RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13365
         (231 letters)



>gnl|CDD|225354 COG2759, MIS1, Formyltetrahydrofolate synthetase [Nucleotide
           transport and metabolism].
          Length = 554

 Score = 28.8 bits (65), Expect = 2.9
 Identities = 12/32 (37%), Positives = 16/32 (50%)

Query: 80  GGAIFPNLGSETLDLVRTCLKTLPKQIKNIWK 111
           GG    +L  E +D V+     L K I+NI K
Sbjct: 336 GGVPKEDLTEENVDAVKKGFANLLKHIENIKK 367


>gnl|CDD|233455 TIGR01537, portal_HK97, phage portal protein, HK97 family.  This
           model represents one of several distantly related
           families of phage portal protein. This protein forms a
           hole, or portal, that enables DNA passage during
           packaging and ejection. It also forms the junction
           between the phage head (capsid) and the tail proteins.
           It functions as a dodecamer of a single polypeptide of
           average mol. wt. of 40-90 KDa [Mobile and
           extrachromosomal element functions, Prophage functions].
          Length = 341

 Score = 27.7 bits (62), Expect = 5.3
 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 8/45 (17%)

Query: 79  LGGAIFPNLGSETLDLVRTCLKTLPKQIKNIWKREWQQNVNNKLF 123
           LGG  F NL  + LD +R  L  + +QI        +Q +N KL 
Sbjct: 251 LGGDTFANLEEQNLDFLRFTLNPIIEQI--------EQELNRKLL 287


>gnl|CDD|213771 TIGR03076, near_not_gcvH, Chlamydial GcvH-like protein upstream
           region protein.  The H protein (GcvH) of the glycine
           cleavage system shuttles the methylamine group of
           glycine from the P protein to the T protein. Most
           Chlamydia but lack the P and T proteins, and have a
           single homolog of GcvH that appears deeply split from
           canonical GcvH in molecular phylogenetic trees. The
           protein family modeled here is observed so far only in
           the Chlamydiae, always as part of a two-gene operon,
           upstream of the homolog of GcvH. Its function is unknown
           [Unknown function, General].
          Length = 686

 Score = 27.9 bits (62), Expect = 6.0
 Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 18/77 (23%)

Query: 91  TLDLVRTCLKTLPKQIKNIWKREWQQNVNN-----------------KLFQ-IKPELGEW 132
           ++   R  L+ L K +  +   +WQQN  N                 K FQ +KP L E 
Sbjct: 391 SVCYKRVKLQDLEKYVPMVEVYQWQQNPENFQEILQQFPELETCSSLKDFQNLKPALVEK 450

Query: 133 KSSYNRKRTLETALARI 149
             S+ RK  L     RI
Sbjct: 451 IHSFTRKEILRADPGRI 467


>gnl|CDD|119417 cd00891, PI3Kc, Phosphoinositide 3-kinase (PI3K), catalytic domain;
           The PI3K catalytic domain family is part of a larger
           superfamily that includes the catalytic domains of other
           kinases such as the typical serine/threonine/tyrosine
           protein kinases (PKs), aminoglycoside
           phosphotransferase, choline kinase, and RIO kinases.
           PI3Ks catalyze the transfer of the gamma-phosphoryl
           group from ATP to the 3-hydroxyl of the inositol ring of
           D-myo-phosphatidylinositol (PtdIns) or its derivatives.
           PI3Ks play an important role in a variety of fundamental
           cellular processes, including cell motility, the Ras
           pathway, vesicle trafficking and secretion, immune cell
           activation and apoptosis. They can be divided into three
           main classes (I, II, and III), defined by their
           substrate specificity, regulation, and domain structure.
           Class I PI3Ks are the only enzymes capable of converting
           PtdIns(4,5)P2 to the critical second messenger
           PtdIns(3,4,5)P3. Class I enzymes are heterodimers and
           exist in multiple isoforms consisting of one catalytic
           subunit (out of four isoforms) and one of several
           regulatory subunits. Class II PI3Ks comprise three
           catalytic isoforms that do not associate with any
           regulatory subunits. They selectively use PtdIns as a
           susbtrate to produce PtsIns(3)P.
          Length = 352

 Score = 27.2 bits (61), Expect = 8.2
 Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 4/59 (6%)

Query: 115 QQNVNNKLFQIKPELGEWKSSYNRKRTLETALARIRLGHTNLTHVYLIKREEPPLCSCG 173
           Q  V N+L  +  ++   KS   RK  L   L ++         + L    +P L   G
Sbjct: 7   QVEVINELKTLAKKVKREKSKSQRKELLREELKKLENNLPQEFTLPL----DPRLEIKG 61


>gnl|CDD|206592 pfam14426, Imm2, Immunity protein Imm2.  A predicted Immunity
           protein, with a mostly all-alpha fold, present in
           bacterial polymorphic toxin systems as an immediate gene
           neighbor of the toxin gene.
          Length = 60

 Score = 25.1 bits (55), Expect = 9.4
 Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 192 RNSIFGSSRQITLSEVLKDSPADTKKVLKFLQYSKLLKLI 231
            N+I    ++I L  +L D P+D  + L+     ++LKLI
Sbjct: 23  LNAIHKLLKEIKLDNLLDDVPSDEAEELRDDL--RILKLI 60


  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
   0.320    0.136    0.418 

Gapped
Lambda     K      H
   0.267   0.0653    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,185,914
Number of extensions: 994427
Number of successful extensions: 769
Number of sequences better than 10.0: 1
Number of HSP's gapped: 769
Number of HSP's successfully gapped: 9
Length of query: 231
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 137
Effective length of database: 6,768,326
Effective search space: 927260662
Effective search space used: 927260662
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: 57 (25.9 bits)