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= 0078.0010.p (501 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00086137.1| hypothetical protein [Pseudomonas fluorescens... 174 5e-42 ref|NP_462423.1| putative ribonucleoprotein related-protein [Sal... 170 7e-41 ref|NP_869970.1| 60-kDa SS-A/Ro ribonucleoprotein homolog [Pirel... 147 4e-34 ref|ZP_00108461.1| COG2425: Uncharacterized protein containing a... 134 4e-30 ref|ZP_00060193.1| hypothetical protein [Clostridium thermocellu... 124 4e-27 >ref|ZP_00086137.1| hypothetical protein [Pseudomonas fluorescens PfO-1] Length = 515 Score = 174 bits (441), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 150/525 (28%), Positives = 251/525 (47%), Gaps = 49/525 (9%) Query: 8 KLFSSKKPN-----ARNQEGYPAYTRSVEEQYLQMLLTNTMSNTFYADQQELLDNAAELH 62 LF+++ N N G AY + + Q Q+ +T +++TFYA Q LD +L Sbjct: 5 NLFNTQSKNLPACDTLNASGAAAYAYTPKHQLAQLAVTGCLNSTFYASAQSQLDQVLKLV 64 Query: 63 EQMALEQPEFMAKALIYARSEGFMRLQPLFGLAVLSGTRPDVFAKVFKKVVQIPSDLSDF 122 ++ F+A A +YAR +G M+ P LA L+ R + +VF +VV L +F Sbjct: 65 AEL---DSRFVANAALYARQKGHMKDMPALLLAALAAQRSALVPEVFGQVVDSGKMLRNF 121 Query: 123 LTILQ--GLGRGEGGRAVKRQVNLFLAGISEYWALKYNGRGRGRGYSLGDAIATAHPKPA 180 + IL+ GR G KR V +L +E L+ + G SL D + HPKP+ Sbjct: 122 VQILRSGATGRRSLGSQPKRLVQNWLNSATERQLLQAS---IGNQPSLADVVKMVHPKPS 178 Query: 181 DLKQQALFRYLRGQEANLALLPQVEAMEKLKQAGSAEEQIAWIERGKLPYSAVTGAIKPS 240 + ++A F ++ G+ + LP + + L A EQ+ ++P+ + G S Sbjct: 179 EAWREAFFAWVIGKPVDAKALPAL-TRDLLAFRSGASEQVP-----EVPFQ-LLGNETLS 231 Query: 241 QEVWNAILYQMPTFALLRHLNTLLRSGVLADQKNLDYVVGRLVDQDALRKARILPFRFAT 300 +E W A M L +LNTL R G +YV RL D +A+ KAR+ P++ Sbjct: 232 KEQWAAQARNMGWQGLRINLNTLARHGAFDVPGCTEYVAARLADPEAVAKARVYPYQLLA 291 Query: 301 AFRQVSE--PEL-RDALREAVDLTFDNLPDMGGRTAIFLDISGSM--------QG----- 344 A+R V + P L R+AL++A++L+ N+P + G + D+SGSM QG Sbjct: 292 AYRMVGDDVPALIREALQDALELSLTNVPKLQGAVVVCPDVSGSMGSPLTGYRQGATTAV 351 Query: 345 EYLEIGSVFALALYKKTQGKSLFWLFDTAVADAKPSRRDSILGQAERIHA--RGGTDTGA 402 +++ ++ A+ +K Q + F+ V D + RDS++ AE++ GGT A Sbjct: 352 RCIDVAALITAAVLRK-QPTARVMPFEWKVVDITLNPRDSVISNAEKLAGIFGGGTCCSA 410 Query: 403 PVRKLLEHRTKVDQIIIITDEQ-------QNSGSPFYQQLKLYRKKLNPDVKAFVVDIAP 455 P++KL + + +VD +I+++D + Q + Q ++ K++NP + +D+ P Sbjct: 411 PLKKLADSKARVDTLIMVSDNESWIDARRQGASETMLQWERI--KRINPQARLICIDLQP 468 Query: 456 YRHAMVPEQDEQTYYVYGWSDTVLSYIAQSVQGYGSMTERVAAME 500 ++D+ V G+SD V I Q G V A+E Sbjct: 469 GWATPAADRDD-ILNVGGFSDAVFDVIEQFTAGRYGPQHWVEAIE 512 >ref|NP_462423.1| putative ribonucleoprotein related-protein [Salmonella typhimurium LT2] gb|AAL22382.1| putative ribonucleoprotein related-protein [Salmonella typhimurium LT2] Length = 517 Score = 170 bits (431), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 144/517 (27%), Positives = 241/517 (46%), Gaps = 48/517 (9%) Query: 5 FASKLFSSKKPNARNQEGYPAYTRSVEEQYLQMLLTNTMSNTFYADQQELLDNAAELHEQ 64 F S L + NA NQ+G A+ + + QM++T M+ TFYA Q L++ + Sbjct: 7 FRSLLRDAPLANASNQQGAAAFAFTPRHKLAQMVMTGCMNETFYASGQAQLNDVLATAKD 66 Query: 65 MALEQPEFMAKALIYARSEGFMRLQPLFGLAVLSGTRPDVFAKVFKKVVQIPSDLSDFLT 124 + F+A+ IY R G M+ P A+L+ + VF +V+ L +F+ Sbjct: 67 L---DDLFLAQLAIYGRERGMMKDMPALLTAILAARGSALLPVVFTRVINNGRMLRNFVQ 123 Query: 125 ILQG--LGRGEGGRAVKRQVNLFLAGISEYWALKYNGRGRGRGYSLGDAIATAHPKPADL 182 +L+ GR G K+ V +L SE L+ + G SL D + HP+P Sbjct: 124 MLRSGVTGRRSLGTRPKKLVQRWLQNASEERLLQAS---VGNAPSLADIVKMVHPRPQAA 180 Query: 183 KQQALFRYLRGQEANLALLPQ-VEAMEKLKQA--GSAEEQIAWIERGKLPYSAVTGAIKP 239 Q+A F +L G+ + A LP+ A+ ++ G+A ++++ P Sbjct: 181 WQEAFFAWLIGKPCDKAQLPEKTRALLAFREGDMGAALPDVSFLLLTNAPL--------- 231 Query: 240 SQEVWNAILYQMPTFALLRHLNTLLRSGVLADQKNLDYVVGRLVDQDALRKARILPFRFA 299 S+E W + +M L +LNTL R V + V RL D+ +R++ + P++ Sbjct: 232 SREQWAQLAQRMSWQTLRMNLNTLARHDVFENATLAASVAQRLADRAQVRQSWVYPYQLL 291 Query: 300 TAFR--QVSEPE-LRDALREAVDLTFDNLPDMGGRTAIFLDISGSM--------QGEYLE 348 +A+ Q P+ +R+AL +A++ +N+P G + D+SGSM +GE + Sbjct: 292 SAWSNLQSGVPQVIREALAQAMEYALENIPPFRGNVVVCPDVSGSMKSSITGYRKGETSK 351 Query: 349 I------GSVFALALYKKTQGKSLFWLFDTAVADAKPSRRDSILGQAERIHAR--GGTDT 400 I G + A L Q + L F+ V D + R S++ A+++ A GGT+ Sbjct: 352 IRCVDVAGLIAAAVLRNHPQARVL--PFECDVVDVRLDARQSVMHNAQKLAAVGGGGTNC 409 Query: 401 GAPVRKLLEHRTKVDQIIIITD-----EQQNSGSPFYQQLKLYRKKLNPDVKAFVVDIAP 455 AP+R+LL R +VD +I+++D ++ GS + + KK NP + +D+ P Sbjct: 410 SAPLRRLLNERARVDLVIMVSDNESWVDKSRHGSTATMECWIELKKRNPQARLVCIDLLP 469 Query: 456 YRHAMVPEQDEQTYYVYGWSDTVLSYIAQSVQG-YGS 491 Y E+ + V G+SD V + I V G YGS Sbjct: 470 YGTTQAAERSD-ILNVGGFSDEVFTVIDNFVNGHYGS 505 >ref|NP_869970.1| 60-kDa SS-A/Ro ribonucleoprotein homolog [Pirellula sp. 1] emb|CAD79113.1| 60-kDa SS-A/Ro ribonucleoprotein homolog [Pirellula sp.] Length = 552 Score = 147 bits (372), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 145/527 (27%), Positives = 236/527 (44%), Gaps = 76/527 (14%) Query: 19 NQEGYPAYTRSVEEQYLQMLLTNTMSNTFYADQQELLDNAAELHEQMALEQPEFMAKALI 78 N+ G PAY S + QM T T N +YA Q LD +L ++ ++ EF+AK + Sbjct: 21 NEAGGPAYRMSAKHALAQMAATGTFGNVYYASAQNQLDAMRKLIDE--IDDNEFLAKLAV 78 Query: 79 YARSEGFMRLQPLFGLAVLSGTRPDVFAKVFKKVVQIPSDLSDFLTILQGLGRGEGGR-- 136 Y+R +M+ P L VLS + +VF +V L T+ Q G+ GR Sbjct: 79 YSRERAYMKDMPAALLVVLSTRDTKLMHQVFDRVADNGRVLR---TVFQMTRSGQFGRKG 135 Query: 137 ---AVKRQVNLFLAGISEYWALKYNGRGRGRGYSLGDAIATAHPKPADLKQQALFRYLRG 193 +++R +L S K G SL D + A P P D ++ALF +L Sbjct: 136 LSSSLQRAFQRWLNDAS---VGKLLSASIGNDPSLRDILRMARPTPKDDARRALFGWLTD 192 Query: 194 QE------ANLALLPQ-VEAMEKLKQAGSAEEQIAWIERGKLPYSAVTGAIKPSQEVWNA 246 + A LP V+++ + A +AE Q ++ + + A K VW A Sbjct: 193 KPVEKWAPATADSLPSTVQSLVAYRAADTAEAQTLIAGDLQVRWDLLADAAK-GPLVWKA 251 Query: 247 ILYQMPTFALLRHLNTLLRS------GVLA----DQKNLDYVVGRLVDQDALRKARILPF 296 I QM AL +LNTLLR G+L D +DYV G+L D+DA+ ++R P+ Sbjct: 252 IARQMGPQALRMNLNTLLRHDAFKKPGILGFAGTDNAMIDYVAGQLADRDAIARSRQFPY 311 Query: 297 RFATAFRQVSE---PELRDALREAVDLTFDNLPDMGGRTAIFLDISGSM----------- 342 +F A+ S+ +++ AL +A ++ N+P + G I LD SGSM Sbjct: 312 QFLAAYMNASDEVPSKIKSALHDAAEIACGNVPTLPGPVIIGLDTSGSMGCPVTGNRGRG 371 Query: 343 ---QGEYLEIGSVFALALYKKTQGKSLFWLFDTAVADAKPSRRDSILGQAERI--HARGG 397 + +++ ++FA A+ ++ S+ FDT K D+IL + R+ + GG Sbjct: 372 GTSKMRCVDVAALFAAAILRRNP-DSVVIPFDTQAYKVKVDPSDTILSLSARLSKYGGGG 430 Query: 398 TDTGAPVRKLLEHRTKVDQ-----IIIITDEQ------------QNSGSPFYQQLKLYRK 440 TD P +E T+ + I++++D + QN + Q + ++K Sbjct: 431 TDCSLP---FVEANTRYAKQAFAGIVLVSDNESWITSGRRYGYGQNGSTGVMTQWEKFKK 487 Query: 441 KLNP----DVKAFVVDIAPYRHAMVPEQDEQTYYVYGWSDTVLSYIA 483 D K +DI PY + PE+D+ + G+SD V + ++ Sbjct: 488 TQRGLGVVDPKLVCIDIQPYGTSQAPERDD-ILNIGGFSDAVFNVVS 533 >ref|ZP_00108461.1| COG2425: Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [Nostoc punctiforme] Length = 533 Score = 134 bits (338), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 137/481 (28%), Positives = 221/481 (45%), Gaps = 53/481 (11%) Query: 36 QMLLTNTMSNTFYADQQELLDNAAELHEQMALEQPEFMAKALIYARSEG--FMRLQPLFG 93 + LL T +T+YA +QEL ++ + E P +A+ ++YA S+G P+ Sbjct: 46 RCLLVGTAKSTYYAGKQELTEDFVTVVRLAVAENPGRVAEEILYA-SDGRAINNSAPILA 104 Query: 94 LAVLS-GTRPDV---FAKVFKKVVQIPSDLSDFLTILQGLGRGEGGRAVKRQVNLFLA-- 147 L +LS G P+ F ++F +VV+ S ++L + L RG G+ V+ +L+ Sbjct: 105 LVLLSMGETPEAKQAFGEIFPQVVRTGSHFYEWLNYTKSL-RG-FGKVVREAGKTWLSRE 162 Query: 148 ---GISEYWALKYNGRGRGRGYSLGDAIATAHPKPADLKQQALFRYL-RGQEANLALLP- 202 G++ Y LKY R +G+S DA+ H KP + LF ++ RG E +P Sbjct: 163 DVKGLA-YQLLKYQQR---QGFSHRDALRLFHVKPPTENHRQLFEWVVRGWEELPTDIPS 218 Query: 203 ----QVEAMEKLKQAGSAEEQIAWIERGKLPYSAVTGAIKPSQEVWNAILYQMPTFALLR 258 Q+ E LK+ + + I +G+L + K ++ W + +MP A+LR Sbjct: 219 EALAQIWWYEWLKRNPTQTHEA--ISQGRLTHEMAAPVGKMDKQAWQLLFQEMPISAMLR 276 Query: 259 HLNTLLRSGVL-ADQK-NLDYVVGRLVDQDALRKARILPFRFATAFRQVSE--------- 307 +L +L GVL AD+ NL V L ++ LRK RI P A + Sbjct: 277 NLGSLTELGVLRADENANLLRVEAVLNRREHLRKGRIHPIDVLKALKTYESGGTLGRSKK 336 Query: 308 -----PELRDALREAVDLTFDNLPDMGGRTAIFLDISGSMQG-------EYLEIGSVFAL 355 P + D L +AV+L+FD + G +DISGSM EI + AL Sbjct: 337 TWNPVPRIVDILEKAVELSFDVVQPTGKVFMHAVDISGSMGSLVADMGLTCCEIATTMAL 396 Query: 356 ALYKKTQGKSLFWLFDTAVADAKPSRRDSILGQAERIHAR--GGTDTGAPVRKLLEHRTK 413 + K + + F T + S +DS + + GGTD +++++ K Sbjct: 397 -VTAKAEKNYMIRGFSTEFRELGISAKDSFSSAVRKASNQNFGGTDASVAYDWMIKNKFK 455 Query: 414 VDQIIIITDEQQNSGSPF-YQQLKLYRKKLNPDVKAFVVDIAPYRHAMVPEQDEQTYYVY 472 D + TD + +G Q LK YRKK+NP+VKA V + PY+ +V +D ++ + Sbjct: 456 ADVVCFWTDSESWAGYKHPSQALKEYRKKVNPNVKAVYVTLTPYQITLVDPEDSLSWDLA 515 Query: 473 G 473 G Sbjct: 516 G 516 >ref|ZP_00060193.1| hypothetical protein [Clostridium thermocellum ATCC 27405] Length = 489 Score = 124 bits (312), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 121/510 (23%), Positives = 226/510 (44%), Gaps = 72/510 (14%) Query: 19 NQEGYPAYTRSVEEQYLQMLLTNTMS-NTFYADQ-QELLDNAAELHEQMALEQPEFMAKA 76 N EG AY+ S +E+ + +LT+ + N FY D Q++L+ + + A F+A Sbjct: 18 NNEGAIAYSMSDKEKLVTQVLTSFFNENKFYGDNSQDILNTVRNVIKNEA----AFVANL 73 Query: 77 LIYARSEGFMRL--QPLFGLAVLSGTRPDVFAKVFKKVVQIPSDLSDFLTILQGLGRGEG 134 I+AR E +R L S + + ++++ P D+++ L Sbjct: 74 CIFARKEMHLRTISHVLVSELAKSTEGKEYVRRTLNEIIERPDDMTEVLAYYINTYGKPI 133 Query: 135 GRAVKRQVNLFLAGISEYWALKYNGRGRGRGYSLGDAIATAHPKPADLKQQALFRYLRGQ 194 ++K+ + EY KYN R L D + HPK D Q L++ L Sbjct: 134 PNSIKKGLADSFGKFDEYQLAKYN---RKNAVKLKDILCLVHPKAKDEIQNDLWKRL--- 187 Query: 195 EANLALLPQVEAMEKLKQAGSAEEQIAWIERGKLPYSAVTGAIKPSQEVWNAIL--YQMP 252 ++L+ + E +++ +G ++EVW ++ ++ Sbjct: 188 -----------LEDRLETPVTWETELSL--KGN------------TKEVWERLIDENRLG 222 Query: 253 TFALLRHLNTLLRSGVLADQKNLDYVVGRLVDQDALRKARILPFRFATAFR-----QVSE 307 A++R+L +++SG N+D V L D++ + K + LPFR+ +A++ + Sbjct: 223 YMAMMRNLRNIIKSGA----SNMDKVYEYLTDEERVLKNKQLPFRYYSAYKVLRNEGIGT 278 Query: 308 PELRDALREAVDLTFDNLPDMGGRTAIFLDISGSMQG--------EYLEIGSVFALALYK 359 ++ DAL A+ ++ N+ + G+T I D+SGSM E+ +V L++ Sbjct: 279 SKIYDALEIAIKISTKNIDRLPGKTLIAADVSGSMNFPVSAKSDLTCAEV-AVLMLSIAN 337 Query: 360 KTQGKSLFWLFDTAVADAKPSRRDSILGQAERIHAR-GGTDTGAPVRKLLEHRTKVDQII 418 +S+ FD + S ++ I+ A I GGTD P+R LL+ R VD+II Sbjct: 338 YICEESITMTFDDNLYACNLSTQNGIIANANSIKVNGGGTDITLPLRYLLDKRIFVDRII 397 Query: 419 IITDEQQNS--------GSPFYQQ--LKLYRKKLNPDVKAFVVDIAPYRHAMVPEQDEQT 468 +++D + N+ P Q ++ Y+K +NP+V +D+ Y Q+ Sbjct: 398 LLSDNEINAVYTYDTGRDKPKTCQALVERYKKWINPNVWVHAIDMQGYGTQQFKGQNVNI 457 Query: 469 YYVYGWSDTVLSYIAQSVQGYGSMTERVAA 498 + GWS+ V +I+ QG ++ +++ Sbjct: 458 --IAGWSERVFDFISSVEQGIDTLIGKISG 485 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.319 0.135 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 710,966,507 Number of extensions: 29709185 Number of successful extensions: 68232 Number of sequences better than 1.0e-05: 29 Number of HSP's gapped: 68183 Number of HSP's successfully gapped: 29 Length of query: 501 Length of database: 757,237,578 Length adjustment: 130 Effective length of query: 371 Effective length of database: 404,274,708 Effective search space: 149985916668 Effective search space used: 149985916668 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 128 (53.9 bits)