RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9422
         (211 letters)



>gnl|CDD|185489 PTZ00160, PTZ00160, 60S ribosomal protein L27a; Provisional.
          Length = 147

 Score = 85.8 bits (213), Expect = 2e-21
 Identities = 36/43 (83%), Positives = 41/43 (95%)

Query: 169 AGYYKVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACVLTA 211
           AGY+KVLGKG +PKQPVIVKA++FSK AE+KIKAVGGACVLTA
Sbjct: 105 AGYFKVLGKGHLPKQPVIVKARYFSKKAEKKIKAVGGACVLTA 147


>gnl|CDD|216140 pfam00828, Ribosomal_L18e, Ribosomal protein L18e/L15.  This family
           includes eukaryotic L18 as well as prokaryotic L15.
          Length = 122

 Score = 59.2 bits (144), Expect = 1e-11
 Identities = 21/44 (47%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 167 DIAGYYKVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACVLT 210
            +    KVLG G + K P+ VKA  FSK A EKI+  GG  VL 
Sbjct: 80  TVTDDVKVLGNGELTK-PLTVKALKFSKSAREKIEKAGGEVVLL 122


>gnl|CDD|235799 PRK06419, rpl15p, 50S ribosomal protein L15P; Reviewed.
          Length = 148

 Score = 50.6 bits (122), Expect = 3e-08
 Identities = 21/42 (50%), Positives = 30/42 (71%), Gaps = 1/42 (2%)

Query: 169 AGYYKVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACVLT 210
            GY KVLG G++  +P+++KA  FS+ A EKI+A GG  VL+
Sbjct: 105 LGYDKVLGGGKV-TRPLVIKADAFSEKAIEKIEAAGGEVVLS 145


>gnl|CDD|223278 COG0200, RplO, Ribosomal protein L15 [Translation, ribosomal
           structure and biogenesis].
          Length = 152

 Score = 44.9 bits (107), Expect = 3e-06
 Identities = 16/48 (33%), Positives = 23/48 (47%)

Query: 164 LLVDIAGYYKVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACVLTA 211
           ++  +    KVLG G++ K   +      SK A EKI+A GG   L  
Sbjct: 105 VIRKLKDLVKVLGNGKLTKAVPVKVKAKASKSAIEKIEAAGGKVELIE 152


>gnl|CDD|235196 PRK04005, PRK04005, 50S ribosomal protein L18e; Provisional.
          Length = 111

 Score = 42.5 bits (101), Expect = 1e-05
 Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 173 KVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACV 208
           KVLG G++    V V A  FS+ A+EKI+  GG  +
Sbjct: 58  KVLGSGKLDH-KVTVAALSFSETAKEKIEEAGGKAL 92


>gnl|CDD|235523 PRK05592, rplO, 50S ribosomal protein L15; Reviewed.
          Length = 146

 Score = 42.0 bits (100), Expect = 3e-05
 Identities = 18/38 (47%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 173 KVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACVLT 210
           KVLG G + K  + VKA  FSK A+E I+A GG     
Sbjct: 110 KVLGNGELTK-KLTVKAHKFSKSAKEAIEAAGGKVEEI 146


>gnl|CDD|224641 COG1727, RPL18A, Ribosomal protein L18E [Translation, ribosomal
           structure and biogenesis].
          Length = 122

 Score = 35.4 bits (82), Expect = 0.004
 Identities = 19/36 (52%), Positives = 23/36 (63%), Gaps = 1/36 (2%)

Query: 173 KVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGGACV 208
           KVLG G++ K  V V A  FSK A EKI+  GG C+
Sbjct: 69  KVLGDGKLDK-KVTVAALRFSKTAREKIEEAGGECL 103


>gnl|CDD|233260 TIGR01071, rplO_bact, ribosomal protein L15, bacterial/organelle.
           [Protein synthesis, Ribosomal proteins: synthesis and
           modification].
          Length = 145

 Score = 30.0 bits (68), Expect = 0.53
 Identities = 17/33 (51%), Positives = 22/33 (66%), Gaps = 1/33 (3%)

Query: 173 KVLGKGRIPKQPVIVKAKFFSKLAEEKIKAVGG 205
           KVLG G++ K P+ VKA   SK A+  I+A GG
Sbjct: 111 KVLGNGKLTK-PLTVKAHRVSKSAKAAIEAAGG 142


>gnl|CDD|233562 TIGR01763, MalateDH_bact, malate dehydrogenase, NAD-dependent.
           This enzyme converts malate into oxaloacetate in the
           citric acid cycle. The critical residues which
           discriminate malate dehydrogenase from lactate
           dehydrogenase have been characterized , and have been
           used to set the cutoffs for this model. Sequences
           showing [aflimv][ap]R[rk]pgM[st] and [ltv][ilm]gGhgd
           were kept above trusted, while those in which the
           capitalized residues in the patterns were found to be Q,
           E and E were kept below the noise cutoff. Some sequences
           in the grey zone have been annotated as malate
           dehydrogenases, but none have been characterized.
           Phylogenetically, a clade of sequences from eukaryotes
           such as Toxoplasma and Plasmodium which include a
           characterized lactate dehydrogenase and show abiguous
           critical residue patterns appears to be more closely
           related to these bacterial sequences than other
           eukaryotic sequences. These are relatively long branch
           and have been excluded from the model. All other
           sequences falling below trusted appear to be
           phylogenetically outside of the clade including the
           trusted hits. The annotation of Botryococcus braunii as
           lactate dehydrogenase appears top be in error. This was
           initially annotated as MDH by Swiss-Prot and then
           changed. The rationale for either of these annotations
           is not traceable [Energy metabolism, TCA cycle].
          Length = 305

 Score = 30.6 bits (69), Expect = 0.55
 Identities = 29/99 (29%), Positives = 46/99 (46%), Gaps = 21/99 (21%)

Query: 114 TAFSIVLNMNMGIVRRSEERRVGEEGRLLNMNMGIVRSATGRQVLLALTSLLV------D 167
           TA S ++ +  G+ R+    R      LL+MN GIVR  TGR +  +   ++V      D
Sbjct: 67  TANSDIVVITAGLPRKPGMSR----EDLLSMNAGIVREVTGRIMEHSPNPIIVVVSNPLD 122

Query: 168 IAGY--YKVLGKGRIPKQPVIVK------AKFFSKLAEE 198
              Y  ++  G    PK+ VI +      A+F + +A E
Sbjct: 123 AMTYVAWQKSG---FPKERVIGQAGVLDSARFRTFIAME 158


>gnl|CDD|224471 COG1554, ATH1, Trehalose and maltose hydrolases (possible
           phosphorylases) [Carbohydrate transport and metabolism].
          Length = 772

 Score = 28.5 bits (64), Expect = 3.0
 Identities = 6/25 (24%), Positives = 14/25 (56%)

Query: 106 FNIHQRHLTAFSIVLNMNMGIVRRS 130
           F++    + ++   L+M  G++ RS
Sbjct: 96  FDLSAGEVLSYERELDMKKGLLTRS 120


>gnl|CDD|217652 pfam03636, Glyco_hydro_65N, Glycosyl hydrolase family 65,
           N-terminal domain.  This family of glycosyl hydrolases
           contains vacuolar acid trehalase and maltose
           phosphorylase.Maltose phosphorylase (MP) is a dimeric
           enzyme that catalyzes the conversion of maltose and
           inorganic phosphate into beta-D-glucose-1-phosphate and
           glucose. This domain is believed to be essential for
           catalytic activity although its precise function remains
           unknown.
          Length = 259

 Score = 27.7 bits (62), Expect = 4.3
 Identities = 7/25 (28%), Positives = 14/25 (56%)

Query: 106 FNIHQRHLTAFSIVLNMNMGIVRRS 130
           F++    + +F   L+M  G++ RS
Sbjct: 87  FDLSTVEVESFERTLDMKAGVLTRS 111


>gnl|CDD|239950 cd04513, Glycosylasparaginase, Glycosylasparaginase catalyzes the
           hydrolysis of the glycosylamide bond of
           asparagine-linked glycoproteins. This enzyme is an
           amidase located inside lysosomes. Mutation of this gene
           in humans causes a genetic disorder known as
           aspartylglycosaminuria (AGU). The glycosylasparaginase
           precursor undergoes autoproteolysis through an N-O or
           N-S acyl rearrangement of the peptide bond, which leads
           to the cleavage of a peptide bond between an Asp and a
           Thr. This proteolysis step generates an exposed
           N-terminal catalytic threonine and activates the enzyme.
          Length = 263

 Score = 27.2 bits (61), Expect = 5.8
 Identities = 6/15 (40%), Positives = 7/15 (46%)

Query: 111 RHLTAFSIVLNMNMG 125
           R L +F  V  M  G
Sbjct: 198 RFLPSFQAVEYMRQG 212


>gnl|CDD|240433 PTZ00482, PTZ00482, membrane-attack complex/perforin (MACPF)
           Superfamily; Provisional.
          Length = 844

 Score = 27.5 bits (61), Expect = 6.9
 Identities = 7/19 (36%), Positives = 11/19 (57%)

Query: 49  QNFKVHQNRTRQEHVKLCE 67
           QNF  H N+     +++CE
Sbjct: 622 QNFWDHTNKLDNYEIEICE 640


>gnl|CDD|181084 PRK07688, PRK07688, thiamine/molybdopterin biosynthesis
           ThiF/MoeB-like protein; Validated.
          Length = 339

 Score = 26.9 bits (60), Expect = 8.6
 Identities = 8/13 (61%), Positives = 11/13 (84%)

Query: 38  FKDRRVLIQGTQN 50
           FKD RVL+ GT++
Sbjct: 314 FKDGRVLVHGTKD 326


>gnl|CDD|215519 PLN02960, PLN02960, alpha-amylase.
          Length = 897

 Score = 27.1 bits (60), Expect = 9.8
 Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 4/20 (20%)

Query: 87  ANGKYFHVGKRSLFKGHHQF 106
           +N  YFH GKR    GHH+ 
Sbjct: 505 SNDCYFHSGKR----GHHKR 520


  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
   0.323    0.138    0.413 

Gapped
Lambda     K      H
   0.267   0.0695    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,669,728
Number of extensions: 987230
Number of successful extensions: 692
Number of sequences better than 10.0: 1
Number of HSP's gapped: 688
Number of HSP's successfully gapped: 19
Length of query: 211
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 118
Effective length of database: 6,812,680
Effective search space: 803896240
Effective search space used: 803896240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.8 bits)