RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12568
         (114 letters)



>gnl|CDD|176655 cd06146, mut-7_like_exo, DEDDy 3'-5' exonuclease domain of
           Caenorhabditis elegans mut-7 and similar proteins.  The
           mut-7 subfamily is composed of Caenorhabditis elegans
           mut-7 and similar proteins found in plants and
           metazoans. Mut-7 is implicated in posttranscriptional
           gene silencing. It contains a DEDDy-type DnaQ-like 3'-5'
           exonuclease domain possessing three conserved sequence
           motifs, termed ExoI, ExoII and ExoIII, with a specific
           YX(3)D pattern at ExoIII. These motifs are clustered
           around the active site and contain four conserved acidic
           residues that serve as ligands for the two metal ions
           required for catalysis.
          Length = 193

 Score = 90.4 bits (225), Expect = 5e-24
 Identities = 29/54 (53%), Positives = 38/54 (70%)

Query: 11  PQSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHD 64
            + L+ LV +  GK L+K +Q SNWE RPLR  QI YAALDA+CLL+V+  L +
Sbjct: 140 TKGLADLVQEVLGKPLDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLLE 193


>gnl|CDD|176654 cd06142, RNaseD_exo, DEDDy 3'-5' exonuclease domain of Ribonuclease
           D and similar proteins.  Ribonuclease (RNase) D is a
           bacterial enzyme involved in the maturation of small
           stable RNAs and the 3' maturation of tRNA. It contains a
           DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing
           three conserved sequence motifs termed ExoI, ExoII and
           ExoIII, with a specific YX(3)D pattern at ExoIII. These
           motifs are clustered around the active site and contain
           four conserved acidic residues that serve as ligands for
           the two metal ions required for catalysis. In vivo,
           RNase D only becomes essential upon removal of other
           ribonucleases. Eukaryotic RNase D homologs include yeast
           Rrp6p, human PM/Scl-100, and the Drosophila melanogaster
           egalitarian protein.
          Length = 178

 Score = 65.6 bits (161), Expect = 1e-14
 Identities = 23/59 (38%), Positives = 34/59 (57%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQGI 71
            L+ LV +  G  L+K +Q S+W  RPL   Q+ YAALD   LL +Y+ L ++   +G 
Sbjct: 107 GLAALVEELLGVELDKGEQRSDWSKRPLTDEQLEYAALDVRYLLPLYEKLKEELEEEGR 165


>gnl|CDD|176653 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain of WRN and similar
           proteins.  WRN is a unique RecQ DNA helicase exhibiting
           an exonuclease activity. It contains a DEDDy-type
           DnaQ-like 3'-5' exonuclease domain possessing three
           conserved sequence motifs termed ExoI, ExoII and ExoIII,
           with a specific YX(3)D pattern at ExoIII. These motifs
           are clustered around the active site and contain four
           conserved acidic residues that serve as ligands for the
           two metal ions required for catalysis. Mutations in the
           WRN gene cause Werner syndrome, an autosomal recessive
           disorder associated with premature aging and increased
           susceptibility to cancer and type II diabetes. WRN
           interacts with key proteins involved in DNA replication,
           recombination, and repair. It is believed to maintain
           genomic stability and life span by participating in DNA
           processes. WRN is stimulated by Ku70/80, an important
           regulator of genomic stability.
          Length = 170

 Score = 63.8 bits (156), Expect = 6e-14
 Identities = 24/52 (46%), Positives = 32/52 (61%), Gaps = 2/52 (3%)

Query: 13  SLSTLVLKCFGKTLNKQD--QFSNWENRPLRPSQISYAALDAFCLLQVYQVL 62
           SL+ LV +  G  L+K    + SNWE RPL   QI YAA DA+  L++Y+ L
Sbjct: 117 SLARLVEEVLGLPLSKPKKVRCSNWEARPLSKEQILYAATDAYASLELYRKL 168


>gnl|CDD|223426 COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and
           biogenesis].
          Length = 361

 Score = 59.2 bits (144), Expect = 1e-11
 Identities = 24/58 (41%), Positives = 35/58 (60%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQG 70
            L+ LV +  G  L+K +Q S+W  RPL  +Q+ YAA D   LL +Y  L ++ AR+G
Sbjct: 113 GLADLVEELLGVELDKSEQRSDWLARPLSEAQLEYAAADVEYLLPLYDKLTEELAREG 170


>gnl|CDD|216604 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease.  This domain is
           responsible for the 3'-5' exonuclease proofreading
           activity of E. coli DNA polymerase I (polI) and other
           enzymes, it catalyzes the hydrolysis of unpaired or
           mismatched nucleotides. This domain consists of the
           amino-terminal half of the Klenow fragment in E. coli
           polI it is also found in the Werner syndrome helicase
           (WRN), focus forming activity 1 protein (FFA-1) and
           ribonuclease D (RNase D). Werner syndrome is a human
           genetic disorder causing premature aging; the WRN
           protein has helicase activity in the 3'-5' direction.
           The FFA-1 protein is required for formation of a
           replication foci and also has helicase activity; it is a
           homologue of the WRN protein. RNase D is a 3'-5'
           exonuclease involved in tRNA processing. Also found in
           this family is the autoantigen PM/Scl thought to be
           involved in polymyositis-scleroderma overlap syndrome.
          Length = 172

 Score = 55.0 bits (133), Expect = 1e-10
 Identities = 22/50 (44%), Positives = 29/50 (58%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVL 62
           SL  L  K  G  L+K +Q ++W  RPL   Q+ YAA DA  LL++Y  L
Sbjct: 118 SLDDLAEKYLGVELDKSEQCADWRARPLSEEQLRYAAEDADYLLRLYDKL 167


>gnl|CDD|130455 TIGR01388, rnd, ribonuclease D.  This model describes ribonuclease
           D, a 3'-exonuclease shown to act on tRNA both in vitro
           and when overexpressed in vivo. Trusted members of this
           family are restricted to the Proteobacteria; Aquifex,
           Mycobacterial, and eukaryotic homologs are not
           full-length homologs. Ribonuclease D is not essential in
           E. coli and is deleterious when overexpressed. Its
           precise biological role is still unknown [Transcription,
           RNA processing].
          Length = 367

 Score = 49.4 bits (118), Expect = 3e-08
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQG 70
             + LV +  G  L+K +  ++W  RPL  +Q+ YAA D   LL +Y  L ++    G
Sbjct: 113 GYAKLVQEVLGVELDKSESRTDWLARPLTDAQLEYAAADVTYLLPLYAKLMERLEESG 170


>gnl|CDD|176650 cd06129, RNaseD_like, DEDDy 3'-5' exonuclease domain of RNase D,
           WRN, and similar proteins.  The RNase D-like group is
           composed of RNase D, WRN, and similar proteins. They
           contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease
           domain that contains three conserved sequence motifs
           termed ExoI, ExoII and ExoIII, with a specific YX(3)D
           pattern at ExoIII. These motifs are clustered around the
           active site and contain four conserved acidic residues
           that serve as ligands for the two metal ions required
           for catalysis. RNase D is involved in the 3'-end
           processing of tRNA precursors. RNase D-like proteins in
           eukaryotes include yeast Rrp6p, human PM/Scl-100 and
           Drosophila melanogaster egalitarian (Egl) protein. WRN
           is a unique DNA helicase possessing exonuclease
           activity. Mutation in the WRN gene is implicated in
           Werner syndrome, a disease associated with premature
           aging and increased predisposition to cancer. Yeast
           Rrp6p and the human Polymyositis/scleroderma autoantigen
           100kDa (PM/Scl-100) are exosome-associated proteins
           involved in the degradation and processing of precursors
           to stable RNAs. Egl is a component of an mRNA-binding
           complex which is required for oocyte specification. The
           Egl subfamily does not possess a completely conserved
           YX(3)D pattern at the ExoIII motif.
          Length = 161

 Score = 47.5 bits (113), Expect = 8e-08
 Identities = 22/50 (44%), Positives = 29/50 (58%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVL 62
           SL++LV    GKTL+K    ++W  RPL   Q  YAA D + LL +Y  L
Sbjct: 110 SLASLVEHFLGKTLDKSISCADWSYRPLTEDQKLYAAADVYALLIIYTKL 159


>gnl|CDD|99850 cd06147, Rrp6p_like_exo, DEDDy 3'-5' exonuclease domain of yeast
           Rrp6p, human polymyositis/scleroderma autoantigen
           100kDa, and similar proteins.  Yeast Rrp6p and its human
           homolog, the polymyositis/scleroderma autoantigen 100kDa
           (PM/Scl-100), are exosome-associated proteins involved
           in the degradation and processing of precursors to
           stable RNAs. Both proteins contain a DEDDy-type
           DnaQ-like 3'-5' exonuclease domain possessing three
           conserved sequence motifs termed ExoI, ExoII and ExoIII,
           with a specific YX(3)D pattern at ExoIII. The motifs are
           clustered around the active site and contain four
           conserved acidic residues that serve as ligands for the
           two metal ions required for catalysis. PM/Scl-100, an
           autoantigen present in the nucleolar compartment of the
           cell, reacts with autoantibodies produced by about 50%
           of patients with polymyositis-scleroderma overlap
           syndrome.
          Length = 192

 Score = 46.4 bits (111), Expect = 2e-07
 Identities = 22/72 (30%), Positives = 33/72 (45%)

Query: 10  SPQSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQ 69
              SL+ L+ K      +K+ Q ++W  RPL    I YA  D   LL +Y  L ++   +
Sbjct: 116 PRHSLAYLLQKYCNVDADKKYQLADWRIRPLPEEMIKYAREDTHYLLYIYDRLRNELLER 175

Query: 70  GIELGPLLTEVL 81
              L P L E +
Sbjct: 176 ANALAPNLLESV 187


>gnl|CDD|214681 smart00474, 35EXOc, 3'-5' exonuclease.  3\' -5' exonuclease
           proofreading domain present in DNA polymerase I, Werner
           syndrome helicase, RNase D and other enzymes.
          Length = 172

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 23/50 (46%), Positives = 33/50 (66%)

Query: 13  SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVL 62
            L+TL+L   G  L+K++Q S+W  RPL   Q+ YAA DA  LL++Y+ L
Sbjct: 118 GLATLLLGYLGVELDKEEQKSDWGARPLSEEQLEYAAEDADALLRLYEKL 167


>gnl|CDD|176656 cd09018, DEDDy_polA_RNaseD_like_exo, DEDDy 3'-5' exonuclease domain
           of family-A DNA polymerases, RNase D, WRN, and similar
           proteins.  DEDDy exonucleases, part of the DnaQ-like (or
           DEDD) exonuclease superfamily, catalyze the excision of
           nucleoside monophosphates at the DNA or RNA termini in
           the 3'-5' direction. They contain four invariant acidic
           residues in three conserved sequence motifs termed ExoI,
           ExoII and ExoIII. DEDDy exonucleases are classified as
           such because of the presence of a specific YX(3)D
           pattern at ExoIII. The four conserved acidic residues
           serve as ligands for the two metal ions required for
           catalysis. This family of DEDDy exonucleases includes
           the proofreading domains of family A DNA polymerases, as
           well as RNases such as RNase D and yeast Rrp6p. The
           Egalitarian (Egl) and Bacillus-like DNA Polymerase I
           subfamilies do not possess a completely conserved YX(3)D
           pattern at the ExoIII motif. In addition, the
           Bacillus-like DNA polymerase I subfamily has inactive
           3'-5' exonuclease domains which do not possess the
           metal-binding residues necessary for activity.
          Length = 150

 Score = 36.4 bits (84), Expect = 8e-04
 Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 13  SLSTLVLKCFGKTLNKQDQF--SNWENRPLRPSQISYAALDAFCLLQVYQVL 62
            + +LV +  G  L K +      W N+PL   Q  YAA DA   LQ++  L
Sbjct: 97  DMDSLVERWLGHKLIKFESIAGKLWFNQPLTEEQGRYAAEDADVTLQIHLKL 148


>gnl|CDD|99851 cd06148, Egl_like_exo, DEDDy 3'-5' exonuclease domain of Drosophila
           Egalitarian (Egl) and similar proteins.  The Egalitarian
           (Egl) protein subfamily is composed of Drosophila Egl
           and similar proteins. Egl is a component of an
           mRNA-binding complex which is required for oocyte
           specification. Egl contains a DEDDy-type DnaQ-like 3'-5'
           exonuclease domain possessing three conserved sequence
           motifs termed ExoI, ExoII and ExoIII, with a specific
           YX(3)D pattern at ExoIII. The motifs are clustered
           around the active site and contain four conserved acidic
           residues that serve as ligands for the two metal ions
           required for catalysis. The conservation of this
           subfamily throughout eukaryotes suggests that its
           members may be part of ancient RNA processing complexes
           that are likely to participate in the regulated
           processing of specific mRNAs. Some members of this
           subfamily do not have a completely conserved YX(3)D
           pattern at the ExoIII motif.
          Length = 197

 Score = 35.0 bits (81), Expect = 0.004
 Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 24  KTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVY 59
           K L ++D    W  RPL    I YAALD  CLL +Y
Sbjct: 136 KKLMREDP-KFWALRPLTEDMIRYAALDVLCLLPLY 170


>gnl|CDD|236771 PRK10829, PRK10829, ribonuclease D; Provisional.
          Length = 373

 Score = 34.2 bits (79), Expect = 0.008
 Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 9   GSPQS--LSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLL 56
           G P S   +++V +  G TL+K +  ++W  RPL   Q  YAA D F LL
Sbjct: 111 GRPLSCGFASMVEEYTGVTLDKSESRTDWLARPLSERQCEYAAADVFYLL 160


>gnl|CDD|181973 PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed.
          Length = 476

 Score = 27.5 bits (61), Expect = 1.6
 Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 5/35 (14%)

Query: 56  LQVYQVLHDQCARQGIELGPLLTEV---LSSHAVT 87
           LQ Y  L D+C +QGIE  P++T     +  H VT
Sbjct: 107 LQFYDDLFDECLKQGIE--PVVTLSHFEMPYHLVT 139


>gnl|CDD|176117 cd08426, PBP2_LTTR_like_5, The C-terminal substrate binding domain
           of an uncharacterized LysR-type transcriptional
           regulator, contains the type 2 periplasmic binding fold.
            LysR-transcriptional regulators comprise the largest
           family of prokaryotic transcription factor. Homologs of
           some of LTTRs with similar domain organizations are also
           found in the archaea and eukaryotic organisms. The LTTRs
           are composed of two functional domains joined by a
           linker helix involved in oligomerization: an N-terminal
           HTH (helix-turn-helix) domain, which is responsible for
           the DNA-binding specificity, and a C-terminal
           substrate-binding domain, which is structurally
           homologous to the type 2 periplasmic binding proteins.
           As also observed in the periplasmic binding proteins,
           the C-terminal domain of the bacterial transcriptional
           repressor undergoes a conformational change upon
           substrate binding which in turn changes the DNA binding
           affinity of the repressor.  The genes controlled by the
           LTTRs have diverse functional roles including amino acid
           biosynthesis, CO2 fixation, antibiotic resistance,
           degradation of aromatic compounds, nodule formation of
           nitrogen-fixing bacteria, and synthesis of virulence
           factors, to a name a few.  This substrate-binding domain
           shows significant homology to the type 2 periplasmic
           binding proteins (PBP2), which are responsible for the
           uptake of a variety of substrates such as phosphate,
           sulfate, polysaccharides, lysine/arginine/ornithine, and
           histidine. The PBP2 bind their ligand in the cleft
           between these domains in a manner resembling a Venus
           flytrap. After binding their specific ligand with high
           affinity, they can interact with a cognate membrane
           transport complex comprised of two integral membrane
           domains and two cytoplasmically located ATPase domains.
           This interaction triggers the ligand translocation
           across the cytoplasmic membrane energized by ATP
           hydrolysis.
          Length = 199

 Score = 26.9 bits (60), Expect = 2.2
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 10/58 (17%)

Query: 39  PL-RPSQISYAALDAFCL------LQVYQVLHDQCARQGIELGPLLTEVLSSHAVTTK 89
           PL R   ++ A L  + L        + Q+L    AR G++L P+L   +S+   T K
Sbjct: 83  PLARQPSVTLAQLAGYPLALPPPSFSLRQILDAAFARAGVQLEPVL---ISNSIETLK 137


>gnl|CDD|213768 TIGR03072, release_prfH, putative peptide chain release factor H.
           Members of this protein family are bacterial proteins
          homologous to peptide chain release factors 1 (RF-1,
          product of the prfA gene), and 2 (RF-2, product of the
          prfB gene). The member from Escherichia coli K-12,
          designated prfH, appears to be a pseudogene. This class
          I release factor is always found as the downstream gene
          of a two-gene operon [Protein synthesis, Translation
          factors].
          Length = 200

 Score = 27.0 bits (60), Expect = 2.2
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 3/40 (7%)

Query: 44 QISYAALDAFCLLQVYQVL---HDQCARQGIELGPLLTEV 80
          Q+S A   A C L V + L     + A +G+ +  L  E 
Sbjct: 4  QLSSAQGPAECCLAVAKALERLTREAAARGVRVEVLEQEP 43


>gnl|CDD|236976 PRK11773, uvrD, DNA-dependent helicase II; Provisional.
          Length = 721

 Score = 26.8 bits (60), Expect = 3.4
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 7/58 (12%)

Query: 40  LRPSQISYAALDAF--CLLQVYQVLHDQCARQG-IELGPLLTEVLSSHAVTTKKSTIL 94
           LRP  I  +  D      L++YQ   + C R G ++   LL   L +H +   K  IL
Sbjct: 154 LRPQHIQ-SYGDPVEQTWLKIYQAYQEACDRAGLVDFAELL---LRAHELWLNKPHIL 207


>gnl|CDD|216166 pfam00872, Transposase_mut, Transposase, Mutator family. 
          Length = 381

 Score = 26.5 bits (59), Expect = 3.6
 Identities = 9/19 (47%), Positives = 10/19 (52%)

Query: 34  NWENRPLRPSQISYAALDA 52
            W  RPL  S+  Y  LDA
Sbjct: 151 AWRERPLEESRYPYLFLDA 169


>gnl|CDD|233047 TIGR00604, rad3, DNA repair helicase (rad3).  All proteins in this
           family for which funcitons are known are DNA-DNA
           helicases that funciton in the initiation of
           transcription and nucleotide excision repair as part of
           the TFIIH complex. 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 = 705

 Score = 26.6 bits (59), Expect = 3.7
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 66  CARQGIELGPLLTEVLSSHAVTTKKSTILYFSTVSGLDTKEHRQLCLNH 114
            +R   +L     E+    +  T    I   S VSGL     + LCL+ 
Sbjct: 66  ASRTHSQLEQATEELRKLMSYRTP--RIGEESPVSGLSLASRKNLCLHP 112


>gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional.
          Length = 880

 Score = 26.2 bits (59), Expect = 4.2
 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 47  YAALDAFCLLQVYQVLHDQCARQGIELGPLLTEV 80
           YAA DA   L++++VL  +   +   L  L  E+
Sbjct: 450 YAAEDADVTLRLHEVLKPKLLEE-PGLLELYEEI 482


>gnl|CDD|176651 cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' exonuclease domain
           of Escherichia coli DNA polymerase I and similar
           bacterial family-A DNA polymerases.  Escherichia
           coli-like Polymerase I (Pol I), a subgroup of family-A
           DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5'
           exonuclease domain in the same polypeptide chain as the
           polymerase domain. The exonuclease domain contains three
           conserved sequence motifs termed ExoI, ExoII and ExoIII,
           with a specific YX(3)D pattern at ExoIII. These motifs
           are clustered around the active site and contain four
           conserved acidic residues that serve as ligands for the
           two metal ions required for catalysis. The 3'-5'
           exonuclease domain of DNA polymerases has a fundamental
           role in reducing polymerase errors and is involved in
           proofreading activity. E. coli DNA Pol I is involved in
           genome replication but is not the main replicating
           enzyme. It is also implicated in DNA repair.
          Length = 193

 Score = 25.6 bits (57), Expect = 5.4
 Identities = 8/19 (42%), Positives = 13/19 (68%)

Query: 47  YAALDAFCLLQVYQVLHDQ 65
           YAA DA   L++Y++L  +
Sbjct: 151 YAAEDADITLRLYELLKPK 169


>gnl|CDD|238675 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
           Myosin III has been shown to play a role in  the vision
           process in insects and in hearing in mammals. Myosin
           III, an unconventional myosin, does not form dimers.
           This catalytic (head) domain has ATPase activity and
           belongs to the larger group of P-loop NTPases. Myosins
           are actin-dependent molecular motors that play important
           roles in muscle contraction, cell motility, and
           organelle transport. The head domain is a molecular
           motor, which utilizes ATP hydrolysis to generate
           directed movement toward the plus end along actin
           filaments. A cyclical interaction between myosin and
           actin provides the driving force. Rates of ATP
           hydrolysis and consequently the speed of movement along
           actin filaments vary widely, from about 0.04 micrometer
           per second for myosin I to 4.5 micrometer per second for
           myosin II in skeletal muscle. Myosin II moves in
           discrete steps about 5-10 nm long and generates 1-5
           piconewtons of force. Upon ATP binding, the myosin head
           dissociates from an actin filament. ATP hydrolysis
           causes the head to pivot and associate with a new actin
           subunit. The release of Pi causes the head to pivot and
           move the filament (power stroke). Release of ADP
           completes the cycle.
          Length = 653

 Score = 25.6 bits (56), Expect = 8.9
 Identities = 11/23 (47%), Positives = 15/23 (65%)

Query: 77  LTEVLSSHAVTTKKSTILYFSTV 99
           L E L+SH V T+  TI+  +TV
Sbjct: 308 LQEALTSHCVVTRGETIVRHNTV 330


  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    0.131    0.385 

Gapped
Lambda     K      H
   0.267   0.0706    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,136,883
Number of extensions: 400202
Number of successful extensions: 292
Number of sequences better than 10.0: 1
Number of HSP's gapped: 291
Number of HSP's successfully gapped: 25
Length of query: 114
Length of database: 10,937,602
Length adjustment: 78
Effective length of query: 36
Effective length of database: 7,477,990
Effective search space: 269207640
Effective search space used: 269207640
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 (21.8 bits)
S2: 53 (24.2 bits)