RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3712
         (109 letters)



>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
          Length = 888

 Score = 27.3 bits (61), Expect = 1.6
 Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 5/34 (14%)

Query: 22  TDGGLGHVEMLFRCNYLALVGGGTHPKYPNNRVM 55
           +D  +GH E++ +  +        HPK+PN  +M
Sbjct: 691 SDDEVGHFELVIKVYF-----KNVHPKFPNGGLM 719


>gnl|CDD|233363 TIGR01341, aconitase_1, aconitate hydratase 1.  This model
           represents one form of the TCA cycle enzyme aconitate
           hydratase, also known as aconitase and citrate
           hydro-lyase. It is found in bacteria, archaea, and
           eukaryotic cytosol. It has been shown to act also as an
           iron-responsive element binding protein in animals and
           may have the same role in other eukaryotes [Energy
           metabolism, TCA cycle].
          Length = 876

 Score = 27.1 bits (60), Expect = 2.4
 Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 47  PKYPNNRVMIWDDLKKQVVICLEFNAPVKGVRLRRDKIVVVLEG 90
           PK P +R+ +  ++K +    LE N   KG  LR++ +   + G
Sbjct: 360 PKRPQDRIPL-REVKAKFSKELEKNGGDKGFTLRKEPLKKKVNG 402


>gnl|CDD|233051 TIGR00611, recf, recF protein.  All proteins in this family for
           which functions are known are DNA binding proteins that
           assist the filamentation of RecA onto DNA for the
           initiation of recombination or recombinational repair.
           This family is based on the phylogenomic analysis of JA
           Eisen (1999, Ph.D. Thesis, Stanford University) [DNA
           metabolism, DNA replication, recombination, and repair].
          Length = 365

 Score = 25.8 bits (57), Expect = 5.2
 Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 3/28 (10%)

Query: 3   DGFRIYNCDPLKEKERQDFTDGGLGHVE 30
           +   +    P   K R+ F D GL  VE
Sbjct: 121 EDLTLVKGSP---KYRRRFLDWGLFQVE 145


>gnl|CDD|215320 PLN02588, PLN02588, glycerol-3-phosphate acyltransferase.
          Length = 525

 Score = 25.7 bits (56), Expect = 6.0
 Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 69  EFNAPVKGVRLRRDKIV--VVLEGLIKVYTFIQCPQ 102
           E  AP+K VRL RD++     +E L+     + CP+
Sbjct: 365 ELLAPIKTVRLTRDRVKDGQAMEKLLSQGDLVVCPE 400


>gnl|CDD|206690 cd04104, p47_IIGP_like, p47 GTPase family includes IGTP,
          TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1.  The p47
          GTPase family consists of several highly homologous
          proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI,
          LRG-47, and IIGP1. They are found in higher eukaryotes
          where they play a role in immune resistance against
          intracellular pathogens. p47 proteins exist at low
          resting levels in mouse cells, but are strongly induced
          by Type II interferon (IFN-gamma). ITGP is critical for
          resistance to Toxoplasma gondii infection and in
          involved in inhibition of Coxsackievirus-B3-induced
          apoptosis. TGTP was shown to limit vesicular stomatitis
          virus (VSV) infection of fibroblasts in vitro. IRG-47
          is involved in resistance to T. gondii infection.
          LRG-47 has been implicated in resistance to T. gondii,
          Listeria monocytogenes, Leishmania, and mycobacterial
          infections. IIGP1 has been shown to localize to the ER
          and to the Golgi membranes in IFN-induced cells and
          inflamed tissues. In macrophages, IIGP1 interacts with
          hook3, a microtubule binding protein that participates
          in the organization of the cis-Golgi compartment.
          Length = 197

 Score = 25.4 bits (56), Expect = 6.2
 Identities = 8/14 (57%), Positives = 10/14 (71%), Gaps = 2/14 (14%)

Query: 45 THPKYPNNRVMIWD 58
           HPK+PN  V +WD
Sbjct: 47 PHPKFPN--VTLWD 58


>gnl|CDD|237407 PRK13516, PRK13516, gamma-glutamyl:cysteine ligase; Provisional.
          Length = 373

 Score = 25.3 bits (56), Expect = 8.9
 Identities = 6/10 (60%), Positives = 8/10 (80%)

Query: 38  LALVGGGTHP 47
           + + GGGTHP
Sbjct: 92  IGICGGGTHP 101


  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
   0.327    0.147    0.470 

Gapped
Lambda     K      H
   0.267   0.0778    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,786,837
Number of extensions: 494343
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 12
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)