RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

Searching..................................................done

Query= gi|254781189|ref|YP_003065602.1| hypothetical protein
CLIBASIA_05480 [Candidatus Liberibacter asiaticus str. psy62]
         (252 letters)



>gnl|CDD|100085 cd06164, S2P-M50_SpoIVFB_CBS, SpoIVFB Site-2 protease (S2P), a zinc
           metalloprotease (MEROPS family M50B), regulates
           intramembrane proteolysis (RIP), and is involved in the
           pro-sigmaK pathway of bacterial spore formation. In this
           subgroup, SpoIVFB (sporulation protein, stage IV cell
           wall formation, F locus, promoter-distal B) contains two
           tandem repeats of the cystathionine beta-synthase (CBS
           pair) domain. SpoIVFB is one of 4 proteins involved in
           endospore formation; the others are SpoIVFA (sporulation
           protein, stage IV cell wall formation, F locus,
           promoter-proximal A), BofA (bypass-of-forespore A), and
           SpoIVB (sporulation protein, stage IV cell wall
           formation, B locus). SpoIVFB is negatively regulated by
           SpoIVFA and BofA and activated by SpoIVB. It is thought
           that SpoIVFB, SpoIVFA, and BofA are located in the
           mother-cell membrane that surrounds the forespore and
           that SpoIVB is secreted from the forespore into the
           space between the two where it activates SpoIVFB. It has
           been proposed that the CBS domain may play a regulatory
           role, although its exact function is unknown..
          Length = 227

 Score = 33.3 bits (77), Expect = 0.074
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 9/61 (14%)

Query: 15  RILKAILSRWRKSKLSAL---GSVGVFFVIFSLPLGALGLYEVHYLWVIFVSSLSLAIVA 71
           R+L+A+L R     L A      VG  F +    L  LGL     L++  +  L L ++A
Sbjct: 160 RVLRALLWRRTGDYLKATRIAAWVGRGFAVL---LIILGLL---SLFLNLLGGLWLILIA 213

Query: 72  F 72
           +
Sbjct: 214 W 214


>gnl|CDD|32177 COG1994, SpoIVFB, Zn-dependent proteases [General function
           prediction only].
          Length = 230

 Score = 29.2 bits (65), Expect = 1.1
 Identities = 15/61 (24%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 15  RILKAILSRWRKSKLSALGSVGVFFVIFSLPLGALGLYEVH-YLWVIFVSSLSLAIVAFG 73
           R+L+A+L R   + ++A+    +  ++  +  G LGL  ++  L +I +   S A+ A  
Sbjct: 165 RVLRALLPRRYGAAIAAIELAALLGLLVLILAGILGLLVLNPPLRLIDLFVYSGALSALQ 224

Query: 74  V 74
            
Sbjct: 225 S 225


>gnl|CDD|34234 COG4603, COG4603, ABC-type uncharacterized transport system,
          permease component [General function prediction only].
          Length = 356

 Score = 28.2 bits (63), Expect = 2.2
 Identities = 11/53 (20%), Positives = 22/53 (41%)

Query: 14 KRILKAILSRWRKSKLSALGSVGVFFVIFSLPLGALGLYEVHYLWVIFVSSLS 66
            + K       +S LS L ++ +  ++ +L L  LG   +     +FV +  
Sbjct: 1  IELEKRPKRSRLRSILSPLIAILLALIVGALLLLLLGYDPLAAYSALFVGAFG 53


>gnl|CDD|146578 pfam04018, DUF368, Domain of unknown function (DUF368).  Predicted
           transmembrane domain of unknown function. Family members
           have between 6 and 9 predicted transmembrane segments.
          Length = 250

 Score = 27.9 bits (63), Expect = 3.1
 Identities = 11/36 (30%), Positives = 21/36 (58%), Gaps = 4/36 (11%)

Query: 9   GILSIKRILKAILSRWRKSKLSALGSVGVFFVIFSL 44
           G+LS  ++L  +L ++R + L+ L   G   ++ SL
Sbjct: 194 GLLSFSKLLSYLLKKYRDATLAFL--TG--LMLGSL 225


>gnl|CDD|38355 KOG3145, KOG3145, KOG3145, Cystine transporter Cystinosin [Amino
           acid transport and metabolism].
          Length = 372

 Score = 26.5 bits (58), Expect = 8.0
 Identities = 12/48 (25%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 24  WRK-SKLSALGSVGVFFVIFSLPLGALGLYEVHYLWVIF-VSSLSLAI 69
           W++ SK  ALG + +F++   + +     Y + +L  +  +S + LA+
Sbjct: 227 WQRVSKGIALGILAIFWLFAVVFMYVAYWYVIRWLAFLNNLSYIKLAM 274


>gnl|CDD|35965 KOG0746, KOG0746, KOG0746, 60S ribosomal protein L3 and related
           proteins [Translation, ribosomal structure and
           biogenesis].
          Length = 384

 Score = 26.2 bits (57), Expect = 8.0
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 5/53 (9%)

Query: 115 TQYDRYE-VIYNFGG-PMYGVIVPDFIHDLLDIPEEKRRLNT---SYLTYVDR 162
           T YD  E  I   GG P YG ++ DF+     +   K+R+ T   S L    R
Sbjct: 286 TDYDLTEKSITPMGGFPHYGEVINDFVMLKGCVVGPKKRVVTLRKSLLKQTKR 338


>gnl|CDD|177250 MTH00206, ND4, NADH dehydrogenase subunit 4; Provisional.
          Length = 450

 Score = 26.4 bits (59), Expect = 8.3
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 7/48 (14%)

Query: 44  LPLGALGLYEVHYLWVIFVSSLSLAIVAFGV-------EECLRLNDIK 84
           L LG  G+  +  +        S   +  G+         CLR  D+K
Sbjct: 232 LKLGGYGMMRIILILGPSTKLSSYFFIILGLWGSIMTSSICLRQTDLK 279


  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
   0.323    0.138    0.404 

Gapped
Lambda     K      H
   0.267   0.0664    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,089,598
Number of extensions: 164128
Number of successful extensions: 421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 419
Number of HSP's successfully gapped: 23
Length of query: 252
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 160
Effective length of database: 4,275,709
Effective search space: 684113440
Effective search space used: 684113440
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: 41 (22.0 bits)
S2: 56 (25.5 bits)