RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254781085|ref|YP_003065498.1| F0F1 ATP synthase subunit B [Candidatus Liberibacter asiaticus str. psy62] (173 letters) >gnl|CDD|31055 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production and conversion]. Length = 161 Score = 64.1 bits (156), Expect = 2e-11 Identities = 39/158 (24%), Positives = 77/158 (48%), Gaps = 1/158 (0%) Query: 1 MHFDETFLVFMSLIIFLVIVVYLRIPSILLSFLDAHADKIRDDIFEARRLREKSENILMQ 60 + ++ +I L ++ IL LD KI DD+ EA RL+E+++ +L + Sbjct: 4 FNDTNILWQLIAFVILLWLLKKFVWKPIL-KALDERQAKIADDLAEAERLKEEAQALLAE 62 Query: 61 YKEKHSKVEEETREIILAAKHRAKILAEEGCQNIEQISALYLKDLEQKIHYMKLEAKRLL 120 Y+++ + E+ EII AK A+ +AEE E+ + E +I K A L Sbjct: 63 YEQELEEAREQASEIIEQAKKEAEQIAEEIKAEAEEELERIKEAAEAEIEAEKERALEEL 122 Query: 121 YAKIADFSVEIVREIISQKMNDDVNSSIFEKTISSIQS 158 A++A+ +V I +++ +K+++ + + I+ + Sbjct: 123 RAEVAELAVAIAEKLLGKKVDEAAQKDLIDAFIAELGE 160 >gnl|CDD|109486 pfam00430, ATP-synt_B, ATP synthase B/B' CF(0). Part of the CF(0) (base unit) of the ATP synthase. The base unit is thought to translocate protons through membrane (inner membrane in mitochondria, thylakoid membrane in plants, cytoplasmic membrane in bacteria). The B subunits are thought to interact with the stalk of the CF(1) subunits. This domain should not be confused with the ab CF(1) proteins (in the head of the ATP synthase) which are found in pfam00006. Length = 132 Score = 47.3 bits (113), Expect = 2e-06 Identities = 30/124 (24%), Positives = 62/124 (50%), Gaps = 2/124 (1%) Query: 13 LIIFLVIVVYLRIPSILLSFLDAHADKIRDDIFEARRLREKSENILMQYKEKHSKVEEET 72 LI+ +++ + P L LD +KI ++I EA +++ +L + +++ ++ E Sbjct: 10 LILVGLLIYFGYKP--LGKILDERKEKIANNIKEAEERLKQAAALLAEAEQQLAQARAEA 67 Query: 73 REIILAAKHRAKILAEEGCQNIEQISALYLKDLEQKIHYMKLEAKRLLYAKIADFSVEIV 132 EII AK A+ L EE ++ + L+ +I K +A L ++A +V+I Sbjct: 68 SEIINNAKKEAQKLKEEILAEAQKDAERLLESARAEIEQEKEQALAELRQQVAALAVQIA 127 Query: 133 REII 136 +++ Sbjct: 128 EKLL 131 >gnl|CDD|177041 CHL00118, atpG, ATP synthase CF0 B' subunit; Validated. Length = 156 Score = 36.1 bits (84), Expect = 0.005 Identities = 34/136 (25%), Positives = 65/136 (47%), Gaps = 15/136 (11%) Query: 7 FLVFMSLIIFLVIVVYLRIPSILLSFLDAHADKIRDDIFEARRLREKSENILMQYKEKHS 66 FL+ M L L I++Y LL LD + IR ++ +A + K+ + QY+++ S Sbjct: 32 FLLLMVL---LNIILY----KPLLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELS 84 Query: 67 KVEEETREIILAAKHRAK-ILAEE---GCQNIEQISALYLKDLEQKIHYMKLEAKRLLYA 122 K +E + I ++ AK I+ E + I+ + K LE + K +A + L Sbjct: 85 KARKEAQLEITQSQKEAKEIVENELKQAQKYIDSLLNEATKQLEAQ----KEKALKSLEE 140 Query: 123 KIADFSVEIVREIISQ 138 ++ S +I +++ + Sbjct: 141 QVDTLSDQIEEKLLIK 156 >gnl|CDD|147540 pfam05405, Mt_ATP-synt_B, Mitochondrial ATP synthase B chain precursor (ATP-synt_B). The Fo sector of the ATP synthase is a membrane bound complex which mediates proton transport. It is composed of nine different polypeptide subunits (a, b, c, d, e, f, g F6, A6L). Length = 163 Score = 33.4 bits (77), Expect = 0.033 Identities = 35/156 (22%), Positives = 75/156 (48%), Gaps = 6/156 (3%) Query: 3 FDETFLVFMSLIIFLVIVVYLRIPSILLSFLDAHADKIRDDIFEARRLREKSENILMQYK 62 +E +V + I FL+ V PSI +LD +KI+D++ ++R L EK+ ++Y Sbjct: 13 VNEETIVALCFIGFLIFVYKSLGPSIK-EWLDKRIEKIQDELNQSRNLHEKALKERIEYV 71 Query: 63 EKHSKVEEETREIILAAKHRAKILAEEGCQNIEQISALYLKDLEQKIHYMKLEAKRLLYA 122 +K V EET+ + +K + AE E +AL ++++ K+ + + + + Sbjct: 72 KKLQSVVEETKVLFEVSKETVALEAEA--FERELQAALA-REIKSKLDTL-VRKESSVRQ 127 Query: 123 KIADFSVEIVREIISQKM-NDDVNSSIFEKTISSIQ 157 + D V V + +++ +++I+ ++ Sbjct: 128 REQDHLVNWVISSVLKELSPPKFQKKSLQESIADLE 163 >gnl|CDD|153328 cd07644, I-BAR_IMD_BAIAP2L2, Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. This group is composed of uncharacterized proteins known as BAIAP2L2 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2). They contain an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. The related proteins, BAIAP2L1 and IRSp53, function as regulators of membrane dynamics and the actin cytoskeleton. The IMD domain binds and bundles actin filaments, binds membranes and produces membrane protrusions, and interacts with the small GTPase Rac. Length = 215 Score = 29.9 bits (67), Expect = 0.36 Identities = 13/41 (31%), Positives = 20/41 (48%) Query: 48 RRLREKSENILMQYKEKHSKVEEETREIILAAKHRAKILAE 88 R +RE EN+ + + ++E R L K R + LAE Sbjct: 144 RNVREMKENVNRLRQSMQAFLKESQRAAELEEKRRYRFLAE 184 >gnl|CDD|30902 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]. Length = 663 Score = 29.0 bits (65), Expect = 0.64 Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 2/92 (2%) Query: 36 HADKIRDDIFEARRLREKSENILMQYKEKHSKVEEETREIILAAKHRAKILAEEGCQNIE 95 +ADKI D + +A E+ I M Y E+H + ++ I E + + Sbjct: 553 YADKITDSMQKAIDETERRREIQMAYNEEHGITPQTIKKKIRDILDGEYEEDEYKAKIEK 612 Query: 96 QISALYLKDLEQKIHYMKLEAKRLLYAKIADF 127 + S + K+LE+ I KLE + AK +F Sbjct: 613 KASKMSKKELEKLIK--KLEKEMKEAAKNLEF 642 >gnl|CDD|33705 COG3919, COG3919, Predicted ATP-grasp enzyme [General function prediction only]. Length = 415 Score = 28.4 bits (63), Expect = 1.1 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 20/119 (16%) Query: 23 LRIPSILLS---FLDAHADKIRDDIFEARRLREKSENILMQYKEKHSK-----VEEETRE 74 +P + LS L ++ +R E + L + EKH V E Sbjct: 25 EFVPVLALSADGPLPTYSRIVRVTTHWNGPHDEGAIAFLRDFAEKHGLKGYLLVACGDGE 84 Query: 75 IILAAKHRAKILAEEGCQNIEQISALYLKDLEQKIHYMKLEAKRLLYAKIADFSVEIVR 133 ++L +++R E++SA + L L K LLY + + + + Sbjct: 85 VLLVSQYR------------EELSAFFEVPLPDWALLRWLCEKPLLYNRAEELGLPYPK 131 >gnl|CDD|34099 COG4392, COG4392, Predicted membrane protein [Function unknown]. Length = 107 Score = 26.3 bits (58), Expect = 4.9 Identities = 6/28 (21%), Positives = 17/28 (60%) Query: 6 TFLVFMSLIIFLVIVVYLRIPSILLSFL 33 + ++ ++ L++++ LR+P + FL Sbjct: 14 GAVTYLPRMLPLILLLKLRLPPWVRRFL 41 >gnl|CDD|143864 pfam00083, Sugar_tr, Sugar (and other) transporter. Length = 449 Score = 26.1 bits (58), Expect = 5.2 Identities = 7/21 (33%), Positives = 13/21 (61%) Query: 6 TFLVFMSLIIFLVIVVYLRIP 26 FLVF L++ ++ V+ +P Sbjct: 415 VFLVFAGLLVLFILFVFFFVP 435 >gnl|CDD|35484 KOG0263, KOG0263, KOG0263, Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]. Length = 707 Score = 26.1 bits (57), Expect = 5.7 Identities = 26/146 (17%), Positives = 52/146 (35%), Gaps = 13/146 (8%) Query: 2 HFDETFLVFMSLIIFLVIVVYL-----RIPSILLSFLDAHADKIRDDIFEARRLREKSEN 56 +++ +S F +++ +L +I++ ++ H D D+F+ R ++ Sbjct: 197 FRKNKYVIRLSRDSFDLLLRFLQEDNNIGGTIIIKIINQHLD---IDVFDGVMARRTTKP 253 Query: 57 ILMQYKEKHSKVEEETREIILAAKHRAKILAEEGCQNIEQISALYLKDLEQKIHYMKLEA 116 M E+ S E REI +L EE + L ++D + Sbjct: 254 TAMVGSEQESIAGEAKREINKQKVQLGLLLKEE-EIEKKLPILLEVEDDPNE----PDNE 308 Query: 117 KRLLYAKIADFSVEIVREIISQKMND 142 K K S E R+ + + Sbjct: 309 KLKKPKKKKLLSEEKKRDPNAPSRDR 334 >gnl|CDD|37145 KOG1934, KOG1934, KOG1934, Predicted membrane protein (patched superfamily) [General function prediction only]. Length = 868 Score = 25.6 bits (56), Expect = 7.2 Identities = 12/65 (18%), Positives = 24/65 (36%) Query: 5 ETFLVFMSLIIFLVIVVYLRIPSILLSFLDAHADKIRDDIFEARRLREKSENILMQYKEK 64 + F + L++ L ++ L ++LS K + A R SE ++ Sbjct: 802 QVFFKTVVLVVTLGLLHGLVFLPVILSLFPPIKKKCKRKKRAAASPRSSSEESEIKEIPS 861 Query: 65 HSKVE 69 +V Sbjct: 862 GDQVV 866 >gnl|CDD|36577 KOG1363, KOG1363, KOG1363, Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]. Length = 460 Score = 25.7 bits (56), Expect = 7.2 Identities = 17/69 (24%), Positives = 24/69 (34%), Gaps = 2/69 (2%) Query: 38 DKIRDDIFEARRLR--EKSENILMQYKEKHSKVEEETREIILAAKHRAKILAEEGCQNIE 95 D EA R+R E + EK K EEE RE L E + E Sbjct: 322 DDEYQASLEADRVREAEAEQAAEEFRLEKERKEEEEERETARQLLALESSLPPEPSASEE 381 Query: 96 QISALYLKD 104 + + ++ Sbjct: 382 EAITVAIRL 390 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.322 0.135 0.360 Gapped Lambda K H 0.267 0.0790 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 1,957,851 Number of extensions: 100377 Number of successful extensions: 495 Number of sequences better than 10.0: 1 Number of HSP's gapped: 493 Number of HSP's successfully gapped: 58 Length of query: 173 Length of database: 6,263,737 Length adjustment: 87 Effective length of query: 86 Effective length of database: 4,383,754 Effective search space: 377002844 Effective search space used: 377002844 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 (21.9 bits) S2: 54 (24.5 bits)