RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17886
         (198 letters)



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

 Score = 85.7 bits (212), Expect = 1e-19
 Identities = 49/162 (30%), Positives = 81/162 (50%), Gaps = 9/162 (5%)

Query: 42  WDWVILCLTFYTAIMVPYNVAFKNKTSEDVSLLVVDSIVDVIFFIDIVLNFHTTFVGPGG 101
           W+ +++ L  Y+A + P+ VAF N  S    L + D++VD+ F +DIVL F   ++ P  
Sbjct: 64  WETLMVVLVAYSAWVYPFEVAFLN-ASPKRGLEIADNVVDLFFAVDIVLTFFVAYIDPRT 122

Query: 102 EV-VSDPKVIRMNYLKSWFVIDLLSCLPYDVFNAFDHDEDGIGSLFSALKVVRLLRLGRV 160
           ++ V D K I + YL +WF++D+ S +P+            +   +S L ++R  RL RV
Sbjct: 123 QLLVRDRKKIAVRYLSTWFLMDVASTIPFQALAYLITGTVKLNLSYSLLGLLRFWRLRRV 182

Query: 161 VRKLDRYLE------YGAAMLILLLCFYMLVAHWLACIWYSI 196
            +   R LE      Y       LL   + + H   C++Y I
Sbjct: 183 KQLFTR-LEKDIRFSYFWIRCARLLSVTLFLVHCAGCLYYLI 223


>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 = 1e-09
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 19/128 (14%)

Query: 75  VVDSIVDVIFFIDIVLNFHTTFVGPGGEVVSDPKVIRMNYLKS-WFVIDLLSCLPYDVFN 133
           ++D +  VIF ++++L F                  +  Y +S W ++D L  LP  V  
Sbjct: 1   ILDYVFTVIFTLEMLLKFIALG-------------FKRKYFRSPWNILDFLVVLPSLVSL 47

Query: 134 AFD--HDEDGIGSLFSALKVVRLLRLGRVVRKLDRY---LEYGAAMLILLLCFYMLVAHW 188
                 ++ G+  +   L+++RLLRL R    L      L      L+ LL   +L+   
Sbjct: 48  ILFLLGEDSGLLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLFI 107

Query: 189 LACIWYSI 196
            A I   +
Sbjct: 108 FAIIGVQL 115


>gnl|CDD|223488 COG0411, LivG, ABC-type branched-chain amino acid transport
           systems, ATPase component [Amino acid transport and
           metabolism].
          Length = 250

 Score = 29.1 bits (66), Expect = 1.4
 Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 5/51 (9%)

Query: 69  EDVSLLVVDSIVDVIF-FID--IVLNFHTT-FVGPGGEVVSDPKVIRMNYL 115
             V++L+++  + ++    D  +VLN+      G   EV ++P+VI   YL
Sbjct: 199 GGVTILLIEHDMKLVMGLADRIVVLNYGEVIAEGTPEEVRNNPRVIEA-YL 248


>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 = 27.4 bits (61), Expect = 1.7
 Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 19 QYRQEAPKTPPHILLHYCA-FKAIWDWVILCLTFYTAIMVPYNVAF 63
          Q R    K+    ++H  + F+  WD  +L L     I++P  + F
Sbjct: 28 QERV---KSAGVWIIHPYSDFRFYWDLCMLLLMMGNLIILPVGITF 70


>gnl|CDD|225452 COG2899, COG2899, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 346

 Score = 27.3 bits (61), Expect = 5.1
 Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 8/48 (16%)

Query: 141 GIGSLFSALKVVRLLRLGRVVRK-LD--RYLEYGAAMLILLLCFYMLV 185
           GIG++F     VR + +  V +  LD   YLE+GA   I  L   ML+
Sbjct: 265 GIGAMF-----VRSITIYLVEKGTLDEYVYLEHGAHYAIGALAVIMLL 307


>gnl|CDD|107201 PHA02519, PHA02519, plasmid partition protein SopA; Reviewed.
          Length = 387

 Score = 27.7 bits (61), Expect = 5.2
 Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 1/32 (3%)

Query: 12  LSADVMPQYRQEAPKTPPHILLHYCAFKAIWD 43
           +  D+M  +       PPH++L   A +++WD
Sbjct: 203 IETDLMQYHDAGKLPHPPHLMLR-AAIESVWD 233


>gnl|CDD|227434 COG5103, CDC39, Cell division control protein, negative regulator of
            transcription [Cell division and chromosome partitioning
            / Transcription].
          Length = 2005

 Score = 26.9 bits (59), Expect = 9.4
 Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 3/43 (6%)

Query: 107  PKVIRMNYLKSWFVIDLLSCLPYDVFNAFDHDEDGIGSLFSAL 149
            PKV+ +N  K     DL S          D  E+G+  +  AL
Sbjct: 1676 PKVLLVNNDKIN---DLFSEGLMSFLKFLDLSEEGVVLVMEAL 1715


  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
   0.331    0.144    0.475 

Gapped
Lambda     K      H
   0.267   0.0765    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,531,049
Number of extensions: 1008918
Number of successful extensions: 1304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1296
Number of HSP's successfully gapped: 26
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 56 (25.3 bits)