0.554 0.188 0.198 0.060 86 0.528 0.212 0.109 0.151 87 0.540 0.193 0.104 0.163 88 0.539 0.203 0.092 0.165 89 0.582 0.176 0.089 0.152 90 0.494 0.199 0.098 0.209 91 0.507 0.213 0.122 0.157 92 0.445 0.260 0.153 0.141 93 0.441 0.266 0.171 0.121 94 0.469 0.254 0.168 0.110 95 0.399 0.304 0.113 0.185 96 0.404 0.333 0.087 0.177 97 0.364 0.332 0.080 0.224 98 0.326 0.382 0.065 0.227 99 0.307 0.401 0.089 0.203 100 0.257 0.424 0.094 0.225 101 0.222 0.426 0.069 0.283 102 0.282 0.355 0.058 0.304 103 0.288 0.334 0.075 0.303 104 0.415 0.262 0.097 0.227 105 0.422 0.249 0.081 0.249 106 0.382 0.226 0.119 0.273 107 0.403 0.199 0.215 0.184 108 0.511 0.102 0.254 0.133 109 0.535 0.095 0.198 0.173 110 0.536 0.100 0.126 0.238 111 0.404 0.110 0.096 0.390 112 0.374 0.114 0.073 0.439 113 0.323 0.111 0.123 0.444 114 0.324 0.110 0.192 0.373 115 0.386 0.110 0.194 0.310 116 0.364 0.190 0.117 0.329 117 0.347 0.238 0.069 0.346 118 0.360 0.199 0.052 0.389 End of Log file for Sequence 23.