| blob | d326178abc42ef2f578b14aa462083df00f8991f |
1 RPS-BLAST 2.1.3 [Apr-1-2001]
2 <?xml version="1.0"?>
3 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
4 <BlastOutput_program>blastp</BlastOutput_program>
5 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
6 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
7 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
8 <BlastOutput_query-ID>lcl|QUERY_0</BlastOutput_query-ID>
9 <BlastOutput_query-def>gi|1786182|gb|AAC73112.1| (AE000111) thr operon leader peptide [Escherichia coli]</BlastOutput_query-def>
10 <BlastOutput_query-len>21</BlastOutput_query-len>
11 <BlastOutput_param>
12 <Parameters>
13 <Parameters_matrix>BLOSUM62</Parameters_matrix>
14 <Parameters_expect>1e-05</Parameters_expect>
15 <Parameters_include>0</Parameters_include>
16 <Parameters_sc-match>0</Parameters_sc-match>
17 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
18 <Parameters_gap-open>11</Parameters_gap-open>
19 <Parameters_gap-extend>1</Parameters_gap-extend>
20 <Parameters_filter>F</Parameters_filter>
21 </Parameters>
22 </BlastOutput_param>
23 <BlastOutput_iterations>
24 <Iteration>
25 <Iteration_iter-num>1</Iteration_iter-num>
26 <Iteration_stat>
27 <Statistics>
28 <Statistics_db-num>0</Statistics_db-num>
29 <Statistics_db-len>0</Statistics_db-len>
30 <Statistics_hsp-len>0</Statistics_hsp-len>
31 <Statistics_eff-space>4.16497e+11</Statistics_eff-space>
32 <Statistics_kappa>0.041</Statistics_kappa>
33 <Statistics_lambda>0.267</Statistics_lambda>
34 <Statistics_entropy>0.14</Statistics_entropy>
35 </Statistics>
36 </Iteration_stat>
37 </Iteration>
38 </BlastOutput_iterations>
39 </BlastOutput>
40 <?xml version="1.0"?>
41 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
42 <BlastOutput_program>blastp</BlastOutput_program>
43 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
44 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
45 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
46 <BlastOutput_query-ID>lcl|QUERY_1</BlastOutput_query-ID>
47 <BlastOutput_query-def>gi|1786183|gb|AAC73113.1| (AE000111) aspartokinase I, homoserine dehydrogenase I [Escherichia coli]</BlastOutput_query-def>
48 <BlastOutput_query-len>820</BlastOutput_query-len>
49 <BlastOutput_param>
50 <Parameters>
51 <Parameters_matrix>BLOSUM62</Parameters_matrix>
52 <Parameters_expect>1e-05</Parameters_expect>
53 <Parameters_include>0</Parameters_include>
54 <Parameters_sc-match>0</Parameters_sc-match>
55 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
56 <Parameters_gap-open>11</Parameters_gap-open>
57 <Parameters_gap-extend>1</Parameters_gap-extend>
58 <Parameters_filter>F</Parameters_filter>
59 </Parameters>
60 </BlastOutput_param>
61 <BlastOutput_iterations>
62 <Iteration>
63 <Iteration_iter-num>1</Iteration_iter-num>
64 <Iteration_hits>
65 <Hit>
66 <Hit_num>1</Hit_num>
67 <Hit_id>gnl|Pfam|pfam00742</Hit_id>
68 <Hit_def>HomoS_dh, HomoS dehydrogenase</Hit_def>
69 <Hit_accession>pfam00742</Hit_accession>
70 <Hit_len>310</Hit_len>
71 <Hit_hsps>
72 <Hsp>
73 <Hsp_num>1</Hsp_num>
74 <Hsp_bit-score>327.405</Hsp_bit-score>
75 <Hsp_score>838</Hsp_score>
76 <Hsp_evalue>1.46134e-90</Hsp_evalue>
77 <Hsp_query-from>498</Hsp_query-from>
78 <Hsp_query-to>815</Hsp_query-to>
79 <Hsp_hit-from>3</Hsp_hit-from>
80 <Hsp_hit-to>310</Hsp_hit-to>
81 <Hsp_pattern-from>0</Hsp_pattern-from>
82 <Hsp_pattern-to>0</Hsp_pattern-to>
83 <Hsp_query-frame>1</Hsp_query-frame>
84 <Hsp_hit-frame>1</Hsp_hit-frame>
85 <Hsp_identity>123</Hsp_identity>
86 <Hsp_positive>171</Hsp_positive>
87 <Hsp_gaps>26</Hsp_gaps>
88 <Hsp_align-len>326</Hsp_align-len>
89 <Hsp_density>0</Hsp_density>
90 <Hsp_qseq>LRVCGVANSKALLTNVHGLNLENWQEELAQAKEPF-NLGRLIRLVKEYHLLN----PVIVDCTSSQAVAD-QYADFLREGFHVVTPNKKANTSSMDYYHQLRYAAEKSRRKFLYDTNVGAGLPVIENLQNLLNAGDELMKFSGILSGSLSYIFGKLDE-GMSFSEATTLAREMGYTEPDPRDDLSGMDVARKLLILARET-GRELELADIEIEPVLPAEFNAEGDVAAFMANLSQLDDLFAARVAKARDEGKVLRYVGNIDEDGVCRVKIAEVDGNDPLFKVKNGENALAFYSHYYQPLPLVLRGYGAGNDVTAAGVFADLLRTLS</Hsp_qseq>
91 <Hsp_hseq>GVVTGITDSREMLLSRIGLPLEIWKVALRDLEKPRKDLGKLDLTDDAFAVVDDPDIDVVVELTGGIEVARELYLDALEEGKHVVTANKALNASHGDEYLAL---AEKSGVDVLYEAAVAGGIPIIKTLRELLATGDRILKIEGIFNGTTNFILSEMDEKGLPFSDVLAEAQELGYTEADPRDDVEGIDAARKLAILARIAFGIELELDDVYVEGISPITAEDISSADEFGYTLKLLDEAMRQRVEDAESGGEVLRYPTLIPE-------------DHPLASVKGSDNAVAVEGEAYG--PLMFYGPGAGAEPTASAVVADIVRIAR</Hsp_hseq>
92 <Hsp_midline> V G+ +S+ +L + GL LE W+ L ++P +LG+L + +++ V+V+ T VA Y D L EG HVVT NK N S D Y L AEKS LY+ V G+P+I+ L+ LL GD ++K GI +G+ ++I ++DE G+ FS+ A+E+GYTE DPRDD+ G+D ARKL ILAR G ELEL D+ +E + P F L LD+ RV A G+VLRY I E + PL VK +NA+A Y PL+ G GAG + TA+ V AD++R </Hsp_midline>
93 </Hsp>
94 </Hit_hsps>
95 </Hit>
96 <Hit>
97 <Hit_num>2</Hit_num>
98 <Hit_id>gnl|Pfam|pfam00696</Hit_id>
99 <Hit_def>aakinase, Amino acid kinase family. This family includes kinases that phosphorylate a variety of amino acid substrates, as well as uridylate kinase and carbamate kinase. This family includes: Aspartokinase EC:2.7.2.4, AcetylE kinase EC:2.7.2.8, E 5-kinase EC:2.7.2.11, Uridylate kinase EC:2.7.4.-, Carbamate kinase EC:2.7.2.2</Hit_def>
100 <Hit_accession>pfam00696</Hit_accession>
101 <Hit_len>236</Hit_len>
102 <Hit_hsps>
103 <Hsp>
104 <Hsp_num>1</Hsp_num>
105 <Hsp_bit-score>123.25</Hsp_bit-score>
106 <Hsp_score>308</Hsp_score>
107 <Hsp_evalue>4.18565e-29</Hsp_evalue>
108 <Hsp_query-from>1</Hsp_query-from>
109 <Hsp_query-to>284</Hsp_query-to>
110 <Hsp_hit-from>2</Hsp_hit-from>
111 <Hsp_hit-to>236</Hsp_hit-to>
112 <Hsp_pattern-from>0</Hsp_pattern-from>
113 <Hsp_pattern-to>0</Hsp_pattern-to>
114 <Hsp_query-frame>1</Hsp_query-frame>
115 <Hsp_hit-frame>1</Hsp_hit-frame>
116 <Hsp_identity>75</Hsp_identity>
117 <Hsp_positive>115</Hsp_positive>
118 <Hsp_gaps>71</Hsp_gaps>
119 <Hsp_align-len>295</Hsp_align-len>
120 <Hsp_density>0</Hsp_density>
121 <Hsp_qseq>MRVLKFGGTSVANA--ERFLRVADILESNARQG-QVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAERIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEKMSIAIMAGVLEARGHNVTVIDPVEKLLAV--GHYLESTVDIAESTRRIAASRIPADHMVLMAGFTAGNEKGELVVLGRNGSDYSAAVLAACLRADCCEIWTDVDGVYTCDPRQVPDARLLKSMSYQEAMELSY------FGAKVLHPRTITPIAQFQIPCLIKN</Hsp_qseq>
122 <Hsp_hseq>RIVIKLGGSALSDEDDERLERVAEEIAKLREEGREVVVVHGGGPQVGRLLLKL-----------------------------AKKPGSRVTDAATL--------------------------DALGAVGEGLSGALLSAALEAPGIPAGQLSGTEDFGIDAEGRGGNAVVDSVGVEKEAIEELLEKGKIPIVAGGGGVPV-----TLGRGDSDTAAALLAALLKADLLIILTDVDGVYTADPKKVPDAKLIDELSYEEALELAGGESGFGTGGMVPKVRAAILAVRSGIPVIITN</Hsp_hseq>
123 <Hsp_midline> V+K GG+++++ ER RVA+ + +G +V V ++ L+ + A +PG + T AL GE +S A+++ LEA G + E G + VD + + + ++AG LGR SD +AA+LAA L+AD I TDVDGVYT DP++VPDA+L+ +SY+EA+EL+ G V R + IP +I N</Hsp_midline>
124 </Hsp>
125 </Hit_hsps>
126 </Hit>
127 </Iteration_hits>
128 <Iteration_stat>
129 <Statistics>
130 <Statistics_db-num>0</Statistics_db-num>
131 <Statistics_db-len>0</Statistics_db-len>
132 <Statistics_hsp-len>0</Statistics_hsp-len>
133 <Statistics_eff-space>3.82682e+07</Statistics_eff-space>
134 <Statistics_kappa>0.041</Statistics_kappa>
135 <Statistics_lambda>0.267</Statistics_lambda>
136 <Statistics_entropy>0.14</Statistics_entropy>
137 </Statistics>
138 </Iteration_stat>
139 </Iteration>
140 </BlastOutput_iterations>
141 </BlastOutput>
142 <?xml version="1.0"?>
143 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
144 <BlastOutput_program>blastp</BlastOutput_program>
145 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
146 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
147 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
148 <BlastOutput_query-ID>lcl|QUERY_2</BlastOutput_query-ID>
149 <BlastOutput_query-def>gi|1786184|gb|AAC73114.1| (AE000111) homoserine kinase [Escherichia coli]</BlastOutput_query-def>
150 <BlastOutput_query-len>310</BlastOutput_query-len>
151 <BlastOutput_param>
152 <Parameters>
153 <Parameters_matrix>BLOSUM62</Parameters_matrix>
154 <Parameters_expect>1e-05</Parameters_expect>
155 <Parameters_include>0</Parameters_include>
156 <Parameters_sc-match>0</Parameters_sc-match>
157 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
158 <Parameters_gap-open>11</Parameters_gap-open>
159 <Parameters_gap-extend>1</Parameters_gap-extend>
160 <Parameters_filter>F</Parameters_filter>
161 </Parameters>
162 </BlastOutput_param>
163 <BlastOutput_iterations>
164 <Iteration>
165 <Iteration_iter-num>1</Iteration_iter-num>
166 <Iteration_hits>
167 <Hit>
168 <Hit_num>1</Hit_num>
169 <Hit_id>gnl|Pfam|pfam00288</Hit_id>
170 <Hit_def>GHMP_kinases, GHMP kinases putative ATP-binding protein</Hit_def>
171 <Hit_accession>pfam00288</Hit_accession>
172 <Hit_len>73</Hit_len>
173 <Hit_hsps>
174 <Hsp>
175 <Hsp_num>1</Hsp_num>
176 <Hsp_bit-score>55.4546</Hsp_bit-score>
177 <Hsp_score>132</Hsp_score>
178 <Hsp_evalue>4.05207e-09</Hsp_evalue>
179 <Hsp_query-from>69</Hsp_query-from>
180 <Hsp_query-to>132</Hsp_query-to>
181 <Hsp_hit-from>1</Hsp_hit-from>
182 <Hsp_hit-to>73</Hsp_hit-to>
183 <Hsp_pattern-from>0</Hsp_pattern-from>
184 <Hsp_pattern-to>0</Hsp_pattern-to>
185 <Hsp_query-frame>1</Hsp_query-frame>
186 <Hsp_hit-frame>1</Hsp_hit-frame>
187 <Hsp_identity>22</Hsp_identity>
188 <Hsp_positive>34</Hsp_positive>
189 <Hsp_gaps>9</Hsp_gaps>
190 <Hsp_align-len>73</Hsp_align-len>
191 <Hsp_density>0</Hsp_density>
192 <Hsp_qseq>WERFCQELGK----QIPVAMTLEKNMPIGSGLGSSAC-SVVAALMAMNE----HCGKPLNDTRLLALMGELEG</Hsp_qseq>
193 <Hsp_hseq>WANYLKGGLKVIQPLPGLDVVISSNIPLGSGLGSSAAIAVVAGAVLANEFVAGLNGLKLSLANIQHLENQFEG</Hsp_hseq>
194 <Hsp_midline>W + + K + + + N+P+GSGLGSSA +VVA + NE G L+ + L + EG</Hsp_midline>
195 </Hsp>
196 </Hit_hsps>
197 </Hit>
198 </Iteration_hits>
199 <Iteration_stat>
200 <Statistics>
201 <Statistics_db-num>0</Statistics_db-num>
202 <Statistics_db-len>0</Statistics_db-len>
203 <Statistics_hsp-len>0</Statistics_hsp-len>
204 <Statistics_eff-space>3.85928e+07</Statistics_eff-space>
205 <Statistics_kappa>0.041</Statistics_kappa>
206 <Statistics_lambda>0.267</Statistics_lambda>
207 <Statistics_entropy>0.14</Statistics_entropy>
208 </Statistics>
209 </Iteration_stat>
210 </Iteration>
211 </BlastOutput_iterations>
212 </BlastOutput>
213 <?xml version="1.0"?>
214 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
215 <BlastOutput_program>blastp</BlastOutput_program>
216 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
217 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
218 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
219 <BlastOutput_query-ID>lcl|QUERY_3</BlastOutput_query-ID>
220 <BlastOutput_query-def>gi|1786185|gb|AAC73115.1| (AE000111) threonine synthase [Escherichia coli]</BlastOutput_query-def>
221 <BlastOutput_query-len>428</BlastOutput_query-len>
222 <BlastOutput_param>
223 <Parameters>
224 <Parameters_matrix>BLOSUM62</Parameters_matrix>
225 <Parameters_expect>1e-05</Parameters_expect>
226 <Parameters_include>0</Parameters_include>
227 <Parameters_sc-match>0</Parameters_sc-match>
228 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
229 <Parameters_gap-open>11</Parameters_gap-open>
230 <Parameters_gap-extend>1</Parameters_gap-extend>
231 <Parameters_filter>F</Parameters_filter>
232 </Parameters>
233 </BlastOutput_param>
234 <BlastOutput_iterations>
235 <Iteration>
236 <Iteration_iter-num>1</Iteration_iter-num>
237 <Iteration_hits>
238 <Hit>
239 <Hit_num>1</Hit_num>
240 <Hit_id>gnl|Pfam|pfam00291</Hit_id>
241 <Hit_def>PALP, Pyridoxal-phosphate dependent enzyme. Members of this family are all pyridoxal-phosphate dependent enzymes. This family includes: S dehydratase EC:4.2.1.13 P20132, threonine dehydratase EC:4.2.1.16, tryptophan synthase beta chain EC:4.2.1.20, threonine synthase EC:4.2.99.2, cysteine synthase EC:4.2.99.8 P11096, cystathionine beta-synthase EC:4.2.1.22, 1-aminocyclopropane-1-carboxylate deaminase EC:4.1.99.4</Hit_def>
242 <Hit_accession>pfam00291</Hit_accession>
243 <Hit_len>298</Hit_len>
244 <Hit_hsps>
245 <Hsp>
246 <Hsp_num>1</Hsp_num>
247 <Hsp_bit-score>129.028</Hsp_bit-score>
248 <Hsp_score>323</Hsp_score>
249 <Hsp_evalue>3.98147e-31</Hsp_evalue>
250 <Hsp_query-from>96</Hsp_query-from>
251 <Hsp_query-to>363</Hsp_query-to>
252 <Hsp_hit-from>28</Hsp_hit-from>
253 <Hsp_hit-to>280</Hsp_hit-to>
254 <Hsp_pattern-from>0</Hsp_pattern-from>
255 <Hsp_pattern-to>0</Hsp_pattern-to>
256 <Hsp_query-frame>1</Hsp_query-frame>
257 <Hsp_hit-frame>1</Hsp_hit-frame>
258 <Hsp_identity>69</Hsp_identity>
259 <Hsp_positive>101</Hsp_positive>
260 <Hsp_gaps>19</Hsp_gaps>
261 <Hsp_align-len>270</Hsp_align-len>
262 <Hsp_density>0</Hsp_density>
263 <Hsp_qseq>LELFHGPTLAFKDFGGRFMAQMLTHIAGDKPVTILTATSGDTGAAVAHAFYGLPNVKVVILYPRGKISPLQEKLFCTLGGNIETVAIDGDFDACQALVKQAFDDEELKVALGLNSANSINISRLLAQICYYFEAVAQLPQETRNQL-VVSVPSGNFGDLTAGLLAKSLGLPVKRFIAATNVNDTVPRFLHDGQWSPKATQATLSNAMDVSQPNNWPRVEELFRRKIWQLKELGYAAVDDETTQQTMREL-KELGYTSEPHAAVAYRALRD</Hsp_qseq>
264 <Hsp_hseq>LEDLN-PTGSFKDRGA-LNMILLAEKLGKKGGIVPGATSGNTGIALAYA-AALLGLKCTIVMPAT-TSREKVAQLRALGAENIVVPVVGGFDDLADAVKKALELAEENPK-NAYLVNQ-FDNPANVEA-GQKTIGLEIWEQLGGKPDAVVVPVGGGGTIAGIARYLKELLPVKVIGVEPEGSAVLSGFLKPG--SPVTLPETLSIAIGLGVPFVFPILDELL--------DDEVVTVTDEEALEAARLLAREEGIFVEPSSGAAVAAALK</Hsp_hseq>
265 <Hsp_midline>LE + PT +FKD G +L G K + ATSG+TG A+A+A L +K I+ P S + LG V + G FD VK+A + E N + + ++ ++ + V VP G G + LPVK + + FL G SP TLS A+ + P +P ++EL + V DE + R L +E G EP + A A</Hsp_midline>
266 </Hsp>
267 </Hit_hsps>
268 </Hit>
269 </Iteration_hits>
270 <Iteration_stat>
271 <Statistics>
272 <Statistics_db-num>0</Statistics_db-num>
273 <Statistics_db-len>0</Statistics_db-len>
274 <Statistics_hsp-len>0</Statistics_hsp-len>
275 <Statistics_eff-space>1.52967e+08</Statistics_eff-space>
276 <Statistics_kappa>0.041</Statistics_kappa>
277 <Statistics_lambda>0.267</Statistics_lambda>
278 <Statistics_entropy>0.14</Statistics_entropy>
279 </Statistics>
280 </Iteration_stat>
281 </Iteration>
282 </BlastOutput_iterations>
283 </BlastOutput>
284 <?xml version="1.0"?>
285 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
286 <BlastOutput_program>blastp</BlastOutput_program>
287 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
288 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
289 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
290 <BlastOutput_query-ID>lcl|QUERY_4</BlastOutput_query-ID>
291 <BlastOutput_query-def>gi|1786186|gb|AAC73116.1| (AE000111) orf, hypothetical protein [Escherichia coli]</BlastOutput_query-def>
292 <BlastOutput_query-len>98</BlastOutput_query-len>
293 <BlastOutput_param>
294 <Parameters>
295 <Parameters_matrix>BLOSUM62</Parameters_matrix>
296 <Parameters_expect>1e-05</Parameters_expect>
297 <Parameters_include>0</Parameters_include>
298 <Parameters_sc-match>0</Parameters_sc-match>
299 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
300 <Parameters_gap-open>11</Parameters_gap-open>
301 <Parameters_gap-extend>1</Parameters_gap-extend>
302 <Parameters_filter>F</Parameters_filter>
303 </Parameters>
304 </BlastOutput_param>
305 <BlastOutput_iterations>
306 <Iteration>
307 <Iteration_iter-num>1</Iteration_iter-num>
308 <Iteration_stat>
309 <Statistics>
310 <Statistics_db-num>0</Statistics_db-num>
311 <Statistics_db-len>0</Statistics_db-len>
312 <Statistics_hsp-len>0</Statistics_hsp-len>
313 <Statistics_eff-space>3.59021e+11</Statistics_eff-space>
314 <Statistics_kappa>0.041</Statistics_kappa>
315 <Statistics_lambda>0.267</Statistics_lambda>
316 <Statistics_entropy>0.14</Statistics_entropy>
317 </Statistics>
318 </Iteration_stat>
319 </Iteration>
320 </BlastOutput_iterations>
321 </BlastOutput>
322 <?xml version="1.0"?>
323 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
324 <BlastOutput_program>blastp</BlastOutput_program>
325 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
326 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
327 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
328 <BlastOutput_query-ID>lcl|QUERY_5</BlastOutput_query-ID>
329 <BlastOutput_query-def>gi|1786187|gb|AAC73117.1| (AE000111) orf, hypothetical protein [Escherichia coli]</BlastOutput_query-def>
330 <BlastOutput_query-len>258</BlastOutput_query-len>
331 <BlastOutput_param>
332 <Parameters>
333 <Parameters_matrix>BLOSUM62</Parameters_matrix>
334 <Parameters_expect>1e-05</Parameters_expect>
335 <Parameters_include>0</Parameters_include>
336 <Parameters_sc-match>0</Parameters_sc-match>
337 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
338 <Parameters_gap-open>11</Parameters_gap-open>
339 <Parameters_gap-extend>1</Parameters_gap-extend>
340 <Parameters_filter>F</Parameters_filter>
341 </Parameters>
342 </BlastOutput_param>
343 <BlastOutput_iterations>
344 <Iteration>
345 <Iteration_iter-num>1</Iteration_iter-num>
346 <Iteration_stat>
347 <Statistics>
348 <Statistics_db-num>0</Statistics_db-num>
349 <Statistics_db-len>0</Statistics_db-len>
350 <Statistics_hsp-len>0</Statistics_hsp-len>
351 <Statistics_eff-space>3.3722e+11</Statistics_eff-space>
352 <Statistics_kappa>0.041</Statistics_kappa>
353 <Statistics_lambda>0.267</Statistics_lambda>
354 <Statistics_entropy>0.14</Statistics_entropy>
355 </Statistics>
356 </Iteration_stat>
357 </Iteration>
358 </BlastOutput_iterations>
359 </BlastOutput>
360 <?xml version="1.0"?>
361 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
362 <BlastOutput_program>blastp</BlastOutput_program>
363 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
364 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
365 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
366 <BlastOutput_query-ID>lcl|QUERY_6</BlastOutput_query-ID>
367 <BlastOutput_query-def>gi|1786188|gb|AAC73118.1| (AE000111) inner membrane transport protein [Escherichia coli]</BlastOutput_query-def>
368 <BlastOutput_query-len>476</BlastOutput_query-len>
369 <BlastOutput_param>
370 <Parameters>
371 <Parameters_matrix>BLOSUM62</Parameters_matrix>
372 <Parameters_expect>1e-05</Parameters_expect>
373 <Parameters_include>0</Parameters_include>
374 <Parameters_sc-match>0</Parameters_sc-match>
375 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
376 <Parameters_gap-open>11</Parameters_gap-open>
377 <Parameters_gap-extend>1</Parameters_gap-extend>
378 <Parameters_filter>F</Parameters_filter>
379 </Parameters>
380 </BlastOutput_param>
381 <BlastOutput_iterations>
382 <Iteration>
383 <Iteration_iter-num>1</Iteration_iter-num>
384 <Iteration_hits>
385 <Hit>
386 <Hit_num>1</Hit_num>
387 <Hit_id>gnl|Pfam|pfam01235</Hit_id>
388 <Hit_def>Na_Ala_symp, Sodium:alanine symporter family</Hit_def>
389 <Hit_accession>pfam01235</Hit_accession>
390 <Hit_len>415</Hit_len>
391 <Hit_hsps>
392 <Hsp>
393 <Hsp_num>1</Hsp_num>
394 <Hsp_bit-score>558.525</Hsp_bit-score>
395 <Hsp_score>1438</Hsp_score>
396 <Hsp_evalue>2.26239e-160</Hsp_evalue>
397 <Hsp_query-from>48</Hsp_query-from>
398 <Hsp_query-to>458</Hsp_query-to>
399 <Hsp_hit-from>7</Hsp_hit-from>
400 <Hsp_hit-to>415</Hsp_hit-to>
401 <Hsp_pattern-from>0</Hsp_pattern-from>
402 <Hsp_pattern-to>0</Hsp_pattern-to>
403 <Hsp_query-frame>1</Hsp_query-frame>
404 <Hsp_hit-frame>1</Hsp_hit-frame>
405 <Hsp_identity>233</Hsp_identity>
406 <Hsp_positive>300</Hsp_positive>
407 <Hsp_gaps>2</Hsp_gaps>
408 <Hsp_align-len>411</Hsp_align-len>
409 <Hsp_density>0</Hsp_density>
410 <Hsp_qseq>KNSIHPQPGGLTSFQSLCTSLAARVGSGNLAGVALAITAGGPGAVFWMWVAAFIGMATSFAECSLAQLYKERDVNGQFRGGPAWYMARGLGMRWMGVLFAVFLLIAYGIIFSGVQANAVARALSFSFDFPPLVTGIILAVFTLLAITRGLHGVARLMQGFVPLMAIIWVLTSLVICVMNIGQLPHVIWSIFESAFGWQEAAGGAAGYTLSQAITNGFQRSMFSNEAGMGSTPNAAAAAASWPPHPAAQGIVQMIGIFIDTLVICTASAMLILLAGNGTTYMPLEGIQLIQKAMRVLMGSWGAEFVTLVVILFAFSSIVANYIYAENNLFFLRLNNPKAIWCLRICTFATVIGGTLLSLPLMWQLADIIMACMAITNLTAILLLSPVVHTIASDYLRQRKLGVRPVFDPLRY</Hsp_qseq>
411 <Hsp_hseq>KFGKKDEGGDVSSFQALTTSLAGRVGTGNIAGVATAIAAGGPGAVFWMWVTAFIGMATAFVESTLAQLYKERDKDGNFRGGPAYYIKKGLGMRWLAILFAVAVIVSFGVIFSGVQANSIADAMSNAFGIPPLVTGIVLAILTALIIFGGVKRIAAISSIVVPFMAIIYLITALAIIAMNIEKVPDVIGLIFKSAFGFDAAAGGALGATVSKAIMWGVKRGLFSNEAGMGSAPNAAAAAHVS--HPAKQGLVQMLGIFLDTFIVCTATALVILLTGNYTNVETLKGAQLTQKAFDTLIGGFGATFVAIALLLFAFSTIIANYYYAETNLAYLVRSGPRGVALYRLAYLAAVFYGTVLSLTLVWALADIVMGIMALPNLIAILLLSKVAYEALKDYERQLKQGKDPEFDADEY</Hsp_hseq>
412 <Hsp_midline>K + G ++SFQ+L TSLA RVG+GN+AGVA AI AGGPGAVFWMWV AFIGMAT+F E +LAQLYKERD +G FRGGPA+Y+ +GLGMRW+ +LFAV +++++G+IFSGVQAN++A A+S +F PPLVTGI+LA+ T L I G+ +A + VP MAII+++T+L I MNI ++P VI IF+SAFG+ AAGGA G T+S+AI G +R +FSNEAGMGS PNAAAAA HPA QG+VQM+GIF+DT ++CTA+A++ILL GN T L+G QL QKA L+G +GA FV + ++LFAFS+I+ANY YAE NL +L + P+ + R+ A V GT+LSL L+W LADI+M MA+ NL AILLLS V + DY RQ K G P FD Y</Hsp_midline>
413 </Hsp>
414 </Hit_hsps>
415 </Hit>
416 </Iteration_hits>
417 <Iteration_stat>
418 <Statistics>
419 <Statistics_db-num>0</Statistics_db-num>
420 <Statistics_db-len>0</Statistics_db-len>
421 <Statistics_hsp-len>0</Statistics_hsp-len>
422 <Statistics_eff-space>1.95607e+08</Statistics_eff-space>
423 <Statistics_kappa>0.041</Statistics_kappa>
424 <Statistics_lambda>0.267</Statistics_lambda>
425 <Statistics_entropy>0.14</Statistics_entropy>
426 </Statistics>
427 </Iteration_stat>
428 </Iteration>
429 </BlastOutput_iterations>
430 </BlastOutput>
431 <?xml version="1.0"?>
432 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
433 <BlastOutput_program>blastp</BlastOutput_program>
434 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
435 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
436 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
437 <BlastOutput_query-ID>lcl|QUERY_7</BlastOutput_query-ID>
438 <BlastOutput_query-def>gi|1786189|gb|AAC73119.1| (AE000111) transaldolase B [Escherichia coli]</BlastOutput_query-def>
439 <BlastOutput_query-len>317</BlastOutput_query-len>
440 <BlastOutput_param>
441 <Parameters>
442 <Parameters_matrix>BLOSUM62</Parameters_matrix>
443 <Parameters_expect>1e-05</Parameters_expect>
444 <Parameters_include>0</Parameters_include>
445 <Parameters_sc-match>0</Parameters_sc-match>
446 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
447 <Parameters_gap-open>11</Parameters_gap-open>
448 <Parameters_gap-extend>1</Parameters_gap-extend>
449 <Parameters_filter>F</Parameters_filter>
450 </Parameters>
451 </BlastOutput_param>
452 <BlastOutput_iterations>
453 <Iteration>
454 <Iteration_iter-num>1</Iteration_iter-num>
455 <Iteration_hits>
456 <Hit>
457 <Hit_num>1</Hit_num>
458 <Hit_id>gnl|Pfam|pfam00923</Hit_id>
459 <Hit_def>Transaldolase, Transaldolase</Hit_def>
460 <Hit_accession>pfam00923</Hit_accession>
461 <Hit_len>282</Hit_len>
462 <Hit_hsps>
463 <Hsp>
464 <Hsp_num>1</Hsp_num>
465 <Hsp_bit-score>306.99</Hsp_bit-score>
466 <Hsp_score>785</Hsp_score>
467 <Hsp_evalue>7.90128e-85</Hsp_evalue>
468 <Hsp_query-from>13</Hsp_query-from>
469 <Hsp_query-to>313</Hsp_query-to>
470 <Hsp_hit-from>1</Hsp_hit-from>
471 <Hsp_hit-to>282</Hsp_hit-to>
472 <Hsp_pattern-from>0</Hsp_pattern-from>
473 <Hsp_pattern-to>0</Hsp_pattern-to>
474 <Hsp_query-frame>1</Hsp_query-frame>
475 <Hsp_hit-frame>1</Hsp_hit-frame>
476 <Hsp_identity>161</Hsp_identity>
477 <Hsp_positive>191</Hsp_positive>
478 <Hsp_gaps>29</Hsp_gaps>
479 <Hsp_align-len>306</Hsp_align-len>
480 <Hsp_density>0</Hsp_density>
481 <Hsp_qseq>TVVADTGDIAAMKLYQP----QDATTNPSLILNAAQIPEYRKLIDDAVAWAKQQSNDRAQQIVDATDKLAVNIGLEILKLVPGRISTEVDARLSYDTEASIAKAKRLIKLYNDAGISNDRILIKLASTWQGIRAAEQLEKEGINCNLTLLFSFAQARACAEAGVFLISPFVGRILDWYKANTDKKEYAPAEDPGVVSVSEIYQYYKEHGYETVVMGASFRNIGEILE-LAGCDRLTIAPALLKELAESEGAIERKLSYTGEVKARPARITESEFLWQHNQDPMAVDKLAEGIRKFAIDQEKLEKMI</Hsp_qseq>
482 <Hsp_hseq>KVFLDTGDIEEIKKLAPIGIIQGVTTNPSLIAKAAKKSAYEKL----DAVGKKKGKTIKEQVENACDKLAVEF-PEILKIVPGRVSTEVDARLSFDAEAMIKEAKRLIKL-----ISKPNIVIKIPVTWEGLKAVKALEAEGIPVNVTLLFSAAQALAAAEAGVTYISPFVGRIDDWIDALTDK---NYEGDPGVQSVKDIYQYYKKHGYKTEVLAASFRNPGYILELLAGCDSLTIPPALLDQLLDHEPL---------NRKETGEKISEKKF--NIDEDAMAVELLDEGIRKFKKDFEKLLKST</Hsp_hseq>
483 <Hsp_midline> V DTGDI +K P Q TTNPSLI AA+ Y KL A K++ +Q+ +A DKLAV EILK+VPGR+STEVDARLS+D EA I +AKRLIKL IS I+IK+ TW+G++A + LE EGI N+TLLFS AQA A AEAGV ISPFVGRI DW A TDK DPGV SV +IYQYYK+HGY+T V+ ASFRN G ILE LAGCD LTI PALL +L + E K +I+E +F ++D MAV+ L EGIRKF D EKL K </Hsp_midline>
484 </Hsp>
485 </Hit_hsps>
486 </Hit>
487 </Iteration_hits>
488 <Iteration_stat>
489 <Statistics>
490 <Statistics_db-num>0</Statistics_db-num>
491 <Statistics_db-len>0</Statistics_db-len>
492 <Statistics_hsp-len>0</Statistics_hsp-len>
493 <Statistics_eff-space>1.4562e+08</Statistics_eff-space>
494 <Statistics_kappa>0.041</Statistics_kappa>
495 <Statistics_lambda>0.267</Statistics_lambda>
496 <Statistics_entropy>0.14</Statistics_entropy>
497 </Statistics>
498 </Iteration_stat>
499 </Iteration>
500 </BlastOutput_iterations>
501 </BlastOutput>
502 <?xml version="1.0"?>
503 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
504 <BlastOutput_program>blastp</BlastOutput_program>
505 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
506 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
507 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
508 <BlastOutput_query-ID>lcl|QUERY_8</BlastOutput_query-ID>
509 <BlastOutput_query-def>gi|1786190|gb|AAC73120.1| (AE000111) required for the efficient incorporation of molybdate into molybdoproteins [Escherichia coli]</BlastOutput_query-def>
510 <BlastOutput_query-len>195</BlastOutput_query-len>
511 <BlastOutput_param>
512 <Parameters>
513 <Parameters_matrix>BLOSUM62</Parameters_matrix>
514 <Parameters_expect>1e-05</Parameters_expect>
515 <Parameters_include>0</Parameters_include>
516 <Parameters_sc-match>0</Parameters_sc-match>
517 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
518 <Parameters_gap-open>11</Parameters_gap-open>
519 <Parameters_gap-extend>1</Parameters_gap-extend>
520 <Parameters_filter>F</Parameters_filter>
521 </Parameters>
522 </BlastOutput_param>
523 <BlastOutput_iterations>
524 <Iteration>
525 <Iteration_iter-num>1</Iteration_iter-num>
526 <Iteration_stat>
527 <Statistics>
528 <Statistics_db-num>0</Statistics_db-num>
529 <Statistics_db-len>0</Statistics_db-len>
530 <Statistics_hsp-len>0</Statistics_hsp-len>
531 <Statistics_eff-space>3.35238e+11</Statistics_eff-space>
532 <Statistics_kappa>0.041</Statistics_kappa>
533 <Statistics_lambda>0.267</Statistics_lambda>
534 <Statistics_entropy>0.14</Statistics_entropy>
535 </Statistics>
536 </Iteration_stat>
537 </Iteration>
538 </BlastOutput_iterations>
539 </BlastOutput>
540 <?xml version="1.0"?>
541 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd"><BlastOutput>
542 <BlastOutput_program>blastp</BlastOutput_program>
543 <BlastOutput_version>blastp 2.1.3 [Apr-1-2001]</BlastOutput_version>
544 <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~"Gapped BLAST and PSI-BLAST: a new generation of protein database search~programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
545 <BlastOutput_db>/data_2/jason/db/cdd/cdd/Pfam</BlastOutput_db>
546 <BlastOutput_query-ID>lcl|QUERY_9</BlastOutput_query-ID>
547 <BlastOutput_query-def>gi|1786191|gb|AAC73121.1| (AE000111) orf, hypothetical protein [Escherichia coli]</BlastOutput_query-def>
548 <BlastOutput_query-len>188</BlastOutput_query-len>
549 <BlastOutput_param>
550 <Parameters>
551 <Parameters_matrix>BLOSUM62</Parameters_matrix>
552 <Parameters_expect>1e-05</Parameters_expect>
553 <Parameters_include>0</Parameters_include>
554 <Parameters_sc-match>0</Parameters_sc-match>
555 <Parameters_sc-mismatch>0</Parameters_sc-mismatch>
556 <Parameters_gap-open>11</Parameters_gap-open>
557 <Parameters_gap-extend>1</Parameters_gap-extend>
558 <Parameters_filter>F</Parameters_filter>
559 </Parameters>
560 </BlastOutput_param>
561 <BlastOutput_iterations>
562 <Iteration>
563 <Iteration_iter-num>1</Iteration_iter-num>
564 <Iteration_hits>
565 <Hit>
566 <Hit_num>1</Hit_num>
567 <Hit_id>gnl|Pfam|pfam01184</Hit_id>
568 <Hit_def>Grp1_Fun34_YaaH, GPR1/FUN34/yaaH family</Hit_def>
569 <Hit_accession>pfam01184</Hit_accession>
570 <Hit_len>210</Hit_len>
571 <Hit_hsps>
572 <Hsp>
573 <Hsp_num>1</Hsp_num>
574 <Hsp_bit-score>218.009</Hsp_bit-score>
575 <Hsp_score>554</Hsp_score>
576 <Hsp_evalue>2.86271e-58</Hsp_evalue>
577 <Hsp_query-from>5</Hsp_query-from>
578 <Hsp_query-to>188</Hsp_query-to>
579 <Hsp_hit-from>16</Hsp_hit-from>
580 <Hsp_hit-to>210</Hsp_hit-to>
581 <Hsp_pattern-from>0</Hsp_pattern-from>
582 <Hsp_pattern-to>0</Hsp_pattern-to>
583 <Hsp_query-frame>1</Hsp_query-frame>
584 <Hsp_hit-frame>1</Hsp_hit-frame>
585 <Hsp_identity>137</Hsp_identity>
586 <Hsp_positive>146</Hsp_positive>
587 <Hsp_gaps>13</Hsp_gaps>
588 <Hsp_align-len>196</Hsp_align-len>
589 <Hsp_density>0</Hsp_density>
590 <Hsp_qseq>KLANPAPLGLMGFGMTTILLNLHNVGYFALD--GIILAMGIFYGGIAQIFAGLLEYKKGNTFGLTAFTSYGSFWLTLVAILLMPKLGLTDAPNAQ-----FLGVYLGLWGVFTLFMFFGTLKGARVLQFVFFSLTVLFALLAIGNIAGNAAIIHFAGWIGLICGASAIYLAMGEVLNEQFGRTV-----LPIGESH</Hsp_qseq>
591 <Hsp_hseq>KFANPAPLGLSGFALTTIVLSLHNVGAFGLDNPGIIVGMAIFYGGIAQIFAGLWEYKKENTFGLTALTSYGGFWLSLVAIL-MPKFGITDAYNDQIEVQNALGVYLGGWGVFTLFLFFCTLKSTRVFFFLFFSLTVTFLLLAIANITGNAAIIHFGGWLGLICAFSAIYLAYAGVANEQNSYIVPVPLDLPIGEKH</Hsp_hseq>
592 <Hsp_midline>K ANPAPLGL GF +TTI+L+LHNVG F LD GII+ M IFYGGIAQIFAGL EYKK NTFGLTA TSYG FWL+LVAIL MPK G+TDA N Q LGVYLG WGVFTLF+FF TLK RV F+FFSLTV F LLAI NI GNAAIIHF GW+GLIC SAIYLA V NEQ V LPIGE H</Hsp_midline>
593 </Hsp>
594 </Hit_hsps>
595 </Hit>
596 </Iteration_hits>
597 <Iteration_stat>
598 <Statistics>
599 <Statistics_db-num>0</Statistics_db-num>
600 <Statistics_db-len>0</Statistics_db-len>
601 <Statistics_hsp-len>0</Statistics_hsp-len>
602 <Statistics_eff-space>8.17579e+07</Statistics_eff-space>
603 <Statistics_kappa>0.041</Statistics_kappa>
604 <Statistics_lambda>0.267</Statistics_lambda>
605 <Statistics_entropy>0.14</Statistics_entropy>
606 </Statistics>
607 </Iteration_stat>
608 </Iteration>
609 </BlastOutput_iterations>
610 </BlastOutput>