RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780692|ref|YP_003065105.1| hypothetical protein
CLIBASIA_02895 [Candidatus Liberibacter asiaticus str. psy62]
         (72 letters)



>gnl|CDD|149146 pfam07907, YibE_F, YibE/F-like protein.  The sequences featured
          in this family are similar to two proteins expressed by
          Lactococcus lactis, YibE and YibF. Most of the members
          of this family are annotated as being putative membrane
          proteins, and in fact the sequences contain a high
          proportion of hydrophobic residues.
          Length = 244

 Score = 28.2 bits (64), Expect = 0.44
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 3  FLGGIIFTIICLYMMNGYQK 22
           +  II T + L+++NG+ K
Sbjct: 55 IILAIIITAVTLFLVNGFNK 74


>gnl|CDD|161793 TIGR00263, trpB, tryptophan synthase, beta subunit.  Tryptophan
           synthase catalyzes the last step in the biosynthesis of
           tryptophan. the beta chain contains the functional
           domain for or the synthesis of tryptophan from indole
           and serine. The enzyme requires pyridoxal-phosphate as a
           cofactor. The pyridoxal-P attachment site is contained
           within the conserved region
           [LIVM]-x-H-x-G-[STA]-H-K-x-N] [K is the pyridoxal-P
           attachment site] which is present between residues
           90-100 of the model.
          Length = 385

 Score = 25.8 bits (57), Expect = 2.8
 Identities = 6/16 (37%), Positives = 10/16 (62%)

Query: 24  KKDIERTRLNIERTRL 39
            +D+ER + N+ R  L
Sbjct: 131 AEDVERQKPNVFRMEL 146


>gnl|CDD|185151 PRK15238, PRK15238, inner membrane transporter YjeM; Provisional.
          Length = 496

 Score = 25.3 bits (56), Expect = 3.3
 Identities = 5/21 (23%), Positives = 11/21 (52%)

Query: 5   GGIIFTIICLYMMNGYQKEKK 25
           G + F+I+   +   Y+K+  
Sbjct: 475 GPVFFSILAWIIYQNYEKKMA 495


>gnl|CDD|183324 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
           Reviewed.
          Length = 556

 Score = 25.1 bits (56), Expect = 4.0
 Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 3/31 (9%)

Query: 38  RLTCEEARHTQDENLTKACKDELKNIKSNPK 68
           RL  EE    Q+    KA K EL+ ++ +PK
Sbjct: 255 RLAQEEK---QEAARQKALKRELEWVRQSPK 282


>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional.
          Length = 567

 Score = 24.8 bits (54), Expect = 4.6
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 2/29 (6%)

Query: 21 QKEKKDIERTRLNIERTRLTCEEARHTQD 49
          Q+E+K  +R +L +ER R   EEA   ++
Sbjct: 16 QRERK--QRAKLKLERERKAKEEAAKQRE 42


>gnl|CDD|131878 TIGR02831, spo_II_M, stage II sporulation protein M.  A
          comparative genome analysis of all sequenced genomes of
          shows a number of proteins conserved strictly among the
          endospore-forming subset of the Firmicutes. This
          predicted integral membrane protein is designated stage
          II sporulation protein M.
          Length = 200

 Score = 24.9 bits (55), Expect = 4.7
 Identities = 8/21 (38%), Positives = 11/21 (52%)

Query: 3  FLGGIIFTIICLYMMNGYQKE 23
          FL GI+F    +  M+  QK 
Sbjct: 21 FLVGIVFGAYTVNSMSIVQKN 41


>gnl|CDD|177635 PHA03399, pif3, per os infectivity factor 3; Provisional.
          Length = 200

 Score = 24.5 bits (54), Expect = 5.5
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 16/51 (31%)

Query: 7  IIFTIICLYMMNGYQK------EKKDIERTRLNI----------ERTRLTC 41
          II  I+  Y +   Q+      E +      +N+            TRL C
Sbjct: 10 IILLIVYYYTLKFVQQLNLNDDEARSRANPPMNLVFERNGIVDCSLTRLPC 60


>gnl|CDD|182970 PRK11111, PRK11111, hypothetical protein; Provisional.
          Length = 214

 Score = 24.1 bits (53), Expect = 7.6
 Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 7/29 (24%)

Query: 5   GGIIFTIICLYMMNGY-------QKEKKD 26
           GGI+   I + M++G        ++EK +
Sbjct: 82  GGILVVTIAMSMISGKLGEDKQNKQEKSE 110


>gnl|CDD|178227 PLN02618, PLN02618, tryptophan synthase, beta chain.
          Length = 410

 Score = 23.9 bits (52), Expect = 8.5
 Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 25  KDIERTRLNIERTRLTCEEAR--HTQDENLTKACKDELKNIKSN 66
           +D+ER  LN+ R RL   E R  H+    L  A  + +++  +N
Sbjct: 153 QDMERQALNVFRMRLLGAEVRPVHSGTATLKDATSEAIRDWVTN 196


>gnl|CDD|179834 PRK04346, PRK04346, tryptophan synthase subunit beta; Validated.
          Length = 397

 Score = 23.9 bits (53), Expect = 9.1
 Identities = 7/15 (46%), Positives = 11/15 (73%)

Query: 25  KDIERTRLNIERTRL 39
           +D+ER  LN+ R +L
Sbjct: 140 EDVERQALNVFRMKL 154


>gnl|CDD|148274 pfam06570, DUF1129, Protein of unknown function (DUF1129).  This
           family consists of several hypothetical bacterial
           proteins of unknown function.
          Length = 206

 Score = 23.7 bits (52), Expect = 9.6
 Identities = 4/23 (17%), Positives = 10/23 (43%)

Query: 3   FLGGIIFTIICLYMMNGYQKEKK 25
            +GG+    +  Y+    + + K
Sbjct: 120 LVGGLAMYYMYRYLYRYLKDKSK 142


  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
   0.317    0.134    0.379 

Gapped
Lambda     K      H
   0.267   0.0755    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,104,139
Number of extensions: 52543
Number of successful extensions: 152
Number of sequences better than 10.0: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 29
Length of query: 72
Length of database: 5,994,473
Length adjustment: 43
Effective length of query: 29
Effective length of database: 5,065,329
Effective search space: 146894541
Effective search space used: 146894541
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.0 bits)