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= 0001.0052.p (140 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 253 3e-69 gi|300311609|ref|YP_003775701.1| sugar ABC transporter ATPase [H... 134 2e-33 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 132 1e-32 gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [H... 128 2e-31 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 107 3e-25 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 253 bits (647), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/139 (91%), Positives = 130/139 (93%), Gaps = 5/139 (3%) Query: 1 MDQRAIREVAQGYVRQLAIKTPSVEQQAHPQKPPLLSGGNQQKIVIAKWLLRDCDILFFD 60 MDQRAIRE AQ YVRQLAIKTPSVEQQA LLSGGNQQKIVIAKWLLRDCDILFFD Sbjct: 386 MDQRAIREAAQMYVRQLAIKTPSVEQQAR-----LLSGGNQQKIVIAKWLLRDCDILFFD 440 Query: 61 EPTRGIDIGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRILVMCEGRVTGELARA 120 EPTRGID+GAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHR+LVMCEGR+TGELARA Sbjct: 441 EPTRGIDVGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGRITGELARA 500 Query: 121 DATQENIMQLATQRESAVA 139 DATQE IMQLATQRESAVA Sbjct: 501 DATQEKIMQLATQRESAVA 519 >gi|300311609|ref|YP_003775701.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 522 Score = 134 bits (338), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 68/131 (51%), Positives = 91/131 (69%), Gaps = 5/131 (3%) Query: 1 MDQRAIREVAQGYVRQLAIKTPSVEQQAHPQKPPLLSGGNQQKIVIAKWLLRDCDILFFD 60 +D A VAQ YV++L I++ SV Q A LSGGNQQK+VIA+WL RDC I+ FD Sbjct: 376 LDHAAESSVAQDYVKKLRIRSGSVAQAAGE-----LSGGNQQKVVIARWLYRDCPIMLFD 430 Query: 61 EPTRGIDIGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRILVMCEGRVTGELARA 120 EPTRGIDIGAKS+IY+L LA QGK ++++SS+L E++++ RI VM GR+ +R Sbjct: 431 EPTRGIDIGAKSDIYRLFAELAAQGKGLLVVSSDLRELMQICDRIAVMSAGRIADTFSRD 490 Query: 121 DATQENIMQLA 131 D +QE I+ A Sbjct: 491 DWSQERILAAA 501 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 132 bits (332), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 71/130 (54%), Positives = 94/130 (72%), Gaps = 7/130 (5%) Query: 4 RAIREVAQGYVRQLAIKTPSVEQQAHPQKP-PLLSGGNQQKIVIAKWLLRDCDILFFDEP 62 R++ VA+ +++L +K AHP+ P LSGGNQQK+++A+WL +L DEP Sbjct: 375 RSLGGVARAAIQRLNVKV------AHPETPVGKLSGGNQQKVLLARWLEIAPKVLILDEP 428 Query: 63 TRGIDIGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRILVMCEGRVTGELARADA 122 TRG+DI AKSEIY+L+ LA QG A+V+ISSELPEV+ + R+LVM EG +TGELA A Sbjct: 429 TRGVDIYAKSEIYQLVHRLASQGVAVVVISSELPEVIGICDRVLVMREGMITGELAGAAI 488 Query: 123 TQENIMQLAT 132 TQENIM+LAT Sbjct: 489 TQENIMRLAT 498 Score = 56.2 bits (134), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 37/135 (27%), Positives = 65/135 (48%), Gaps = 6/135 (4%) Query: 1 MDQRAIREVAQGYVRQLAIKTPSVEQQAHPQKPPLLSGGNQQKIVIAKWLLRDCDILFFD 60 +D A+R +RQL + + LS QQ++ IA+ L+ I+ D Sbjct: 115 IDHAAMRSRTDAVLRQLGAGFGASDLAGR------LSIAEQQQVEIARALVHRSRIVIMD 168 Query: 61 EPTRGIDIGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRILVMCEGRVTGELARA 120 EPT + +++ ++ L ++G AI+ IS + EV ++ R+ V+ +G GEL R Sbjct: 169 EPTAALSERETEQLFNVVRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFVGELVRD 228 Query: 121 DATQENIMQLATQRE 135 + E I+Q+ R Sbjct: 229 EIDSERIVQMMVGRS 243 >gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 128 bits (321), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 64/122 (52%), Positives = 86/122 (70%), Gaps = 5/122 (4%) Query: 8 EVAQGYVRQLAIKTPSVEQQAHPQKPPLLSGGNQQKIVIAKWLLRDCDILFFDEPTRGID 67 ++A + +Q+ I+ SV QK LSGGNQQK+V++KWL ++L DEPTRGID Sbjct: 385 KIAADFKQQMRIRCSSV-----LQKVVNLSGGNQQKVVLSKWLFSQPEVLILDEPTRGID 439 Query: 68 IGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRILVMCEGRVTGELARADATQENI 127 +GAK EIY ++ LA +GK I+MISSE+PE+L M RI VM EG+ G L +A+ATQENI Sbjct: 440 VGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYVMNEGQFVGHLPKAEATQENI 499 Query: 128 MQ 129 M+ Sbjct: 500 MR 501 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 107 bits (268), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 52/99 (52%), Positives = 72/99 (72%) Query: 36 LSGGNQQKIVIAKWLLRDCDILFFDEPTRGIDIGAKSEIYKLLDALAEQGKAIVMISSEL 95 LSGGNQQK V+AK LL +L DEPTRG+D+GAK+EIY+L+ LA+ G AI+M+SSEL Sbjct: 408 LSGGNQQKAVLAKMLLAQPKVLILDEPTRGVDVGAKAEIYRLISELAKAGLAIIMVSSEL 467 Query: 96 PEVLRMSHRILVMCEGRVTGELARADATQENIMQLATQR 134 EVL +S R+LV+ EGR+ G+ + +QE ++ A + Sbjct: 468 AEVLGVSDRVLVIGEGRLRGDFVNDNLSQETVLAAAINQ 506 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 0.133 0.371 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: 397,681 Number of extensions: 14913 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 32 Number of HSP's gapped: 241 Number of HSP's successfully gapped: 36 Length of query: 140 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 64 Effective length of database: 1,260,010 Effective search space: 80640640 Effective search space used: 80640640 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: 126 (53.1 bits)