RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11695
         (190 letters)



>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel
           transmembrane region.  This family includes the four
           transmembrane helices that form the ion channel.
          Length = 228

 Score = 99.7 bits (249), Expect = 3e-26
 Identities = 50/178 (28%), Positives = 80/178 (44%), Gaps = 18/178 (10%)

Query: 1   MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSRPSEEDKTSLTEAT 60
           MF+  +SV   +++LN HHR+  TH+M  W+R +FL+ +P +L M RP E          
Sbjct: 66  MFVFTASVEYAVVVLNVHHRSPSTHKMPEWVRKLFLRKLPRLLFMKRPPES--------- 116

Query: 61  RKALKLKELELKERSSKSLLANVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTSC 120
                     L+  SS S          + +      +S        SG G+    +   
Sbjct: 117 --LSPPAAPNLRRSSSSSGSVLEPASGKESKGVGGPETSSGLPGGSGSGLGSPFRLSP-- 172

Query: 121 IGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATV 178
                EL   L+ +R I + ++  DE  E+  DWK+ AMV+DR+   IF +  +L T+
Sbjct: 173 -----ELKKALEGVRFIAEHLRSRDEFDEVKEDWKYVAMVIDRLSRWIFPIAFVLGTL 225


>gnl|CDD|233155 TIGR00860, LIC, Cation transporter family protein.  The
           Ligand-gated Ion Channel (LIC) Family of
           Neurotransmitter Receptors TC 1.A.9)Members of the LIC
           family of ionotropic neurotransmitter receptors are
           found only in vertebrate and invertebrate animals. They
           exhibit receptor specificity for (1)acetylcholine, (2)
           serotonin, (3) glycine, (4) glutamate and (5)
           g-aminobutyric acid (GABA). All of these receptor
           channels are probably hetero- orhomopentameric. The best
           characterized are the nicotinic acetyl-choline receptors
           which are pentameric channels of a2bgd subunit
           composition. All subunits arehomologous. The three
           dimensional structures of the protein complex in both
           the open and closed configurations have been solved at
           0.9 nm resolution.The channel protein complexes of the
           LIC family preferentially transport cations or anions
           depending on the channel (e.g., the acetylcholine
           receptors are cationselective while glycine receptors
           are anion selective) [Transport and binding proteins,
           Cations and iron carrying compounds].
          Length = 459

 Score = 55.5 bits (134), Expect = 2e-09
 Identities = 32/178 (17%), Positives = 64/178 (35%), Gaps = 35/178 (19%)

Query: 1   MFMVASSVVSTILILNYHHRNADTHEMSPWIRLVFLQWMPCILRMSRPSEEDKTSLTEAT 60
           M  V  +++ T  +   HH++    +       + L+     L    P E+ +    +  
Sbjct: 311 MAFVFLALLETAFVNYVHHKDPAQGKRH-----LLLERCAWRLCKQEPGEDYRRPALDHA 365

Query: 61  RKALKLKELELKERSSKSLLANVLDIDDDFRHNTLQSSSHTFLRHDDSGGGTILHATTSC 120
                L  +E++ +     L                         +       L  +   
Sbjct: 366 ----SLSSVEMRAKDGGRGL-------------------------ESPTERQRLLHSPPP 396

Query: 121 IGPHRELTLILKELRVITDKIQKEDEAAEITNDWKFAAMVVDRMCLIIFTLFTILATV 178
                +L  IL+E+R+   + +K DE+ E+  DWKF A V+D++  + F L  +L  +
Sbjct: 397 AEGDLDLAGILEEVRIA-HRFRKRDESEEVVRDWKFRAKVIDKLSRMAFPLAFLLFNI 453


>gnl|CDD|238830 cd01660, ba3-like_Oxidase_I, ba3-like heme-copper oxidase subunit
           I.  The ba3 family of heme-copper oxidases are
           transmembrane protein complexes in the respiratory
           chains of prokaryotes and some archaea which catalyze
           the reduction of O2 and simultaneously pump protons
           across the membrane.  It has been proposed that Archaea
           acquired heme-copper oxidases through gene transfer from
           Gram-positive bacteria.  The ba3 family contains
           oxidases that lack the conserved residues that form the
           D- and K-pathways in CcO and ubiquinol oxidase. Instead
           they contain a potential alternative K-pathway.
           Additional proton channels have been proposed for this
           family of oxidases but none have been identified
           definitively.  For general information on the
           heme-copper oxidase superfamily, please see cd00919.
          Length = 473

 Score = 28.0 bits (63), Expect = 3.2
 Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%)

Query: 149 EITNDWKFAAMVVDRMCLI--IFTLFTILATV 178
            I   WKF  MV+  M  +  + T FT+ A++
Sbjct: 269 GIGPGWKFIHMVLTFMVALPSLLTAFTVFASL 300


>gnl|CDD|203734 pfam07704, PSK_trans_fac, Rv0623-like transcription factor.  This
           entry represents the Rv0623-like family of transcription
           factors associated with the PSK operon.
          Length = 81

 Score = 26.5 bits (59), Expect = 3.3
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 4/60 (6%)

Query: 53  KTSLTEATRKALKLKELELKERSSKSLLANVLDIDDDFRHNTL--QSSSHTFLRHDDSGG 110
             S T+A R AL+ + L  + R    LL  +  I        L    S    L +D+ G 
Sbjct: 22  GESKTDAVRIALR-ERLA-RRRRKIPLLERLAAIRRKAAAPLLPPDRSPDDKLGYDEMGL 79


>gnl|CDD|198294 cd03185, GST_C_Tau, C-terminal, alpha helical domain of Class Tau
          Glutathione S-transferases.  Glutathione S-transferase
          (GST) C-terminal domain family, Class Tau subfamily;
          GSTs are cytosolic dimeric proteins involved in
          cellular detoxification by catalyzing the conjugation
          of glutathione (GSH) with a wide range of endogenous
          and xenobiotic alkylating agents, including
          carcinogens, therapeutic drugs, environmental toxins
          and products of oxidative stress. The GST fold contains
          an N-terminal thioredoxin-fold domain and a C-terminal
          alpha helical domain, with an active site located in a
          cleft between the two domains. GSH binds to the
          N-terminal domain while the hydrophobic substrate
          occupies a pocket in the C-terminal domain. The
          plant-specific class Tau GST subfamily has undergone
          extensive gene duplication. The Arabidopsis and Oryza
          genomes contain 28 and 40 Tau GSTs, respectively. They
          are primarily responsible for herbicide detoxification
          together with class Phi GSTs, showing class specificity
          in substrate preference. Tau enzymes are highly
          efficient in detoxifying diphenylether and
          aryloxyphenoxypropionate herbicides. In addition, Tau
          GSTs play important roles in intracellular signalling,
          biosynthesis of anthocyanin, responses to soil stresses
          and responses to auxin and cytokinin hormones.
          Length = 127

 Score = 27.1 bits (61), Expect = 3.3
 Identities = 11/44 (25%), Positives = 19/44 (43%)

Query: 30 WIRLVFLQWMPCILRMSRPSEEDKTSLTEATRKALKLKELELKE 73
          W   +  +  P   ++     E++    E   +ALK+ E ELK 
Sbjct: 10 WAAYIDDKLFPAGRKVWAAKGEEQEKAVEEALEALKVLEEELKG 53


>gnl|CDD|227658 COG5360, COG5360, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 566

 Score = 27.9 bits (62), Expect = 3.6
 Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 5/39 (12%)

Query: 101 TFLRHDDSGGGTILHATTSCIGPHRELTLILKELRVITD 139
           + LRHD++ G  + HA  S  G  R   L +    +I D
Sbjct: 304 SVLRHDETAGRPLNHAPHS--GYER---LAMGSTVIIAD 337


>gnl|CDD|215638 PLN03225, PLN03225, Serine/threonine-protein kinase SNT7;
           Provisional.
          Length = 566

 Score = 27.4 bits (61), Expect = 5.0
 Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 35  FLQWMPCILRMSRPSEEDKTSLTEATRKALKLKELELKERSSKSLLANVL 84
              W+  +  M++   E +   TEA  + L+ KE + K  + ++ LA+ L
Sbjct: 482 AAAWV--VFLMAKSGTEKEGGFTEAQLQELREKEPKKKGSAQRNALASAL 529


>gnl|CDD|227590 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster
           assembly, permease and ATPase components
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 497

 Score = 26.9 bits (60), Expect = 7.4
 Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 2/25 (8%)

Query: 153 DWKFAAMVVDRMCLIIFTLFTILAT 177
            W FA   +  + +I++ LFT++ +
Sbjct: 82  GWWFALTTL--VTVILYLLFTVIVS 104


>gnl|CDD|220455 pfam09883, DUF2110, Uncharacterized protein conserved in archaea
           (DUF2110).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 226

 Score = 26.6 bits (59), Expect = 8.3
 Identities = 8/34 (23%), Positives = 14/34 (41%)

Query: 32  RLVFLQWMPCILRMSRPSEEDKTSLTEATRKALK 65
           R   +Q +P  +R     +  +  LT+  R  L 
Sbjct: 121 RFGLVQHLPVEVRFVEVEDGIEARLTDKQRDRLY 154


  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
   0.323    0.134    0.393 

Gapped
Lambda     K      H
   0.267   0.0839    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,347,186
Number of extensions: 842526
Number of successful extensions: 1138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1137
Number of HSP's successfully gapped: 23
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.1 bits)