RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780563|ref|YP_003064976.1| extracellular solute-binding
protein [Candidatus Liberibacter asiaticus str. psy62]
         (195 letters)



>gnl|CDD|162273 TIGR01256, modA, molybdenum ABC transporter, periplasmic
           molybdate-binding protein.  The model describes the
           molybdate ABC transporter periplasmic binding protein in
           bacteria and archae. Several of the periplasmic
           receptors constitute a diverse class of binding proteins
           that differ widely in size, sequence and ligand
           specificity. It has been shown experimentally by
           radioactive labeling that ModA represent hydrophylioc
           periplasmic-binding protein in gram-negative organisms
           and its counterpart in gram-positive organisms is a
           lipoprotein. The other components of the system include
           the ModB, an integral membrane protein and ModC the
           ATP-binding subunit. Invariably almost all of them
           display a common beta/alpha folding motif and have
           similar tertiary structures consisting of two globular
           domains.
          Length = 216

 Score = 35.1 bits (81), Expect = 0.011
 Identities = 26/104 (25%), Positives = 43/104 (41%), Gaps = 5/104 (4%)

Query: 40  MLPIIHSFEERTGVKISPIYTSSIQ-RPPITQGSPVDVIITKDETSL--ALNEDLLHKLP 96
           +  I   FE+RTG K+   + SS      I  G+P D+ I+ D       +++ L+    
Sbjct: 8   LKEIAKQFEKRTGNKVVFSFGSSGTLYTQIENGAPADLFISADNKWPKKLVDKGLVVAGS 67

Query: 97  AHLIKKNSFVLKNENKKLMRISFDTQVLAYSTKRIKIADLPKSV 140
                 N  VL +   +++    D      + KR+ I D PK  
Sbjct: 68  RFTYAGNKLVLISPKNRVVD-DLDILKKWVADKRVAIGD-PKHA 109


>gnl|CDD|180214 PRK05704, PRK05704, dihydrolipoamide succinyltransferase;
           Validated.
          Length = 407

 Score = 27.9 bits (63), Expect = 1.6
 Identities = 10/20 (50%), Positives = 13/20 (65%)

Query: 131 IKIADLPKSVFDLTNAQWKK 150
           IK+  LP+SV + T A W K
Sbjct: 5   IKVPTLPESVTEATIATWHK 24


>gnl|CDD|161880 TIGR00440, glnS, glutaminyl-tRNA synthetase.  This protein is a
           relatively rare aminoacyl-tRNA synthetase, found in the
           cytosolic compartment of eukaryotes, in E. coli and a
           number of other Gram-negative Bacteria, and in
           Deinococcus radiodurans. In contrast, the pathway to
           Gln-tRNA in mitochondria, Archaea, Gram-positive
           Bacteria, and a number of other lineages is by
           misacylation with Glu followed by transamidation to
           correct the aminoacylation to Gln. This enzyme is a
           class I tRNA synthetase (hit by the pfam model
           tRNA-synt_1c) and is quite closely related to
           glutamyl-tRNA synthetases.
          Length = 522

 Score = 28.0 bits (62), Expect = 1.9
 Identities = 24/115 (20%), Positives = 45/115 (39%), Gaps = 15/115 (13%)

Query: 80  KDETSLALNEDLLHKLPAHLIKKNSFVLKNENKKLMRI--SFDTQVLAYSTKRIKIADLP 137
           K    L L +++  +  A++IK    V K+   K+  I  ++D + L       +     
Sbjct: 372 KQYKRLVLGKEVRLRN-AYVIKAER-VEKDAAGKITTIFCTYDNKTLGKEPADGR---KV 426

Query: 138 KSVFDLTNAQWKKRLSIAPNNISFHRLLNTMEQTPNKTVVQDFIKNITANEILTK 192
           K V       W   +S +    +  RL + + + PN     DF+  I    ++ K
Sbjct: 427 KGVI-----HW---VSASSKYPTETRLYDRLFKVPNPGAPDDFLSVINPESLVIK 473


>gnl|CDD|180912 PRK07269, PRK07269, cystathionine gamma-synthase; Reviewed.
          Length = 364

 Score = 27.5 bits (61), Expect = 2.6
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 44 IHSFEERTGVKISPIYTSSI-QRPPITQGSPVDVIITKDETSLALNEDL 91
          I S +E TG  ++P++ S+  Q P   Q +  D   TK+ T   L E L
Sbjct: 16 IKS-DEATGALVTPLHFSTTYQHPEFGQSTGFDYTRTKNPTRAKLEETL 63


>gnl|CDD|181896 PRK09482, PRK09482, flap endonuclease-like protein; Provisional.
          Length = 256

 Score = 25.6 bits (57), Expect = 9.4
 Identities = 9/31 (29%), Positives = 15/31 (48%)

Query: 70  QGSPVDVIITKDETSLALNEDLLHKLPAHLI 100
           Q SP D+    +    AL++ + H  P H +
Sbjct: 21  QPSPNDINACVETCQHALDKLIRHSQPTHAV 51


  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
   0.319    0.133    0.371 

Gapped
Lambda     K      H
   0.267   0.0671    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,009,525
Number of extensions: 176903
Number of successful extensions: 354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 353
Number of HSP's successfully gapped: 23
Length of query: 195
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 107
Effective length of database: 4,092,969
Effective search space: 437947683
Effective search space used: 437947683
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.7 bits)