RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780520|ref|YP_003064933.1| flagellar basal body rod
modification protein [Candidatus Liberibacter asiaticus str. psy62]
         (131 letters)



>gnl|CDD|146544 pfam03963, FlgD, Flagellar hook capping protein.  FlgD is known
          to be absolutely required for hook assembly, yet it has
          not been detected in the mature flagellum. It appears
          to act as a hook-capping protein to enable assembly of
          hook protein subunits.
          Length = 140

 Score = 85.1 bits (211), Expect = 5e-18
 Identities = 37/80 (46%), Positives = 52/80 (65%), Gaps = 3/80 (3%)

Query: 15 SKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQMNSTLQEL- 73
          +KS S   L +D FLKLL  Q+++QDP  PM  +E +AQLA FS +EQ   +N+TL+ L 
Sbjct: 18 AKSTSSSELDKDDFLKLLTAQLQNQDPLNPMDNTEFIAQLAQFSTVEQIQNLNTTLESLA 77

Query: 74 --LKSNNLAQASSYIGKNIT 91
            ++S+   QASS IGK + 
Sbjct: 78 ASMQSSQALQASSLIGKTVL 97


>gnl|CDD|32028 COG1843, FlgD, Flagellar hook capping protein [Cell motility and
           secretion].
          Length = 222

 Score = 81.2 bits (200), Expect = 8e-17
 Identities = 48/132 (36%), Positives = 69/132 (52%), Gaps = 3/132 (2%)

Query: 3   INTEVNPTQQEFSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQ 62
            +     T  +   + S  +LG+D FLKLLI Q+K+QDPT PM  +E ++QLA FSQ+EQ
Sbjct: 9   TSASTITTNSKTDSTSSNASLGKDDFLKLLIAQLKNQDPTNPMDNTEFISQLAQFSQVEQ 68

Query: 63  SVQMNSTLQELLKSNN---LAQASSYIGKNITNADGSISGVVNAIQVSSTGLTAITVDNT 119
              MN+TL+ L          QAS+ IGK +  ADG ++ V   ++   T   A      
Sbjct: 69  MENMNTTLESLSSQMTSSQTLQASNLIGKTVMVADGKVTLVDGTVKFVVTLPQAANNVGI 128

Query: 120 EIPITTGIRISN 131
           EI    G+ +  
Sbjct: 129 EITDGNGVVVRT 140


>gnl|CDD|146351 pfam03666, NPR3, Nitrogen Permease regulator of amino acid
           transport activity 3.  This family, also known in yeasts
           as Rmd11, complexes with NPR2, pfam06218. This complex
           heterodimer is responsible for inactivating TORC1. an
           evolutionarily conserved protein complex that controls
           cell size via nutritional input signals, specifically,
           in response to amino acid starvation.
          Length = 424

 Score = 25.4 bits (56), Expect = 4.4
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 5/43 (11%)

Query: 60  MEQSVQMNSTLQELLKSNNLAQASSYIGKNITNADGSISGVVN 102
            EQS ++ S  +E+L  ++LA+A     ++I     S SG+ N
Sbjct: 164 REQSQKLESLYEEILSKSSLARALKDCYESI-----STSGIAN 201


>gnl|CDD|176978 CHL00037, petA, cytochrome f.
          Length = 320

 Score = 25.7 bits (57), Expect = 4.6
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 12/46 (26%)

Query: 75  KSNNLAQASSYIGKNITNADGSISGVVNAIQVSSTGLTAITVDNTE 120
           KSNN           + NA  + +G+V+ I     G   IT+ +T 
Sbjct: 200 KSNN----------TVYNA--TAAGIVSKILRKEKGGYEITIVDTS 233


>gnl|CDD|37230 KOG2019, KOG2019, KOG2019, Metalloendoprotease HMP1 (insulinase
           superfamily) [General function prediction only,
           Posttranslational modification, protein turnover,
           chaperones].
          Length = 998

 Score = 25.3 bits (55), Expect = 5.1
 Identities = 13/44 (29%), Positives = 18/44 (40%)

Query: 11  QQEFSKSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQL 54
           Q E S        G      ++   I   DP EP+K  EQ+ +L
Sbjct: 418 QIEISLKHQSTGFGLSLMQSIISKWINDMDPFEPLKFEEQLKKL 461


>gnl|CDD|143862 pfam00080, Sod_Cu, Copper/zinc superoxide dismutase (SODC).
           superoxide dismutases (SODs) catalyse the conversion of
           superoxide radicals to hydrogen peroxide and molecular
           oxygen. Three evolutionarily distinct families of SODs
           are known, of which the copper/zinc-binding family is
           one. Defects in the human SOD1 gene cause familial
           amyotrophic lateral sclerosis (Lou Gehrig's disease).
           Structure is an eight-stranded beta sandwich, similar to
           the immunoglobulin fold.
          Length = 140

 Score = 24.9 bits (55), Expect = 6.6
 Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 1/28 (3%)

Query: 90  ITNADGSISGVVNAIQVSSTGLTAITVD 117
           +  ADG + G V   QV   G+  +TVD
Sbjct: 5   LKGADGKVVGTVTFTQVGGGGVL-VTVD 31


  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
   0.307    0.121    0.306 

Gapped
Lambda     K      H
   0.267   0.0732    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,192,232
Number of extensions: 47130
Number of successful extensions: 81
Number of sequences better than 10.0: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 13
Length of query: 131
Length of database: 6,263,737
Length adjustment: 83
Effective length of query: 48
Effective length of database: 4,470,190
Effective search space: 214569120
Effective search space used: 214569120
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 52 (23.8 bits)