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= 0001.3294.p (346 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312623|ref|YP_003776715.1| chaperone activity ATPase [Herb... 668 0.0 gi|300312956|ref|YP_003777048.1| CDP-6-deoxy-L-threo-D-glycero-4... 273 1e-74 gi|300310642|ref|YP_003774734.1| electron transfer component of ... 151 1e-37 gi|300314077|ref|YP_003778169.1| ferredoxin [2Fe-2S]-type protei... 61 1e-10 >gi|300312623|ref|YP_003776715.1| chaperone activity ATPase [Herbaspirillum seropedicae SmR1] Length = 349 Score = 668 bits (1724), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/349 (92%), Positives = 336/349 (96%), Gaps = 3/349 (0%) Query: 1 MSFQVTVQPSGRQFTCDADESILTAAIRAGVGLPYGCKNGACSSCKGKLLSGQVEHGAHQ 60 MSFQVTVQPSGRQFTCDADESILTAAIRAGVGLPYGCKNGACSSCKGKL+SGQVEHG HQ Sbjct: 1 MSFQVTVQPSGRQFTCDADESILTAAIRAGVGLPYGCKNGACSSCKGKLVSGQVEHGPHQ 60 Query: 61 ERALSAHEEQLGYALFCVAKPQSDVTIEAREVAGVGEIPVRKLPVRVAKLEKVADDVIIL 120 ERALSAHE+QLG ALFCVAKPQSDVTIEAREVAG G+IPVRKLPVRVAKL+KVADDVI+L Sbjct: 61 ERALSAHEQQLGMALFCVAKPQSDVTIEAREVAGAGDIPVRKLPVRVAKLDKVADDVIVL 120 Query: 121 SLQLPANDRLQYKAGQYVEFLLRDGKRRSYSMANAPHKDEPMSLHIRHLPGGLFTDQVFS 180 SLQLPANDRLQYKAGQYVEFLLRDGKRRSYSMA APHKDE MSLHIRHLPGGLFTDQVF+ Sbjct: 121 SLQLPANDRLQYKAGQYVEFLLRDGKRRSYSMATAPHKDEHMSLHIRHLPGGLFTDQVFT 180 Query: 181 TLKERDILRIEGPLGTFFLREDSDKPIILLASGTGFAPIKAIVEQLQHAGSKRPVTLYWG 240 TLKERDILRIEGPLGTFFLREDSDKPIILLASGTGFAPIKAIVEQL+HAGSKRPVTLYWG Sbjct: 181 TLKERDILRIEGPLGTFFLREDSDKPIILLASGTGFAPIKAIVEQLEHAGSKRPVTLYWG 240 Query: 241 GRRPQDLYLNALCQQWEQELPDFKYVPVVSNAQPEDHWSGRTGFVHRAVMEDFPDLSAHQ 300 GRRPQDLY++ALCQQWEQ LP+FKYVPVVSNAQ ED+WSGRTGFVHRAVMEDFPDLS HQ Sbjct: 241 GRRPQDLYMDALCQQWEQTLPNFKYVPVVSNAQAEDNWSGRTGFVHRAVMEDFPDLSGHQ 300 Query: 301 VYACGAPIVVESAQRDFSAQCKLPEGEFYADSFTSEADLAKP---APAA 346 VYACGAPIVVESAQRDFSAQC LP+ EFYADSFTSEADLAKP +PAA Sbjct: 301 VYACGAPIVVESAQRDFSAQCGLPQDEFYADSFTSEADLAKPVADSPAA 349 >gi|300312956|ref|YP_003777048.1| CDP-6-deoxy-L-threo-D-glycero-4-hexulose-3-dehydrase reductase [Herbaspirillum seropedicae SmR1] Length = 360 Score = 273 bits (698), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 133/234 (56%), Positives = 169/234 (72%), Gaps = 4/234 (1%) Query: 109 KLEKVADDVIILSLQLPANDRLQYKAGQYVEFLLRDGKRRSYSMAN-APHKDEPMSLHIR 167 L + A DV IL L+ A L Y+AGQY++ LL DG+RRSYSMA A + + LH+R Sbjct: 130 SLTRAAPDVAILRLRCAAP--LSYRAGQYIDLLLEDGQRRSYSMATYAKDGSDLLELHVR 187 Query: 168 HLPGGLFTDQVFSTLKERDILRIEGPLGTFFLREDSDKPIILLASGTGFAPIKAIVEQLQ 227 HLPGGLFTD++F+ ++ +EGP G+FF+RE + +P+ILLASGTGFAP+KA+VE+ Sbjct: 188 HLPGGLFTDRLFNGMQPGQQFSLEGPAGSFFMREGT-QPLILLASGTGFAPVKALVEEAI 246 Query: 228 HAGSKRPVTLYWGGRRPQDLYLNALCQQWEQELPDFKYVPVVSNAQPEDHWSGRTGFVHR 287 +GS R + LYWGGRR DLYL+ALC+ W LP F YVPV+S A WSGRTG VHR Sbjct: 247 ASGSTRAMRLYWGGRRAADLYLDALCRDWAASLPWFDYVPVLSEADATSGWSGRTGLVHR 306 Query: 288 AVMEDFPDLSAHQVYACGAPIVVESAQRDFSAQCKLPEGEFYADSFTSEADLAK 341 AVM+D P + +QVYACGAP+VVESA+RDF+A C L E F+AD+F S ADL K Sbjct: 307 AVMQDVPAMQQYQVYACGAPVVVESARRDFTAACGLSETAFFADAFVSRADLRK 360 >gi|300310642|ref|YP_003774734.1| electron transfer component of chlorobenzoate 1,2-dioxygenase [Herbaspirillum seropedicae SmR1] Length = 351 Score = 151 bits (381), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 109/328 (33%), Positives = 158/328 (48%), Gaps = 18/328 (5%) Query: 12 RQFTCDADESILTAAIRAGVGLPYGCKNGACSSCKGKLLSGQVEHGA-HQERALSAHEEQ 70 R C A E +L AA R + LP C +G C +CK + SG + G + + ALS+ E Sbjct: 16 RIIDCGAKEKVLDAAFRNRINLPMDCSDGVCGTCKCRAESGLYDLGDDYIDDALSSDEAG 75 Query: 71 LGYALFCVAKPQSDVTIEAREVAGVGEIPVRKLPVRVAKLEKVADDVIILSLQLPANDRL 130 G L C PQSD I + + +VA L + L L+ PAN Sbjct: 76 AGMVLTCQMVPQSDCVIAVPVASTACKTGTASFTGKVAGLSDLGGAAFELVLEAPANAP- 134 Query: 131 QYKAGQYVEF-LLRDGKRRSYSMANAPHKDEPMSLHIRHLPGGLFTDQVFSTLKERDILR 189 + GQYV + G+ RSYS ++ P MS I+++PGGL ++ + + E L Sbjct: 135 AFLPGQYVNIGVPGSGQHRSYSFSS-PSGASRMSFLIKNVPGGLMSNWL-AGASEGATLE 192 Query: 190 IEGPLGTFFLREDSDKPIILLASGTGFAPIKAIVEQLQHAGSKRPVTLYWGGRRPQDLYL 249 + GPLG+F+LR +P+++LA GTG AP +++E+L G +PV L +G R QDL L Sbjct: 193 LTGPLGSFYLRP-VKRPVLMLAGGTGLAPFLSMLEELAQQGLDQPVHLIYGVTRDQDLVL 251 Query: 250 NALCQQWEQELPDFKYVPVVSNAQPEDHWSGRTGFVHR----AVMEDFPDLSAHQVYACG 305 Q LP F + V++ R G+V + AV+ D VY CG Sbjct: 252 VERLQALADRLPGFSFTTCVADPATT---HARQGYVTQHMPAAVLHD----GNVDVYLCG 304 Query: 306 APIVVESAQRDFSAQCKLPEGEFYADSF 333 P +VE+ Q+ F A P FY + F Sbjct: 305 PPPMVEAVQKHFQATGMQP-ASFYYEKF 331 >gi|300314077|ref|YP_003778169.1| ferredoxin [2Fe-2S]-type protein [Herbaspirillum seropedicae SmR1] Length = 100 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 31/87 (35%), Positives = 50/87 (57%), Gaps = 1/87 (1%) Query: 1 MSFQVTVQPSGRQFTCDADESILTAAIRAGVGLPYGCKNGACSSCKGKLLSGQVEHGAHQ 60 + F V +QPSG QF S+L +A+ A + LP C+NG C +C KL +G++++ Sbjct: 5 IRFLVRIQPSGLQFEQVPGRSVLLSALSASIRLPNSCRNGTCRTCMCKLSTGRIDYQIEW 64 Query: 61 ERALSAHEEQLGYALFCVAKPQSDVTI 87 L+ E+ G+ L CVA+ SD+ + Sbjct: 65 P-GLTREEKAEGWILPCVAEAASDLEL 90 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.319 0.136 0.408 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,164,526 Number of extensions: 51549 Number of successful extensions: 152 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 4 Length of query: 346 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 260 Effective length of database: 1,212,660 Effective search space: 315291600 Effective search space used: 315291600 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: 131 (55.1 bits)