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)