RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780778|ref|YP_003065191.1| elongation factor Ts [Candidatus Liberibacter asiaticus str. psy62] (296 letters) >gnl|CDD|30613 COG0264, Tsf, Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]. Length = 296 Score = 230 bits (587), Expect = 5e-61 Identities = 132/291 (45%), Positives = 168/291 (57%), Gaps = 16/291 (5%) Query: 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60 M++++A VKELR KTGAG+MDCK AL EA GD E AI+ LR KG A+K+ GR +EG Sbjct: 1 MAEITAALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKGIAKAAKKAGRIAAEG 60 Query: 61 LIGIARDG-YKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHS 119 LI DG KKA +VEVN ETD +AKN +FQ L + IA AL + L F+ Sbjct: 61 LIAAKVDGDGKKAVLVEVNCETDFVAKNAEFQELANKIAKAALEKKPADVEELKAAFEPG 120 Query: 120 GITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAE 179 G TV + I IA GE I LRR A+L +GV+ SYLH G G IGVLVAL+ A Sbjct: 121 GKTVEEEIAALIAKIGENISLRRFAVLEAGDGVVGSYLH-----GNGRIGVLVALKGGAA 175 Query: 180 DKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVN 239 D+EL + IA+H+ +P +S + + +V +R ++ + GK NIVEKIV Sbjct: 176 DEEL----AKDIAMHIAAMNPQYLSREDVPAEVVEKEREIFLAQLKAEGKPENIVEKIVE 231 Query: 240 GKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG 290 G+M F E LL Q FV DP KTV LKE A+ +V F VG Sbjct: 232 GRMNKFLAEVCLLEQPFVKDPKKTVEQLLKE------ANAKVTEFVRFEVG 276 >gnl|CDD|144474 pfam00889, EF_TS, Elongation factor TS. Length = 177 Score = 128 bits (323), Expect = 3e-30 Identities = 77/234 (32%), Positives = 107/234 (45%), Gaps = 60/234 (25%) Query: 58 SEGLIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPF 116 +EGL+ + DG K +VEVN ETD +AKN FQ+LV+ +A AL+ ++ +LA+P Sbjct: 2 AEGLVAVYIDG-NKGVLVEVNCETDFVAKNEKFQALVNKVAEAALAAKPADVEALLALPL 60 Query: 117 DHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQS 176 G TV D + + IA GE I LRR A + GV+ SY+H G G IGVLVAL+ Sbjct: 61 G--GETVEDALAELIAKIGENISLRRFATVEAPGGVVGSYVH-----GGGRIGVLVALEG 113 Query: 177 SAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEK 236 ++ + + IA+H+ +P +S + Sbjct: 114 DNDE-----ELAKDIAMHIAAMNPQYVSRDDVP--------------------------- 141 Query: 237 IVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG 290 LL Q FV DP KTV +LKE A +VV F VG Sbjct: 142 -------------CLLEQPFVKDPKKTVEQYLKE------AGAKVVRFVRFEVG 176 >gnl|CDD|36289 KOG1071, KOG1071, KOG1071, Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]. Length = 340 Score = 122 bits (308), Expect = 1e-28 Identities = 86/311 (27%), Positives = 130/311 (41%), Gaps = 68/311 (21%) Query: 2 SKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTK----GAMAASKREGRKV 57 S S +K+LR KTGA +++CK AL E GD LA + L K G A+K+ R Sbjct: 43 SASSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKAQKEGWSKAAKKASRTT 102 Query: 58 SEGLIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLD-------- 109 EGLIG+ ++ + +VE+N ETD +A+N FQ LV IA L+ +L Sbjct: 103 KEGLIGVLQEDGRTV-LVELNCETDFVARNDIFQDLVDQIALSVLAHCQTLKTKHSSYSK 161 Query: 110 -----------------NVLAMPFDHSG-ITVGDGIKQQIAITGECIKLRRSALLCVSEG 151 ++L D G +++ D + I GE +K+RR+A + G Sbjct: 162 EKELEMDGRGFKLSESLSLLPNLPDVEGKVSLKDQLALAIGKLGENVKVRRAACMKAPSG 221 Query: 152 -VISSYLHASP------SEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVIS 204 + SY H +P LG G LVA+ S + L + ++I H++ SP + Sbjct: 222 TYLGSYSHGAPQSAGTHKLPLGEYGALVAINSVSSQLTSLEDVAKQICQHIVGMSPESVG 281 Query: 205 VQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTV 264 E+L E LL Q ++DPS TV Sbjct: 282 ------------------ESLKDEPGQGAEA------------ETALLSQPSLLDPSITV 311 Query: 265 SDFLKESEKSI 275 ++L S+ Sbjct: 312 KEYLDPHNVSV 322 >gnl|CDD|177028 CHL00098, tsf, elongation factor Ts. Length = 200 Score = 97.8 bits (244), Expect = 3e-21 Identities = 50/95 (52%), Positives = 62/95 (65%), Gaps = 1/95 (1%) Query: 5 SAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLI-G 63 SA VKELR KTGAG+MDCK AL EA GD E A++ LR KG +A+K+ R +EGLI Sbjct: 1 SAELVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQKGLASANKKSTRITTEGLIES 60 Query: 64 IARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIA 98 G K +VE+N ETD +A+ +FQ L NIA Sbjct: 61 YIHTGGKLGVLVEINCETDFVARREEFQKLAKNIA 95 Score = 61.6 bits (150), Expect = 2e-10 Identities = 47/155 (30%), Positives = 75/155 (48%), Gaps = 19/155 (12%) Query: 149 SEGVISSYLHASPSEGLGSIGVLVALQ-------SSAEDKELLSAIGEKIAVHVMLASPS 201 +EG+I SY+H G +GVLV + E ++L I +IA A P+ Sbjct: 54 TEGLIESYIHTG-----GKLGVLVEINCETDFVARREEFQKLAKNIAMQIA-----ACPN 103 Query: 202 VISVQMLD-PSIVANKRAHYMTEALD-SGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVD 259 V V + D P + N +E D K I EKIV G+++ KE LL Q F+ D Sbjct: 104 VKYVSLEDIPEEIINLEKKIESEKDDLQNKPEEIKEKIVEGRIKKRLKELSLLDQPFIRD 163 Query: 260 PSKTVSDFLKESEKSIGASIEVVGVSHFVVGKEND 294 S TV + +K++ +G +I++ + F +G+ + Sbjct: 164 QSITVEELIKQNIAKLGENIQIRRFARFTLGEGEE 198 >gnl|CDD|109675 pfam00627, UBA, UBA/TS-N domain. This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280. Length = 37 Score = 35.1 bits (82), Expect = 0.023 Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 1/38 (2%) Query: 4 VSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDIL 41 + +K+LR G + K AL G+ E A++ L Sbjct: 1 IDEELIKQLREM-GFSREEAKKALRATNGNVERAVEYL 37 >gnl|CDD|146739 pfam04257, Exonuc_V_gamma, Exodeoxyribonuclease V, gamma subunit. The Exodeoxyribonuclease V enzyme is a multi-subunit enzyme comprised of the proteins RecB, RecC (this family) and RecD. This enzyme plays an important role in homologous genetic recombination, repair of double strand DNA breaks resistance to UV irradiation and chemical DNA-damage. The enzyme (EC:3.1.11.5) catalyses ssDNA or dsDNA-dependent ATP hydrolysis, hydrolysis of ssDNA or dsDNA and unwinding of dsDNA. This family consists of two AAA domains. Length = 1008 Score = 28.7 bits (65), Expect = 2.0 Identities = 7/20 (35%), Positives = 11/20 (55%) Query: 182 ELLSAIGEKIAVHVMLASPS 201 E+L A+ VH+ L +P Sbjct: 220 EILQALSRHTDVHLFLLNPC 239 >gnl|CDD|35695 KOG0474, KOG0474, KOG0474, Cl- channel CLC-7 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]. Length = 762 Score = 28.3 bits (63), Expect = 2.5 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 5/53 (9%) Query: 90 FQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRR 142 ++L+ I G+ S G L P HSG V G+ Q G LR+ Sbjct: 186 LRTLIVKILGVIFSVAGGLAVGKEGPMIHSGSVVAAGLGQ-----GGSTSLRK 233 >gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]. Length = 366 Score = 27.6 bits (61), Expect = 4.5 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 29 EAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDGYKKASIVEV 77 GD+ AIDILR G + A + RKVSE + A++ ++ + EV Sbjct: 226 AESGDARKAIDILRRAGEI-AEREGSRKVSEDHVREAQEEIERDVLEEV 273 >gnl|CDD|37057 KOG1846, KOG1846, KOG1846, Uncharacterized conserved protein, contains Sec7 domain [Intracellular trafficking, secretion, and vesicular transport]. Length = 1777 Score = 27.1 bits (59), Expect = 6.3 Identities = 14/35 (40%), Positives = 19/35 (54%) Query: 86 KNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSG 120 ++ D Q L+S AG AL +G L + P DH G Sbjct: 183 RSADEQCLISLDAGCALLLEGELGILSHQPEDHLG 217 >gnl|CDD|39713 KOG4513, KOG4513, KOG4513, Phosphoglycerate mutase [Carbohydrate transport and metabolism]. Length = 531 Score = 26.9 bits (59), Expect = 7.1 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 194 HVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKM 242 +V + SPSVIS + P + A + A +A++SGK + + M Sbjct: 370 YVEIPSPSVISFD-VQPKMKALEVAEKARDAIESGKFPQVRVNLAPPDM 417 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 0.313 0.131 0.351 Gapped Lambda K H 0.267 0.0728 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,091,481 Number of extensions: 151892 Number of successful extensions: 219 Number of sequences better than 10.0: 1 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 16 Length of query: 296 Length of database: 6,263,737 Length adjustment: 93 Effective length of query: 203 Effective length of database: 4,254,100 Effective search space: 863582300 Effective search space used: 863582300 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 57 (25.7 bits)