RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy4430
         (84 letters)



>gnl|CDD|223113 COG0035, Upp, Uracil phosphoribosyltransferase [Nucleotide
          transport and metabolism].
          Length = 210

 Score = 35.2 bits (82), Expect = 0.001
 Identities = 16/52 (30%), Positives = 25/52 (48%)

Query: 25 ETIRLVIEESLNQLPFSKMDIVTPTGATYHGLKYERGNCGVSVIRSGEAMEQ 76
          E  RL+  E+   LP  K++I TP G T       +    V ++R+G  M +
Sbjct: 35 EIGRLLAYEATRDLPLEKVEIETPLGPTEGVQIAGKKIVIVPILRAGLGMVE 86


>gnl|CDD|212664 cd07792, FGGY_GK1-3_metazoa, Metazoan glycerol kinase 1 and
          3-like proteins; belongs to the FGGY family of
          carbohydrate kinases.  This subgroup corresponds to a
          group of metazoan glycerol kinases (GKs), coded by X
          chromosome-linked GK genes, and glycerol kinase
          (GK)-like proteins, coded by autosomal testis-specific
          GK-like genes (GK-like genes, GK1 and GK3).  Sequence
          comparison shows that metazoan GKs and GK-like proteins
          in this family are closely related to the bacterial
          GKs, which catalyze the Mg-ATP dependent
          phosphorylation of glycerol to yield glycerol
          3-phosphate (G3P). The metazoan GKs do have GK
          enzymatic activity. However, the GK-like metazoan
          proteins do not exhibit GK activity and their
          biological functions are not yet clear. Some of them
          lack important functional residues involved in the
          binding of ADP and Mg2+, which may result in the loss
          of GK catalytic function. Others that have conserved
          catalytic residues have lost their GK activity as well;
          the reason remains unclear. It has been suggested the
          conserved catalytic residues might facilitate them
          performing a distinct function. GKs belong to the FGGY
          family of carbohydrate kinases, the monomers of which
          contain two large domains, which are separated by a
          deep cleft that forms the active site. This model
          includes both the N-terminal domain, which adopts a
          ribonuclease H-like fold, and the structurally related
          C-terminal domain.
          Length = 504

 Score = 25.8 bits (57), Expect = 3.2
 Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 4/43 (9%)

Query: 9  QPFP-EKPVAGDVLDLLETIRLVIE---ESLNQLPFSKMDIVT 47
          Q FP E  V  D  ++L ++   IE   + L +L     DI  
Sbjct: 35 QIFPKEGWVEQDPKEILNSVYECIEKTCKKLKELNIDVSDIKA 77


>gnl|CDD|131576 TIGR02524, dot_icm_DotB, Dot/Icm secretion system ATPase DotB.
           Members of this protein family are the DotB component of
           Dot/Icm secretion systems, as found in obligate
           intracellular pathogens Legionella pneumophila and
           Coxiella burnetii. While this system resembles type IV
           secretion systems and has been called a form of type IV,
           the liturature now seems to favor calling this the
           Dot/Icm system. This family is most closely related to
           TraJ proteins of plasmid transfer, rather than to
           proteins of other type IV secretion systems.
          Length = 358

 Score = 25.4 bits (55), Expect = 4.6
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 11  FPEKPVAGDVLDLLETIRLVIEESL 35
           FP +   G  +D++ETIRL I + L
Sbjct: 260 FPAEERIGRTIDIIETIRLCIWQKL 284


>gnl|CDD|168128 PRK05613, PRK05613, O-acetylhomoserine
           aminocarboxypropyltransferase; Validated.
          Length = 437

 Score = 25.2 bits (55), Expect = 5.4
 Identities = 10/15 (66%), Positives = 10/15 (66%), Gaps = 1/15 (6%)

Query: 44  DIVTPTGATYHGLKY 58
             VTP  A YHGLKY
Sbjct: 249 YFVTPDPA-YHGLKY 262


>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
          Length = 273

 Score = 24.9 bits (55), Expect = 5.6
 Identities = 8/14 (57%), Positives = 9/14 (64%)

Query: 45  IVTPTGATYHGLKY 58
           I TP GA YH  K+
Sbjct: 138 IYTPLGAWYHATKF 151


>gnl|CDD|223044 PHA03325, PHA03325, nuclear-egress-membrane-like protein;
           Provisional.
          Length = 418

 Score = 24.8 bits (54), Expect = 6.2
 Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)

Query: 7   RLQPFPEKPVAGDVLDLLETIRLVIEESLNQLPF 40
           RL+  P  P       L+  +R  +    N+L F
Sbjct: 108 RLRKHPRSPPLPADQRLIRAVR-RVCVLFNRLTF 140


>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional.
          Length = 652

 Score = 24.6 bits (55), Expect = 7.5
 Identities = 8/19 (42%), Positives = 10/19 (52%)

Query: 14  KPVAGDVLDLLETIRLVIE 32
           +P  G V DLL  IR  + 
Sbjct: 426 RPTKGQVDDLLSEIRKRVA 444


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.318    0.138    0.398 

Gapped
Lambda     K      H
   0.267   0.0712    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,294,305
Number of extensions: 344434
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 295
Number of HSP's successfully gapped: 11
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
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: 53 (24.2 bits)