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= 0001.0845.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 583 e-168 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 84 1e-17 gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 73 3e-14 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 70 2e-13 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 70 2e-13 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 583 bits (1502), Expect = e-168, Method: Compositional matrix adjust. Identities = 296/312 (94%), Positives = 305/312 (97%) Query: 1 VFKNKLLAAALGLSFAVGTSAVQAQEVYVPLISKGFQHQFWQAVKAGADQAGKDLKVKVS 60 +FKNKLL AALGL+FA+G SA QAQE Y+PLISKGFQHQFWQAVKAGADQAGKD KVKV+ Sbjct: 1 MFKNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDYKVKVT 60 Query: 61 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD 120 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD Sbjct: 61 FEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD 120 Query: 121 SDIPVTTATTDNRAAAALAADKMAELIGKEGEVAVVAHDQTSRTGVDRRDGFLERIKANY 180 SDIPVTTATTDNRAAAALAADKMAEL+GKEGEVAVVAHDQTSRTGVDRRDGFLERIK+ Y Sbjct: 121 SDIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAY 180 Query: 181 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVREMKRKIIII 240 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGV+EMKRKIIII Sbjct: 181 PKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKRKIIII 240 Query: 241 GYDSGKQQKDAIREGVMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN 300 GYDSGKQQKDAIREG+MAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN Sbjct: 241 GYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSN 300 Query: 301 IDDPKIAAVLYD 312 IDD KIAAVLYD Sbjct: 301 IDDAKIAAVLYD 312 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 87/291 (29%), Positives = 136/291 (46%), Gaps = 22/291 (7%) Query: 13 LSFAVGTSAVQAQEVYVP---LISKGFQHQFWQAVKAGAD--QAGKDLKVKVSFEGPETE 67 L+ AV A AQ P L+ K ++F+ ++ GA Q K + G + E Sbjct: 14 LACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIANGIKDE 73 Query: 68 AMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDS------ 121 QI ++ + K A+ A DSKA +P++KKA A I VV D+ +D Sbjct: 74 QDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALKEK 133 Query: 122 DIPVTTATTDNRAAAALAADKMAELIGKEGEVAVVAHDQTSRTGVDRRDGFLERIK---A 178 I V DNR A LA D + + + K +VA++ T+ R GF + +K A Sbjct: 134 GITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAMKDVGA 193 Query: 179 NYPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVREMKR--K 236 N VV+VQ G + + +V SIL A+P IK I N+ A+G V +R + K Sbjct: 194 N-----VVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGK 248 Query: 237 IIIIGYDSGKQQKDAIREGVMAGAITQNPVGIGYKTVEAAVKAIKGEKLPK 287 + ++GYD+ K +++G + + Q +E A+KA+ EK P+ Sbjct: 249 VQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAL-SEKKPQ 298 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/264 (25%), Positives = 129/264 (48%), Gaps = 6/264 (2%) Query: 25 QEVYVPLISKGFQHQFWQAVKAGADQAGKDL-KVKVSFEGPETEAMVDKQIDMLSAALAK 83 ++V + ++ K + F+ A GA +A ++L V+V + GP T + QI+++++ +++ Sbjct: 37 EKVRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGPTTPT-AEGQIEIVNSLISQ 95 Query: 84 KPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIPVTTATTDNRAAAALAADKM 143 K AI +A D+ A +P+ K+A + V++FDSG+ + N L +M Sbjct: 96 KVDAIVISANDANALVPITKRAMQRGVKVLSFDSGIAKGGRLMQLNPSNAELIGLKQIQM 155 Query: 144 -AELIGKEGEVAVV-AHDQTSRTGVDRRDGFLERIKANYPKIKVVSVQYGAGDQLKSTEV 201 AE IG G+VA++ A Q + + + + + ++K+V+ YG KS Sbjct: 156 AAEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEFSRMKLVATVYGDDQSDKSYRE 215 Query: 202 TKSILQAYPKIKGIFG-TNEG-SAIGVVNGVREMKRKIIIIGYDSGKQQKDAIREGVMAG 259 +L+++P +K I T G +A G ++ K+ + G + ++ G + Sbjct: 216 AIGLLRSHPGLKAIIAPTTVGINAAGKAVVDEKLVGKVYVTGLGLPSEMAGHVKSGAVKS 275 Query: 260 AITQNPVGIGYKTVEAAVKAIKGE 283 NP+ +GY AA + +KG+ Sbjct: 276 FAIWNPIDLGYAATYAAYQFVKGK 299 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 146/312 (46%), Gaps = 34/312 (10%) Query: 3 KNKLLAAALGLSFAVGTSAVQAQEVYVPLISKGFQH----QFWQ-----AVKAGADQAGK 53 + LL AA+ LS ++ A PL + GF W+ ++K A QAG Sbjct: 5 RRALLGAAICLSLGSSAMSLPAFAADKPL-TMGFSQVGAESEWRTANTVSIKDAAKQAGV 63 Query: 54 DLKVKVSFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVV 113 +LK + + + Q+ + + +A+K I F+ + +L++A+AAKIPV+ Sbjct: 64 NLKF------ADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVI 117 Query: 114 AFDSGV---DSDIPVTTATTD----NRAAAALAADKMAELIGKEGEVAVVAHDQT--SRT 164 D V D + VT +D R A +K + G++ +V T S Sbjct: 118 LTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSM--PAGDINIVELQGTVGSAP 175 Query: 165 GVDRRDGFLERIKANYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSA 223 +DR+ GF E IK P++K++ Q G + K EV ++ L+A KI ++ N+ A Sbjct: 176 AIDRKAGFEEVIKGE-PRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMA 234 Query: 224 IGVVNGVRE--MK--RKIIIIGYDSGKQQKDAIREGVMAGAITQNPVGIGYKTVEAAVKA 279 IG + + E MK + IIII D K +A+ G + + +P+ +G + ++ A Sbjct: 235 IGAIQAIEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMQIAKDI 293 Query: 280 IKGEKLPKVIDT 291 G+++PK I T Sbjct: 294 KAGKEVPKRITT 305 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 106/233 (45%), Gaps = 3/233 (1%) Query: 72 KQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDSDIPVTTATTD 131 +Q ++ +AKK AI ++D P+LK+A I VV ++ + V D Sbjct: 75 QQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEADNQKNTLVDIEAFD 134 Query: 132 NRAAAALAADKMAELIGKEGEVAVVAHDQTSRTGVDRRDGFLERIKANYPKIKVVSVQY- 190 N A A D++A +G+ G+ + + S++ V DG YPK+ +V + Sbjct: 135 NTAYGARLNDRLAACMGQAGKWSSLVGSLGSQSQVQWADGGAANAAKKYPKMTLVDAKNE 194 Query: 191 GAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVRE--MKRKIIIIGYDSGKQQ 248 A D K+ K IL+ +P IKG G++ +G+ V E ++ K+ + G + Sbjct: 195 SANDAEKAYAKAKEILRKHPDIKGFQGSSSLDVLGIGRAVEEAGLQGKVCVYGTGLPSEA 254 Query: 249 KDAIREGVMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVIDTGFYWYDKSNI 301 + G + G +P G +AA+ ++G+K+ +D G Y+K + Sbjct: 255 AKFLESGAVGGIAFWDPKDAGLAMNKAAMMLVQGKKITDGMDLGIPGYNKVTV 307 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 0.315 0.132 0.363 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: 885,261 Number of extensions: 34983 Number of successful extensions: 161 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 9 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.5 bits) S2: 130 (54.7 bits)