RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780722|ref|YP_003065135.1| pilus assembly protein
[Candidatus Liberibacter asiaticus str. psy62]
         (187 letters)



>gnl|CDD|183282 PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase;
           Provisional.
          Length = 383

 Score = 27.9 bits (63), Expect = 1.6
 Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 31/92 (33%)

Query: 52  FRRVIETQHLGLSLSESISRMVRYMP-------LQEVSFFSTVIS--VQSQLGGNLSEAL 102
           F+RV++   LG  L ES      YM        L E  FFS V+   +  +L  +L + L
Sbjct: 47  FKRVLQEGSLG--LGES------YMDGWWDCDRLDE--FFSRVLRAGLDEKLPHHLKDTL 96

Query: 103 ANLSRILRDRKNMKAKVQALSMEAKASAWIIG 134
             L   L + ++ K             AWI+G
Sbjct: 97  RILRARLFNLQSKK------------RAWIVG 116


>gnl|CDD|151488 pfam11041, DUF2612, Protein of unknown function (DUF2612).  This
          is a phage protein family expressed from a range of
          Proteobacteria species. The function is not known.
          Length = 186

 Score = 27.7 bits (62), Expect = 1.7
 Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 4/36 (11%)

Query: 9  TAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQS 44
            +FLDD P+  D I  +   GL   D    IVG S
Sbjct: 30 LFEFLDDLPDVFD-IDTANGFGL---DVWGRIVGVS 61


>gnl|CDD|149326 pfam08203, RNA_polI_A14, Yeast RNA polymerase I subunit RPA14.
           This is a family of yeast proteins. A14 is one of the
           final two subunits of Saccharomyces cerevisiae RNA
           polymerase I and is proposed to play a role in the
           recruitment of pol I to the promoter.
          Length = 160

 Score = 27.6 bits (61), Expect = 1.9
 Identities = 11/35 (31%), Positives = 16/35 (45%)

Query: 96  GNLSEALANLSRILRDRKNMKAKVQALSMEAKASA 130
             LS  L+ L R+ RD K +   V     E  +S+
Sbjct: 72  TGLSSVLSQLKRVQRDLKGLPPTVSEPESEVPSSS 106


>gnl|CDD|179564 PRK03352, PRK03352, DNA polymerase IV; Validated.
          Length = 346

 Score = 27.3 bits (61), Expect = 2.4
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 8/46 (17%)

Query: 13 LDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIET 58
          LD F  A++++ R   AGLPV      IVG + DP  +E R+V+  
Sbjct: 12 LDQFIAAVELLRRPELAGLPV------IVGGNGDP--TEPRKVVTC 49


>gnl|CDD|151020 pfam10443, RNA12, RNA12 protein.  This family includes RNA12 from
           S. cerevisiae. That protein contains an RRM domain. This
           region is C-terminal to that and includes a P-loop motif
           suggesting this region binds to NTP. The RNA12 proteins
           is involved in pre-rRNA maturation.
          Length = 428

 Score = 26.9 bits (60), Expect = 3.3
 Identities = 8/33 (24%), Positives = 18/33 (54%)

Query: 20  LDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEF 52
           L  + R +++G    +AV+ I+ Q++  +   F
Sbjct: 272 LQALARRIKSGESPEEAVSDIISQAASEILKMF 304


>gnl|CDD|162226 TIGR01150, puhA, photosynthetic reaction center, subunit H,
           bacterial.  This model describes the photosynthetic
           reaction center H subunit in non-oxygenic photosynthetic
           bacteria. The reaction center is an integral membrane
           pigment-protein that carries out light-driven electron
           transfer reactions. At the core of reaction center is a
           collection light-harvesting cofactors and closely
           associated polypeptides. The core protein complex is
           made of L, M and H subunits. The common cofactors
           include bacterichlorophyll, bacteriopheophytins,
           ubiquinone and no-heme ferrous iron. The net result of
           electron tranfer reactions is the establishment of
           proton electrochemical gradient and production of
           reducing equivalents in the form of NADH. Ultimately,
           the process results in the reduction of C02 to
           carbohydrates(C6H12O6) In non-oxygenic organisms, the
           electron donor is an organic acid rather than water.
           Much of our current functional understanding of
           photosynthesis comes from the structural determination
           and spectroscopic studies on the reaction center of
           Rhodobacter sphaeroides.
          Length = 252

 Score = 26.0 bits (57), Expect = 5.6
 Identities = 27/109 (24%), Positives = 40/109 (36%), Gaps = 18/109 (16%)

Query: 30  GLPVSDAVAVIVGQSSDPV--RSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTV 87
           GLPV  A   + G+ +D    R E       ++L + L+         +P+      S  
Sbjct: 153 GLPVVAADGEVAGKVTDLWVDRPE----QYFRYLEVELAGGART--ALLPMGMCKVKSDR 206

Query: 88  ISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSL 136
           + V S     LS+  AN+  I             L  E K SA+  G L
Sbjct: 207 VVVNSI----LSDLFANVPTI------KSPDQITLREEDKVSAYYAGGL 245


>gnl|CDD|181384 PRK08319, PRK08319, cobalt transport protein CbiM; Validated.
          Length = 224

 Score = 25.6 bits (57), Expect = 8.6
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 128 ASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFMLI 174
           A+ W + SLPF V  L          ++  DP    LL +A AF+ +
Sbjct: 13  AAFWWLLSLPFVVYGLRRLR-----KIVKEDPEQKPLLALAGAFIFV 54


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.325    0.136    0.380 

Gapped
Lambda     K      H
   0.267   0.0738    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,007,081
Number of extensions: 182662
Number of successful extensions: 635
Number of sequences better than 10.0: 1
Number of HSP's gapped: 635
Number of HSP's successfully gapped: 27
Length of query: 187
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 99
Effective length of database: 4,092,969
Effective search space: 405203931
Effective search space used: 405203931
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.6 bits)