RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780481|ref|YP_003064894.1| 50S ribosomal protein L34
[Candidatus Liberibacter asiaticus str. psy62]
         (44 letters)



>gnl|CDD|144166 pfam00468, Ribosomal_L34, Ribosomal protein L34. 
          Length = 44

 Score = 43.3 bits (103), Expect = 1e-05
 Identities = 28/44 (63%), Positives = 35/44 (79%)

Query: 1  MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLSA 44
          MKRTY PSN  RKR  GF ARM+T++G ++L RRR+KGRKRL+ 
Sbjct: 1  MKRTYQPSNRKRKRTHGFRARMATKNGRKVLKRRRAKGRKRLTV 44


>gnl|CDD|39812 KOG4612, KOG4612, KOG4612, Mitochondrial ribosomal protein L34
           [Translation, ribosomal structure and biogenesis].
          Length = 105

 Score = 37.0 bits (85), Expect = 0.001
 Identities = 21/40 (52%), Positives = 28/40 (70%)

Query: 4   TYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43
            Y PSN+ RKR+ GFLAR  ++ G ++L RR+ KGR  LS
Sbjct: 65  EYQPSNLKRKRKHGFLARAKSKQGSKVLKRRKLKGRWFLS 104


>gnl|CDD|30579 COG0230, RpmH, Ribosomal protein L34 [Translation, ribosomal
          structure and biogenesis].
          Length = 44

 Score = 30.2 bits (68), Expect = 0.12
 Identities = 28/44 (63%), Positives = 34/44 (77%)

Query: 1  MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLSA 44
          MKRTY PS   RKR  GF ARM+T++G ++L RRR+KGRKRLS 
Sbjct: 1  MKRTYQPSKRKRKRTHGFRARMATKNGRKVLARRRAKGRKRLSV 44


>gnl|CDD|79363 cd01036, ClC_euk, Chloride channel, ClC.  These domains are found
           in the eukaryotic halogen ion (Cl-, Br- and I-) channel
           proteins that perform a variety of functions including
           cell volume regulation, membrane potential
           stabilization, charge compensation necessary for the
           acidification of intracellular organelles, signal
           transduction and transepithelial transport.  They are
           also involved in many pathophysiological processes and
           are responsible for a number of human diseases.  These
           proteins belong to the ClC superfamily of chloride ion
           channels, which share the unique double-barreled
           architecture and voltage-dependent gating mechanism.
           The gating is conferred by the permeating anion itself,
           acting as the gating charge.  Some proteins possess long
           C-terminal cytoplasmic regions containing two CBS
           (cystathionine beta synthase) domains of putative
           regulatory function..
          Length = 416

 Score = 24.8 bits (54), Expect = 5.1
 Identities = 9/29 (31%), Positives = 13/29 (44%)

Query: 16  CGFLARMSTRSGIRILNRRRSKGRKRLSA 44
           CG LA +  R  I  L  RR    ++ + 
Sbjct: 246 CGLLAALFVRLSIIFLRWRRRLLFRKTAR 274


>gnl|CDD|31163 COG0821, GcpE, Enzyme involved in the deoxyxylulose pathway of
           isoprenoid biosynthesis [Lipid metabolism].
          Length = 361

 Score = 24.4 bits (53), Expect = 6.9
 Identities = 9/25 (36%), Positives = 11/25 (44%)

Query: 6   NPSNIVRKRRCGFLARMSTRSGIRI 30
           NP NI  K R   +   +   GI I
Sbjct: 102 NPGNIGFKDRVREVVEAAKDKGIPI 126


>gnl|CDD|177039 CHL00115, rpl34, ribosomal protein L34; Reviewed.
          Length = 46

 Score = 24.0 bits (52), Expect = 9.3
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 2  KRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRL 42
          KRT + +   + R+ GF ARM+T +G +ILN RR KGRK+L
Sbjct: 3  KRTLSGTKRKKVRKSGFRARMATAAGRKILNARRRKGRKKL 43


  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
   0.329    0.136    0.388 

Gapped
Lambda     K      H
   0.267   0.0752    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 516,953
Number of extensions: 16124
Number of successful extensions: 70
Number of sequences better than 10.0: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 11
Length of query: 44
Length of database: 6,263,737
Length adjustment: 17
Effective length of query: 27
Effective length of database: 5,896,384
Effective search space: 159202368
Effective search space used: 159202368
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.4 bits)