BLASTP 2.2.18 [Mar-02-2008] 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. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0039.0019.p (314 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SMa2209 [E] COG0687 Spermidine/putrescine-binding periplasmic pr... 140 2e-33 AGl890 [E] COG0687 Spermidine/putrescine-binding periplasmic pro... 117 3e-26 AGpA599 [E] COG0687 Spermidine/putrescine-binding periplasmic pr... 105 1e-22 HI0498 [E] COG0687 Spermidine/putrescine-binding periplasmic pro... 103 2e-22 PM1384 [E] COG0687 Spermidine/putrescine-binding periplasmic pro... 97 2e-20 >SMa2209 [E] COG0687 Spermidine/putrescine-binding periplasmic protein Length = 340 Score = 140 bits (354), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 95/313 (30%), Positives = 159/313 (50%), Gaps = 15/313 (4%) Query: 2 VTSFGGAIEETQRAYIKQFEEEYNAEVEVVTLYSADALAKIRAEKNNQTIDVVLFSGGQE 61 VT++GG+ + T +A ++FEEE+N +E V S D L K R + + + +L S E Sbjct: 29 VTTWGGSYQATYQAVAQKFEEEHNCRIEWVVGASPDHLIKARLGQVDVVTNTLLNSIAGE 88 Query: 62 QIAAKEDLIMKLDPEQMENLDQLYPEARSAEGYGPTFGYEALG---MIYNRDAIPTPPAS 118 KE L KLDP ++ N+ LYP A + P + +G + YN+D + T PA+ Sbjct: 89 ----KEGLWQKLDPAKIPNMANLYPNAV----HSPYTVFANVGDYVLAYNKDTVTTVPAT 140 Query: 119 WNDLWKEEYKGQVGLVDISNTYGNQFLVALAKMNGGGEDNIQPGLDAIKTLLPNAAAI-- 176 W++LWK EYK +V + I + V A+ NGG DN++PGLD + L+ + I Sbjct: 141 WDELWKPEYKNRVVIYGIDHIPTLSLTVLQAEKNGGSIDNVEPGLDRMAELIKSGNLIGS 200 Query: 177 VKSSPEVGNLFAQDEAVIAPFDSGYAYTFGKQGIP-INFAIPKEGAVGIYITAQVVKGSP 235 + ++ +LF +A + +G +G+ ++F P+EG + + + K + Sbjct: 201 LDVESQMVSLFETGDAWLGMLATGRMKELLSKGVTNVSFVRPEEGTFPLITSVNIHKDAK 260 Query: 236 NPELARKYIDFLLRPEIQKLTAEGGGYSPTNSQTELSDDLK-GILPNGEDTFNGLIHLDL 294 NP +A +++++L E+Q A Y+PT E+ DD + L D F L D Sbjct: 261 NPAMAAAFVNYILSSEVQVAFATRNLYAPTVKNAEIPDDFEFRDLLVLNDAFGRLYLPDQ 320 Query: 295 AQVNNNKADWMEK 307 ++ NKA W ++ Sbjct: 321 EKITANKAGWQQQ 333 >AGl890 [E] COG0687 Spermidine/putrescine-binding periplasmic protein Length = 832 Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 13/315 (4%), Positives = 43/315 (13%), Gaps = 4/315 (1%) Query: 2 VTSFGGAIEETQRAYIKQFEEEYNAEVEVVTLYSADALAKIRAEKNNQTIDVVLFSGGQE 61 + ++ + + + + +E L + N Sbjct: 28 PPAANITRQQFNVSIVVRHKPVLKPVLEPFCLCRLSGRNGGQFIGNILRRAEGGQLSLGW 87 Query: 62 QIAAKEDLIMKLDPEQMENLDQLYPEARSAEGYGPTFG--YEALGMIYNRDAIPTPPASW 119 + + + + Y + + G A Sbjct: 88 KEQWDNLDFSHITVGVLSQAYEYYLRKHAPKQQQQEGGFYTPHPIANLMVSAAFRG--LN 145 Query: 120 NDLWKEEYKGQVGLVDISNTYGNQFLVALAKMNGGGEDNIQPGLDAIKTLLPNAAAIVKS 179 + F +A + Sbjct: 146 AQGISAAARILDPAAGAGVFLLAAFRELVAARWRSEGHRPDTAALREILYKQVRGFDINE 205 Query: 180 SPEVGNLFAQDEAVIAPFDSGYAYTFGKQGIPINFAIPKEGAVGIYITAQVVKGSPNPEL 239 + I + + + + + L Sbjct: 206 AALRFCALGLYLLSIELDPNPKPVDKLHFDDLRGVVLHRPVDTTDVDRPEAKQLGSLGSL 265 Query: 240 ARKYIDFLLRPEIQKLTAEGGGYSPTNSQTELSDDLKGILPNGEDTFNGLIHLDLAQVNN 299 + D I + G+ + + + Sbjct: 266 IGEEHDGQYDLVIGNPPWASATGLEDWNLLLTEVHKIARSRLGDGITAPPLPNAVLDLPF 325 Query: 300 NKADWMEKWSKLISQ 314 Sbjct: 326 VWRAMRWAKPDAQII 340 >AGpA599 [E] COG0687 Spermidine/putrescine-binding periplasmic protein Length = 380 Score = 105 bits (261), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 26/315 (8%), Positives = 53/315 (16%), Gaps = 7/315 (2%) Query: 1 VVTSFGGAIEETQRAYIKQFEEEYNAEVEVVTLYSADALAKIRAEKNNQTIDVVLFSGGQ 60 G + + E + + + Y A E + S + Sbjct: 45 PANGASGRSLSWLNSARMRSEPYHQLRMAGIDRYRTLAAENPDVEWLRFDGGLTWDSDDE 104 Query: 61 EQIAAKEDLIMKLDPEQMENLDQLYPEARSAEGYGPTFGYEALGMIYNRDAIPTPPASWN 120 + L + G I+N Sbjct: 105 RNEIDAAYRHEVSLAYDAQRLSAGDVARVTP--GIDAGAITPQGAIFNPGEGWV-DLPTL 161 Query: 121 DLWKE-EYKGQVGLVDISNTYGNQFLVALAKMNGGGEDNIQPGLDAIKTLLPNAAAIVKS 179 E+ G++ L + + DA+ A + Sbjct: 162 IRVLLEEFFALGGVLVTDQGAARVMLEGGRAVGAETAEGYLHRADAVVLATGPAVPKMVG 221 Query: 180 SPEVGNLFAQDEAVIAPFDSGYAYTFGKQGIPINFAIPKEGAVGIYITAQVVKGSPNPEL 239 A++ P P G Sbjct: 222 ESGQIIGDGTPIALLVQTKPLAHPLRAVLNTPRVAVRPAPGGSFSLDADWAADEGVTVRA 281 Query: 240 ARKYIDFLLRPEIQ-KLTAEGGGYSPTNSQTELSDDLKGILPNGEDTFNGLIHLDLAQVN 298 Y A+ +P + K I G+ + Sbjct: 282 DGTYEIDDTIVAELLVEAAKVMEGNPQLEVASIGVGGKPIP--GDGEPVIGAIKAIPGYY 339 Query: 299 NNKADWMEKWSKLIS 313 + ++ Sbjct: 340 VAFSHSGATLGLIVG 354 >HI0498 [E] COG0687 Spermidine/putrescine-binding periplasmic protein Length = 312 Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 93/311 (29%), Positives = 143/311 (45%), Gaps = 23/311 (7%) Query: 17 IKQFEEEYNAEVEVVTLYSADAL-AKIRAEKNNQT-IDVVLFSGGQEQIAAKEDLIMKLD 74 + QF +E EV T S + + AK++ +N + D+V S KE ++ +D Sbjct: 6 VAQFSKETGIEVIYSTFESNEEMYAKLKLTQNTGSGYDLVFPSSYYVNKMIKEKMLQPID 65 Query: 75 PEQMENLDQLYPEARSAE-----GYGPTFGYEALGMIYNRDAI-PTPPASWNDLWKEEYK 128 ++ N+ Q+ + E Y + Y G+ N D I P SW DLWK E+K Sbjct: 66 QSKLTNIHQIPKHLLNKEFDPENKYSLPYVYGLTGIEVNADEIDPKTITSWADLWKPEFK 125 Query: 129 GQVGLV-DISNTYGNQFLVALAKMNGGGEDNIQPGLDAIKTLLPNAAAIVKSSPEVGNLF 187 G+V + D + L+ N E++I+ + ++ LLPN A SPEV + Sbjct: 126 GKVLMTSDAREVFHVALLLDGKSPNTTNEEDIKTAYERLEKLLPNVATFNSDSPEVP--Y 183 Query: 188 AQDEAVIAPFDSGYAYTFGKQGIPINFAIPKEGAVGIYITAQVVKGSPNPELARKYIDFL 247 Q E I +G AY K+ + F PKEGA+ + + N E A K+IDFL Sbjct: 184 VQGEVAIGMIWNGSAYLAQKENQSLQFVYPKEGAIFWMDNYAIPTTAKNVEGAHKFIDFL 243 Query: 248 LRPEIQKLTAEGGGYSPTNS------QTELSDDLKGILPNGEDTFNGLIHLDLAQVNNNK 301 LRPE K+ E G+S N+ E+++D K + P E+ G++ D+ + Sbjct: 244 LRPENAKIVIERMGFSMPNNGAKTLLSAEVANDPK-LFPPAEEVEKGIMQGDVGEA---- 298 Query: 302 ADWMEK-WSKL 311 D EK W KL Sbjct: 299 VDIYEKYWGKL 309 >PM1384 [E] COG0687 Spermidine/putrescine-binding periplasmic protein Length = 311 Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 92/311 (29%), Positives = 140/311 (45%), Gaps = 20/311 (6%) Query: 15 AYIKQFEEEYNAEVEVVTLYSADAL-AKIRAEKNNQTIDVVLFSGGQEQIAAKEDLIMKL 73 + I F +E + EV T S + + AK++ N D+V S K+ ++ KL Sbjct: 4 SLIADFTKETDIEVIYSTFESNEEMYAKLKLLSKNSGYDLVFPSSYYINKMVKDGMLQKL 63 Query: 74 DPEQMENLDQLYPEARSAE-----GYGPTFGYEALGMIYNRDAI-PTPPASWNDLWKEEY 127 D ++ NL Q+ + E Y + Y G+ N + I P+ SW DLWK EY Sbjct: 64 DHAKLTNLHQIPTHLLNKEFDPQNQYSLPYIYGLTGIGINAEEIDPSKITSWADLWKPEY 123 Query: 128 KGQVGLV-DISNTYGNQFLVALAKMNGGGEDNIQPGLDAIKTLLPNAAAIVKSSPEVGNL 186 KG+V L D + L+ N E I+ + + L+PN SPEV Sbjct: 124 KGKVLLTSDAREVFHIALLLNGKSPNTTKELEIKQAYEKLVKLMPNVLVFNSDSPEVP-- 181 Query: 187 FAQDEAVIAPFDSGYAYTFGKQGIPINFAIPKEGAVGIYITAQVVKGSPNPELARKYIDF 246 + Q E + +G AY K+ I F PKEGA+ + K + N E A ++IDF Sbjct: 182 YVQGEVALGMIWNGSAYLGNKENSNIQFIYPKEGAIFWMDNYAIPKKAKNVEGAYQFIDF 241 Query: 247 LLRPEIQKLTAEGGGYSPTNSQTE--LSDDLKG---ILPNGEDTFNGLIHLDLAQVNNNK 301 LLRPE K+ E G+S N + L+ ++ + P E+ G++ D+ + Sbjct: 242 LLRPENAKIVIERMGFSMPNEGVKHLLAPEMVNNPVLFPPAEEVEKGIMQGDVGRA---- 297 Query: 302 ADWMEK-WSKL 311 D EK W+KL Sbjct: 298 VDIYEKYWNKL 308 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.313 0.134 0.384 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 25,834,978 Number of extensions: 1135543 Number of successful extensions: 1684 Number of sequences better than 1.0e-05: 56 Number of HSP's gapped: 1622 Number of HSP's successfully gapped: 56 Length of query: 314 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 208 Effective length of database: 26,153,027 Effective search space: 5439829616 Effective search space used: 5439829616 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 116 (49.3 bits)