RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780728|ref|YP_003065141.1| pilus assembly protein [Candidatus Liberibacter asiaticus str. psy62] (263 letters) >gnl|CDD|163174 TIGR03177, pilus_cpaB, Flp pilus assembly protein CpaB. Members of this protein family are the CpaB protein of Flp-type pilus assembly. Similar proteins include the FlgA protein of bacterial flagellum biosynthesis. Length = 261 Score = 156 bits (397), Expect = 4e-39 Identities = 81/224 (36%), Positives = 116/224 (51%), Gaps = 16/224 (7%) Query: 9 IVVSGVFALVAGIIAMRLVSPHHVQTEEVITENPAKFINVLISKGDLAVGMVVTPNILEW 68 + ++ V +A ++A R +SP E + V+++ DL G +T L W Sbjct: 2 LAIALVAGGLAALLARRWLSPQQPAAAVA--EKVPT-VPVVVAARDLPAGTPITAEDLRW 58 Query: 69 VAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEKLVDRG-NGGLSSLLPK 127 V +PE +V G DD+ Q L G +VR P+ G+PI KL G +GGL++L+P Sbjct: 59 VLWPEASVPAGAFDDIAQ------LVGRIVRRPLEAGEPILEAKLAPPGASGGLAALIPP 112 Query: 128 GKRAATMDISISSAVGGMIKPNDHVDVVMVRSLSER----KPTVTVVLSNIRVIAIDHNI 183 G RA + + + VGG I P D VDV++ R E + T VL NIRV+A+D Sbjct: 113 GMRAVAIRVDEVTGVGGFILPGDRVDVLLTRRDDESRPNDRATSETVLQNIRVLAVDQTT 172 Query: 184 --DSDERVLVGSTATLELTPMQAKALVAAQSVAKLSLVLRSIAD 225 D + V T TLE+TP QA+ L A+ V LSL LR+ AD Sbjct: 173 QEGEDTKPKVVRTVTLEVTPEQAEKLALARQVGTLSLALRNAAD 216 >gnl|CDD|129091 smart00858, SAF, This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins. Length = 64 Score = 30.2 bits (69), Expect = 0.56 Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 9/70 (12%) Query: 47 NVLISKGDLAVGMVVTPNILEWVAFPEENV--FDGFIDDVHQPNAMQELDGVLVRVPILK 104 V+++ DL G V+T + ++ G ++ G + R I Sbjct: 2 RVVVAARDLPAGEVITAEDVRLGHVALRDLPGGGGLTP-------YGQVIGKVARRDIAA 54 Query: 105 GDPIRLEKLV 114 G+PI L Sbjct: 55 GEPITASDLE 64 >gnl|CDD|163171 TIGR03170, flgA_cterm, flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666. Length = 122 Score = 29.4 bits (67), Expect = 0.96 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 11/76 (14%) Query: 48 VLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDP 107 V+++K L G V++P L+ + G + D E+ G + + P+ G P Sbjct: 1 VVVAKRPLKRGEVISPEDLKLERGDLARLPGGVLTDP------DEVVGKVAKRPLRAGQP 54 Query: 108 IRL-----EKLVDRGN 118 + LV RG+ Sbjct: 55 LTANMLRPPWLVKRGD 70 >gnl|CDD|149652 pfam08666, SAF, SAF domain. This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins. Length = 63 Score = 28.7 bits (65), Expect = 1.7 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 6/68 (8%) Query: 47 NVLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGD 106 NV+++ DL G V+T + L V P + +A E+ G + + I G+ Sbjct: 2 NVVVAARDLPAGEVLTADDLTLVRPPLDLPAGLA------ADAYGEVIGKVAKRDIAAGE 55 Query: 107 PIRLEKLV 114 P+ L Sbjct: 56 PLTPSDLE 63 >gnl|CDD|185606 PTZ00420, PTZ00420, coronin; Provisional. Length = 568 Score = 27.2 bits (60), Expect = 4.5 Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 9/37 (24%) Query: 222 SIADLNP-------SSSEDS--DVWDVQEEGKEIQII 249 SI D NP SS DS ++WD++ E + QI Sbjct: 129 SIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAFQIN 165 >gnl|CDD|178131 PLN02516, PLN02516, methylenetetrahydrofolate dehydrogenase (NADP+). Length = 299 Score = 27.2 bits (60), Expect = 5.1 Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%) Query: 69 VAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKG-------DPIRLEKLVD 115 V PE I VH+ NA ++ G+LV++P+ K + I LEK VD Sbjct: 74 VDLPENISEAELISKVHELNANPDVHGILVQLPLPKHINEEKILNEISLEKDVD 127 >gnl|CDD|184557 PRK14186, PRK14186, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional. Length = 297 Score = 26.6 bits (59), Expect = 6.1 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 18/76 (23%) Query: 71 FPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKG-DPIRL------EKLVD-------- 115 P + + Q N + +DG+L+++P+ K D + L +K D Sbjct: 69 LPADTSQAEVEALIAQLNQDERVDGILLQLPLPKHLDEVPLLHAIDPDKDADGLHPLNLG 128 Query: 116 ---RGNGGLSSLLPKG 128 +G GL S P G Sbjct: 129 RLVKGEPGLRSCTPAG 144 >gnl|CDD|130645 TIGR01583, formate-DH-gamm, formate dehydrogenase, gamma subunit. NiFe-hydrogenase and thiosulfate reductase contain homologous gamma subunits, and these can be found scoring in the noise of this model. Length = 204 Score = 26.3 bits (58), Expect = 9.2 Identities = 7/30 (23%), Positives = 14/30 (46%) Query: 9 IVVSGVFALVAGIIAMRLVSPHHVQTEEVI 38 +V+ G ++ GI L P + E++ Sbjct: 115 LVLGGFLMIITGIFMWFLDFPSTAFSIELL 144 >gnl|CDD|178580 PLN03003, PLN03003, Probable polygalacturonase At3g15720. Length = 456 Score = 26.2 bits (57), Expect = 9.3 Identities = 31/164 (18%), Positives = 66/164 (40%), Gaps = 24/164 (14%) Query: 106 DPIRLEKLVDRGNGGLSSLLPKGKRAATMDIS--ISSAVGGMIKPNDHVDVVMVRSLSER 163 +PI +++ NGG S K ++++ +++S + S G K VD SER Sbjct: 293 NPIIIDQFY---NGGDSDN-AKDRKSSAVEVSKVVFSNFIGTSKSEYGVDF----RCSER 344 Query: 164 KPTVTVVLSNIRVIAIDH-----------NIDSDERVLVGSTATLELTPMQAKALVAAQS 212 P + L ++++ N+ + V LEL+ +AQ Sbjct: 345 VPCTEIFLRDMKIETASSGSGQVAQGQCLNVRGASTIAVPGLECLELST---DMFSSAQL 401 Query: 213 VAKLSLVLRSIADLNPSSSEDSDVWDVQEEGKEIQIIKAGVIVN 256 + + + +S+ + +W Q GK++++ ++V+ Sbjct: 402 LEQTCMSAQSVQPRTTTQPMQDPIWVFQSRGKQLRVYNIAILVS 445 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.317 0.135 0.370 Gapped Lambda K H 0.267 0.0745 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,270,759 Number of extensions: 279209 Number of successful extensions: 597 Number of sequences better than 10.0: 1 Number of HSP's gapped: 591 Number of HSP's successfully gapped: 15 Length of query: 263 Length of database: 5,994,473 Length adjustment: 92 Effective length of query: 171 Effective length of database: 4,006,537 Effective search space: 685117827 Effective search space used: 685117827 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 (21.6 bits) S2: 56 (25.3 bits)