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= 0007.0086.p (185 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 300 5e-83 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 167 5e-43 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 156 1e-39 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 112 2e-26 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 100 6e-23 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 300 bits (767), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 140/182 (76%), Positives = 161/182 (88%) Query: 1 VPVTNAARIPTLQANRADVVIADLSITPERAKVVDFSVPYAVITIIVGGPKNIQIKDYND 60 +PV NAAR+PTLQANRAD+V+ LSITPER KV+DFS PYAVI++I+G PK++ IKDY D Sbjct: 82 IPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVIKDYAD 141 Query: 61 LNGKRIGLTRATVNDTLTTAQAKGAEIVRYEDDATLITSMVTGQVEIFSSTPSNLGEMIK 120 LNGKRIG+TRAT NDTLTT AKGAEI+RYEDDATLITSMVTGQV++FSSTPSNL EM K Sbjct: 142 LNGKRIGVTRATPNDTLTTQNAKGAEIMRYEDDATLITSMVTGQVDVFSSTPSNLQEMQK 201 Query: 121 RAPGKNLELKFAQKDFDLGIAFNQNQPRLKEWINNWVLTNHRNGKLDAIYVKFHGRHLPA 180 +APGKNLE+KF QK FDLGIA N+NQPRLKEWI+ WV TN +NGKL+AIY K+HGR LPA Sbjct: 202 KAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKKYHGRDLPA 261 Query: 181 AV 182 AV Sbjct: 262 AV 263 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 167 bits (423), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 83/183 (45%), Positives = 120/183 (65%), Gaps = 1/183 (0%) Query: 1 VPVTNAARIPTLQANRADVVIADLSITPERAKVVDFSVPYAVITIIVGGPKNIQIKDYND 60 VP T R+P LQ N+AD+VI+ SITPERAKV+DFSVPYA I ++VG P++++I D Sbjct: 82 VPTTLTNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPAD 141 Query: 61 LNGKRIGLTRATVND-TLTTAQAKGAEIVRYEDDATLITSMVTGQVEIFSSTPSNLGEMI 119 L GK+I TR T ND LT A I R++DDAT +T+MV+GQ +I++++P L + Sbjct: 142 LAGKKIIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVN 201 Query: 120 KRAPGKNLELKFAQKDFDLGIAFNQNQPRLKEWINNWVLTNHRNGKLDAIYVKFHGRHLP 179 ++ P +++E K K L + + +PRLKE I+ W+ TN NG+L+ IY K+H LP Sbjct: 202 QKNPSRDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 261 Query: 180 AAV 182 + Sbjct: 262 PEI 264 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 156 bits (394), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 81/181 (44%), Positives = 111/181 (61%), Gaps = 3/181 (1%) Query: 1 VPVTNAARIPTLQANRADVVIADLSITPERAKVVDFSVPYAVITIIVGGPKNIQIKDYND 60 V VT RIP L +AD+VI+ SITPER KVV F+ PY +V PK IK ND Sbjct: 81 VQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLND 140 Query: 61 LNGKRIGLTRATVNDTLTTAQA-KGAEIVRYEDDATLITSMVTGQVEIFSSTPSNLGEMI 119 L GKR+ + R + D+L T A KG IVR++DDAT+ ++++GQV+ TP++L I Sbjct: 141 LVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDALC-TPNSLASAI 199 Query: 120 -KRAPGKNLELKFAQKDFDLGIAFNQNQPRLKEWINNWVLTNHRNGKLDAIYVKFHGRHL 178 K+ P KNLE KFA KD I + +P L++W+N W+ N +NGKL IY ++ G + Sbjct: 200 AKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVGSPM 259 Query: 179 P 179 P Sbjct: 260 P 260 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 112 bits (280), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 65/183 (35%), Positives = 102/183 (55%), Gaps = 1/183 (0%) Query: 1 VPVTNAARIPTLQANRADVVIADLSITPERAKVVDFSVPYAVITIIVGGPKNIQIKDYND 60 +PV++A RIP L + D+VI+ + ER KV+DFS YA V GP ++ +K D Sbjct: 78 IPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAAD 137 Query: 61 LNGKRIGLTRATVND-TLTTAQAKGAEIVRYEDDATLITSMVTGQVEIFSSTPSNLGEMI 119 L GK I +TR +V D LT A + RYED+ + I+S ++GQV++ ++ +I Sbjct: 138 LAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAII 197 Query: 120 KRAPGKNLELKFAQKDFDLGIAFNQNQPRLKEWINNWVLTNHRNGKLDAIYVKFHGRHLP 179 R P K E KF KD I N+ + +L++ ++ + + ++G L AI K+ G LP Sbjct: 198 ARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPLP 257 Query: 180 AAV 182 A + Sbjct: 258 AGL 260 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 100 bits (249), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 62/184 (33%), Positives = 99/184 (53%), Gaps = 1/184 (0%) Query: 1 VPVTNAARIPTLQANRADVVIADLSITPERAKVVDFSVPYAVITIIVGGPKNIQIKDYND 60 VPV +A RI LQ ++AD+VI+ L ER KV+DFS PYA V G ++++ D Sbjct: 80 VPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPAD 139 Query: 61 LNGKRIGLTRATVND-TLTTAQAKGAEIVRYEDDATLITSMVTGQVEIFSSTPSNLGEMI 119 L K +G+ R T D LT K A I RYED+ +I++ V+GQV++ + + Sbjct: 140 LADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALA 199 Query: 120 KRAPGKNLELKFAQKDFDLGIAFNQNQPRLKEWINNWVLTNHRNGKLDAIYVKFHGRHLP 179 ++AP LK+ ++ + N+ +P L +N + ++G+L+ I K+ LP Sbjct: 200 EKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGIVQKWLNVPLP 259 Query: 180 AAVA 183 A +A Sbjct: 260 AKMA 263 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 0.318 0.134 0.383 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: 560,169 Number of extensions: 21116 Number of successful extensions: 106 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 105 Number of HSP's successfully gapped: 9 Length of query: 185 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 105 Effective length of database: 1,241,070 Effective search space: 130312350 Effective search space used: 130312350 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 (21.7 bits) S2: 128 (53.9 bits)