RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy18025
         (99 letters)



>gnl|CDD|214474 smart00022, PLAc, Cytoplasmic phospholipase A2, catalytic subunit. 
           Cytosolic phospholipases A2 hydrolyse arachidonyl
           phospholipids. Family includes phospholipases B
           isoforms.
          Length = 549

 Score = 28.5 bits (64), Expect = 0.49
 Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 3/34 (8%)

Query: 47  LEDDLSDSDDEAQYGPLPQIVTNDLKSLDEMDSN 80
           L+D  SDSDD A Y P P     D   +  M +N
Sbjct: 331 LKDLSSDSDDIAIYPPNPF---KDDAYVQRMLTN 361


>gnl|CDD|201944 pfam01735, PLA2_B, Lysophospholipase catalytic domain.  This family
           consists of Lysophospholipase / phospholipase B
           EC:3.1.1.5 and cytosolic phospholipase A2 EC:3.1.4 which
           also has a C2 domain pfam00168. Phospholipase B enzymes
           catalyze the release of fatty acids from
           lysophsopholipids and are capable in vitro of
           hydrolysing all phospholipids extractable form yeast
           cells. Cytosolic phospholipase A2 associates with
           natural membranes in response to physiological increases
           in Ca2+ and selectively hydrolyses arachidonyl
           phospholipids, the aligned region corresponds the the
           carboxy-terminal Ca2+-independent catalytic domain of
           the protein as discussed in.
          Length = 490

 Score = 28.1 bits (63), Expect = 0.76
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 47  LEDDLSDSDDEAQYGPLP 64
           L+D   DSDD +QY P P
Sbjct: 260 LKDLSEDSDDISQYPPNP 277


>gnl|CDD|233335 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor
          regulator (CFTR).  The model describes the cystis
          fibrosis transmembrane conductor regulator (CFTR) in
          eukaryotes. The principal role of this protein is
          chloride ion conductance. The protein is predicted to
          consist of 12 transmembrane domains. Mutations or
          lesions in the genetic loci have been linked to the
          aetiology of asthma, bronchiectasis, chronic
          obstructive pulmonary disease etc. Disease-causing
          mutations have been studied by 36Cl efflux assays in
          vitro cell cultures and electrophysiology, all of which
          point to the impairment of chloride channel stability
          and not the biosynthetic processing per se [Transport
          and binding proteins, Anions].
          Length = 1490

 Score = 27.6 bits (61), Expect = 1.1
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 19 QLEREIDREIAADKKK 34
          +LERE DRE+A+ KK 
Sbjct: 52 RLEREWDRELASAKKN 67


>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
          Length = 254

 Score = 26.0 bits (57), Expect = 3.9
 Identities = 12/48 (25%), Positives = 22/48 (45%)

Query: 36 GFSDNEYYDADLEDDLSDSDDEAQYGPLPQIVTNDLKSLDEMDSNHQP 83
           +S  E+  A L+ +++  +     G +        KSL+E D +HQ 
Sbjct: 32 SWSHEEFLAACLQREVAARESHGGEGRIRAARFPARKSLEEFDFDHQR 79


>gnl|CDD|217231 pfam02787, CPSase_L_D3, Carbamoyl-phosphate synthetase large
          chain, oligomerisation domain.  Carbamoyl-phosphate
          synthase catalyzes the ATP-dependent synthesis of
          carbamyl-phosphate from glutamine or ammonia and
          bicarbonate. The carbamoyl-phosphate synthase (CPS)
          enzyme in prokaryotes is a heterodimer of a small and
          large chain.
          Length = 122

 Score = 25.2 bits (56), Expect = 5.1
 Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 6/29 (20%)

Query: 17 LIQLEREIDREIAADK------KKLGFSD 39
          +++LE+E+ + +          KKLGFSD
Sbjct: 46 IVELEKELKKGLPLLDELLRKAKKLGFSD 74


>gnl|CDD|224948 COG2037, Ftr, Formylmethanofuran:tetrahydromethanopterin
           formyltransferase [Energy production and conversion].
          Length = 297

 Score = 25.5 bits (56), Expect = 5.2
 Identities = 12/40 (30%), Positives = 18/40 (45%)

Query: 33  KKLGFSDNEYYDADLEDDLSDSDDEAQYGPLPQIVTNDLK 72
             LG + N  Y   L+D + DS+       + +IV N L 
Sbjct: 214 PFLGATTNHKYCPTLKDVVEDSEVPEGVKAIYEIVINGLD 253


>gnl|CDD|222879 PHA02563, PHA02563, DNA polymerase; Provisional.
          Length = 630

 Score = 25.5 bits (56), Expect = 6.0
 Identities = 6/40 (15%), Positives = 13/40 (32%)

Query: 21  EREIDREIAADKKKLGFSDNEYYDADLEDDLSDSDDEAQY 60
              I   ++  +  +G    +  D +L         EA+ 
Sbjct: 585 INTISIYLSEMELVIGNVYEQKRDIELRLKYEFIKKEARE 624


>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
            (vWA) domain [General function prediction only].
          Length = 4600

 Score = 25.7 bits (56), Expect = 6.1
 Identities = 12/64 (18%), Positives = 23/64 (35%), Gaps = 6/64 (9%)

Query: 25   DREIAADKKKLGFSDNEYYDADLEDDLSDSDDEAQYGPLPQIVTNDLKSLDEMDSNHQPP 84
            DR+   D+++         D  ++D++     E    P P+    DL    ++D      
Sbjct: 3949 DRQEKEDEEE------MSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDV 4002

Query: 85   DPKS 88
               S
Sbjct: 4003 SKDS 4006


>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation
           factor RRN3.  This family consists of several eukaryotic
           proteins which are homologous to the yeast RRN3 protein.
           RRN3 is one of the RRN genes specifically required for
           the transcription of rDNA by RNA polymerase I (Pol I) in
           Saccharomyces cerevisiae.
          Length = 554

 Score = 25.0 bits (55), Expect = 7.8
 Identities = 9/41 (21%), Positives = 18/41 (43%)

Query: 49  DDLSDSDDEAQYGPLPQIVTNDLKSLDEMDSNHQPPDPKST 89
           DD+ D ++E           +D+  +D+ D     P+ + T
Sbjct: 223 DDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVERT 263


>gnl|CDD|201652 pfam01192, RNA_pol_Rpb6, RNA polymerase Rpb6.  Rpb6 is an
          essential subunit in the eukaryotic polymerases Pol I,
          II and III. This family also contains the bacterial
          equivalent to Rpb6, the omega subunit. Rpb6 and omega
          are structurally conserved and both function in
          polymerase assembly.
          Length = 57

 Score = 23.8 bits (52), Expect = 7.8
 Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 6/38 (15%)

Query: 1  MKVARRGAKLGMPAPMLIQLEREID------REIAADK 32
            +A+R  +L   AP L+  E EI        EIA  K
Sbjct: 15 RIIAKRAKQLSYGAPPLVDEESEIKPVVIALEEIADGK 52


>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region.  The
          domain is found in the primary vegetative sigma factor.
          The function of this domain is unclear and can be
          removed without loss of function.
          Length = 211

 Score = 24.5 bits (54), Expect = 9.8
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 44 DADLEDDLSDSDDEAQYGPLPQIV 67
          D D ED+  D ++EA  GP P+  
Sbjct: 57 DDDDEDEDEDDEEEADLGPDPEEA 80


  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
   0.311    0.132    0.367 

Gapped
Lambda     K      H
   0.267   0.0865    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,209,580
Number of extensions: 451971
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 401
Number of HSP's successfully gapped: 38
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (23.9 bits)