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= 0001.0949.p (231 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311922|ref|YP_003776014.1| biopolymer transport protein [H... 106 2e-24 gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like ... 67 9e-13 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 60 1e-10 gi|300309632|ref|YP_003773724.1| MotA/TolQ/ExbB proton channel f... 57 2e-09 gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr... 56 3e-09 >gi|300311922|ref|YP_003776014.1| biopolymer transport protein [Herbaspirillum seropedicae SmR1] Length = 241 Score = 106 bits (264), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 82/237 (34%), Positives = 130/237 (54%), Gaps = 9/237 (3%) Query: 2 DISHLLSLANGSGGTLYLMLVLLLVALTVIVERTRYLANMQLGGNELIEAIRLSPQQGDI 61 ++ LL L+ S G + ++ +LLLV L V VER + A G ++ +A+ + + D Sbjct: 3 NLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKQIDQALMRADHRNDA 62 Query: 62 TLSA----RQATLPHARLFEVLQREPAQVDRATLDGHLEEAIMHEVPGLDRSLWLLDTVV 117 L +AT+ L ++ A +D +++EAI+ +P LDR+LWLL + Sbjct: 63 ALQDIAQRYRATVFGPTLHAAVESR-ALASGEAMDRYIDEAIVRTMPELDRALWLLGAAI 121 Query: 118 TLAPLLGLFGTIIGMFNAFHVLGDVQNGASQVTGGIAEALVATASGLFIAMIGLAFFNAL 177 TL PL+GL GTIIG+ +F+VLG + + VT GI +L+AT GL +A+ G+A + Sbjct: 122 TLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSYF 181 Query: 178 HTRVRIVLHQLETIKIMLVNRHEQRHEQ---RHDQAQASTAGSPPAAVRVWAQPARA 231 RVR+ L +L+ IK++ + +H E RH+ A+A AG AA + A A A Sbjct: 182 SKRVRLALLELDLIKLVFIKQHCLLEESIVLRHN-AEAHPAGQGKAAPKRTADVAYA 237 >gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 201 Score = 67.4 bits (163), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 52/171 (30%), Positives = 84/171 (49%), Gaps = 2/171 (1%) Query: 6 LLSLANGSGGTLYLMLVLLLVALTVIVERTRYLANMQLGGNELIEAIRLSPQQGDITLSA 65 +L++ +G ++ +L+ ++ L +++ER YL ++ +L+ + Q G IT Sbjct: 1 MLAIILAAGWPIWPLLIASIIGLALVIERLVYLRRSRILPPDLLNQVVRVYQSGRITDDV 60 Query: 66 RQATLPHARLFEVLQREPAQVD--RATLDGHLEEAIMHEVPGLDRSLWLLDTVVTLAPLL 123 ++ L VL VD R + +EEA L+R L L T+ +LAPL+ Sbjct: 61 ADKLEQNSPLGHVLAAGLRNVDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLM 120 Query: 124 GLFGTIIGMFNAFHVLGDVQNGASQVTGGIAEALVATASGLFIAMIGLAFF 174 GLFGT++GM F +Q+ GI+ AL T GL IAM L F+ Sbjct: 121 GLFGTVVGMIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFY 171 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 60.1 bits (144), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 37/89 (41%), Positives = 53/89 (59%), Gaps = 4/89 (4%) Query: 91 LDGH---LEEAIMHEVPGLDRSLWLLDTVVTLAPLLGLFGTIIGMFNAFHVLGDVQNGA- 146 LDG + A E+ L+ L L +V +++P +GLFGT+ G+ NAF L +VQ Sbjct: 117 LDGARRAMRAAYQREMDALESHLAFLASVGSVSPYVGLFGTVWGIMNAFRGLANVQQATL 176 Query: 147 SQVTGGIAEALVATASGLFIAMIGLAFFN 175 + V GIAEAL+ATA GLF A+ + +N Sbjct: 177 AAVAPGIAEALIATAIGLFAAIPAVVAYN 205 >gi|300309632|ref|YP_003773724.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 208 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 60/181 (33%), Positives = 92/181 (50%), Gaps = 9/181 (4%) Query: 17 LYLMLVLLLVALTVIVERTRYLANMQLGGNELIEAIRLSPQ---QGDITLSARQATLPHA 73 YLM +A+ VIVER + L A+ + Q + L+AR +LP A Sbjct: 11 FYLMYACAALAIFVIVERGLFFGYTMRQATGLERAMTHAVQHLKELPAALTAR-PSLPLA 69 Query: 74 RLFEVLQREPAQVDRATLDGHLEEAIMHEVPGLDRSLWLLDTVVTLAPLLGLFGTIIGMF 133 + ++L + L+ E + + + + LW+LDT+VT APLLGL GTI+G+ Sbjct: 70 LVSDILAEKHHLTTEKDLEDFSESVYIAKRGEVQQRLWILDTIVTAAPLLGLLGTILGII 129 Query: 134 NAFHVLGDVQNGAS---QVTGGIAEALVATASGLFIAMIGLAFFNALHTRVRIVLHQLET 190 + F L +G S QV+ GI AL ATA G+ IA++G+ FFN R+ + L+ Sbjct: 130 DTFKALA--VSGVSDPGQVSQGIGTALYATALGIGIAVVGMFFFNLFQERIERINDHLKV 187 Query: 191 I 191 + Sbjct: 188 L 188 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 55.8 bits (133), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 57/191 (29%), Positives = 90/191 (47%), Gaps = 22/191 (11%) Query: 18 YLMLVLLLVALTVIVERTRYLANMQLGGNELIEAIRLSPQQGDIT-----LSARQATLPH 72 YL+L++ + + I+ + ++ G N L E +P D T L + Q P Sbjct: 23 YLLLIMSIASWYYILSKAWAAWRIRRGSNAL-ERFWQAPTLADATAAMQRLDSEQIYTPM 81 Query: 73 A-RLFEVL-----QREPAQVDRATLDGHL-----EEAIMHEVPGLDRSLWLLDTVVTLAP 121 A R E Q+ ++ AT G L I L+R L LL +V + AP Sbjct: 82 AERAAEAADIGTRQQGTPSLNAATDPGELITRTLRREINRVSARLERGLTLLASVGSTAP 141 Query: 122 LLGLFGTIIGMFNAFHVL---GDVQNGASQVTGGIAEALVATASGLFIAMIGLAFFNALH 178 +GLFGT+ G+++A + G VQ +V G + EAL+ TA GL +A+ + +NA Sbjct: 142 FVGLFGTVWGIYHALVAVSASGTVQ--IDKVAGPVGEALIMTALGLLVAIPAVLAYNAFT 199 Query: 179 TRVRIVLHQLE 189 R+VL +L+ Sbjct: 200 RINRVVLAELD 210 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 0.323 0.137 0.390 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: 704,627 Number of extensions: 27348 Number of successful extensions: 158 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 5 Length of query: 231 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 149 Effective length of database: 1,231,600 Effective search space: 183508400 Effective search space used: 183508400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 129 (54.3 bits)