RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16082
         (252 letters)



>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
           Provisional.
          Length = 823

 Score = 76.8 bits (189), Expect = 5e-16
 Identities = 56/220 (25%), Positives = 99/220 (45%), Gaps = 21/220 (9%)

Query: 38  VVNPDSNLYFYWLLIITCCVLYNLWTLIVRQSFPELQENGAKFWFFCDYTTDTFIVLDIL 97
           +++P  + Y +W  ++   V Y+ W      +F              D   D F  +DI+
Sbjct: 53  IISPMDSRYRWWETLMVVLVAYSAWVYPFEVAFLNASPKRG--LEIADNVVDLFFAVDIV 110

Query: 98  VQFRTGYLEQ--GLMVYNSMKLAGHYVKSRAFMLDIISLLPLDLL-YFKIG------VNP 148
           + F   Y++    L+V +  K+A  Y+ S  F++D+ S +P   L Y   G         
Sbjct: 111 LTFFVAYIDPRTQLLVRDRKKIAVRYL-STWFLMDVASTIPFQALAYLITGTVKLNLSYS 169

Query: 149 MLRFPRFLKVYRVYDYYYIVESRTVYPNLW-RVVNLVHILLIFAHWFGCFYYLLS----- 202
           +L   RF ++ RV   +  +E    +   W R   L+ + L   H  GC YYL++     
Sbjct: 170 LLGLLRFWRLRRVKQLFTRLEKDIRFSYFWIRCARLLSVTLFLVHCAGCLYYLIADRYPH 229

Query: 203 QAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIG 242
           Q + + G  +  +R    ++L  +Y+ +IYWS  T+TT+G
Sbjct: 230 QGKTWIGAVIPNFRE---TSLWIRYISAIYWSITTMTTVG 266


>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein.  This family contains
           Sodium, Potassium, Calcium ion channels. This family is
           6 transmembrane helices in which the last two helices
           flank a loop which determines ion selectivity. In some
           sub-families (e.g. Na channels) the domain is repeated
           four times, whereas in others (e.g. K channels) the
           protein forms as a tetramer in the membrane. A bacterial
           structure of the protein is known for the last two
           helices but is not the Pfam family due to it lacking the
           first four helices.
          Length = 194

 Score = 54.6 bits (132), Expect = 3e-09
 Identities = 34/167 (20%), Positives = 58/167 (34%), Gaps = 21/167 (12%)

Query: 85  DYTTDTFIVLDILVQFRTGYLEQGLMVYNSMKLAGHYVKSRAFMLDIISLLPLDLLYFKI 144
           DY       L++L++F                    Y +S   +LD + +LP  +     
Sbjct: 3   DYVFTVIFTLEMLLKFIALGF------------KRKYFRSPWNILDFLVVLPSLVSLILF 50

Query: 145 GVNPM---LRFPRFLKVYRVYDYYYIVES-RTVYPNLWR----VVNLVHILLIFAHWFGC 196
            +      LR  R L++ R+          RT+  +L R    ++NL+ +LL+    F  
Sbjct: 51  LLGEDSGLLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLFIFAI 110

Query: 197 FYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIGD 243
               L   E               ++    Y  ++ W   TLTT G 
Sbjct: 111 IGVQLFGGE-LDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTEGW 156


>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel.  This family includes the two
           membrane helix type ion channels found in bacteria.
          Length = 74

 Score = 27.9 bits (63), Expect = 1.1
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)

Query: 207 FYGDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIG 242
                VY     E       +L ++Y+S +TLTTIG
Sbjct: 7   LIFGTVYYSLEEEGWGWD--FLDALYFSFVTLTTIG 40


>gnl|CDD|239162 cd02761, MopB_FmdB-FwdB, The MopB_FmdB-FwdB CD contains the
           molybdenum/tungsten formylmethanofuran dehydrogenases,
           subunit B (FmdB/FwdB), and other related proteins.
           Formylmethanofuran dehydrogenase catalyzes the first
           step in methane formation from CO2 in methanogenic
           archaea and some eubacteria. Members of this CD belong
           to the molybdopterin_binding (MopB) superfamily of
           proteins.
          Length = 415

 Score = 30.0 bits (68), Expect = 1.4
 Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 12/41 (29%)

Query: 122 VKSRAFMLDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRVY 162
           VK+RA           D++ +  G NPM   PR +  Y V+
Sbjct: 128 VKNRA-----------DVIVY-WGTNPMHAHPRHMSRYSVF 156


>gnl|CDD|191640 pfam06916, DUF1279, Protein of unknown function (DUF1279).  This
           family represents the C-terminus (approx. 120 residues)
           of a number of eukaryotic proteins of unknown function.
          Length = 88

 Score = 26.8 bits (60), Expect = 3.2
 Identities = 9/20 (45%), Positives = 11/20 (55%), Gaps = 1/20 (5%)

Query: 184 VHILLIFAHWFGCFYYLLSQ 203
           VH  +  A  FG FY L+S 
Sbjct: 17  VHFSISLA-SFGIFYLLVSS 35


>gnl|CDD|220578 pfam10113, Fibrillarin_2, Fibrillarin-like archaeal protein.
           Members of this family of proteins include archaeal
           fibrillarin homologs.
          Length = 505

 Score = 28.6 bits (64), Expect = 3.6
 Identities = 9/44 (20%), Positives = 17/44 (38%), Gaps = 6/44 (13%)

Query: 209 GDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIGDLPQPETDVE 252
            + VYP  +G        Y+G  +W+ L  +   +       V+
Sbjct: 368 SNLVYPRDIGGT------YIGDAHWAALPSSPAYERSDVVKTVD 405


>gnl|CDD|217540 pfam03408, Foamy_virus_ENV, Foamy virus envelope protein.
           Expression of the envelope (Env) glycoprotein is
           essential for viral particle egress. This feature is
           unique to the Spumavirinae, a subclass of the
           Retroviridae.
          Length = 985

 Score = 28.6 bits (64), Expect = 3.7
 Identities = 9/29 (31%), Positives = 18/29 (62%)

Query: 159 YRVYDYYYIVESRTVYPNLWRVVNLVHIL 187
           + +  YY I+  + +Y N W+V N+ H++
Sbjct: 699 WEIGIYYEIIIPKHIYLNNWQVKNIGHLV 727


>gnl|CDD|214775 smart00689, DM6, Cysteine-rich domain currently specific to
           Drosophila. 
          Length = 157

 Score = 27.4 bits (61), Expect = 4.7
 Identities = 6/16 (37%), Positives = 10/16 (62%), Gaps = 1/16 (6%)

Query: 18  GNCHAGRRP-RCRRKK 32
            +C A RRP  C +++
Sbjct: 104 PSCRAVRRPSDCVKRR 119


>gnl|CDD|219348 pfam07248, DUF1431, Protein of unknown function (DUF1431).  This
           family contains a number of Drosophila melanogaster
           proteins of unknown function. These contain several
           conserved cysteine residues.
          Length = 159

 Score = 27.4 bits (61), Expect = 4.8
 Identities = 8/14 (57%), Positives = 10/14 (71%)

Query: 19  NCHAGRRPRCRRKK 32
           +C  GRRP C RK+
Sbjct: 105 SCRRGRRPSCCRKR 118


>gnl|CDD|149466 pfam08412, Ion_trans_N, Ion transport protein N-terminal.  This
          metazoan domain is found to the N-terminus of pfam00520
          in voltage- and cyclic nucleotide-gated K/Na ion
          channels.
          Length = 77

 Score = 25.8 bits (57), Expect = 8.2
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 38 VVNPDSNLYFYWLLIITCCVLYNLWTLIVRQSF 70
          +++P S+  FYW L +   ++ NL  L V  +F
Sbjct: 38 IIHPYSDFRFYWDLCMLLLMMGNLIILPVGITF 70


  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
   0.328    0.145    0.481 

Gapped
Lambda     K      H
   0.267   0.0738    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,331,755
Number of extensions: 1274018
Number of successful extensions: 1271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1262
Number of HSP's successfully gapped: 25
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
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 (21.7 bits)
S2: 58 (26.1 bits)