RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17509
         (171 letters)



>gnl|CDD|215838 pfam00287, Na_K-ATPase, Sodium / potassium ATPase beta chain. 
          Length = 289

 Score = 94.0 bits (234), Expect = 8e-24
 Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 29/163 (17%)

Query: 7   IFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPGLGFRPMSSDPEAAS 66
           I LFYV+FY  LA +F + ++V++ TL D  PK Q D      +PGL  RP         
Sbjct: 40  ILLFYVVFYGFLAGIFTLTIWVMLQTLDDYTPKYQ-DR---VASPGLMIRPK---VYKGL 92

Query: 67  LIRYKINNTESASMWTKEIDNYLEGNLLFPDLEVYKNPQKLPGNQVKC---------DYD 117
            I + +++ +S   +   ++ +LE          Y N  K  GN   C          + 
Sbjct: 93  EISFNVSDPKSWQEYVHTLNEFLEP---------Y-NDSKQSGNFENCTPGKYFDQGPFG 142

Query: 118 NPPPQGKICEIELEKNMGPCT--EAFNYGFTAGKPCVFIKLNK 158
            P  + K C+   E  +G C+      +G++ GKPCV IK+N+
Sbjct: 143 APNGEKKACQFNREW-LGNCSGLNDPTFGYSEGKPCVLIKMNR 184


>gnl|CDD|162204 TIGR01107, Na_K_ATPase_bet, Sodium Potassium ATPase beta subunit.
           This model describes the Na+/K+ ATPase beta subunit in
           eukaryotes. Na+/K+ ATPase(also called Sodium-Potassium
           pump) is intimately associated with the plasma membrane.
           It couples the energy released by the hydrolysis of ATP
           to extrude 3 Na+ ions, with the concomitant uptake of
           2K+ ions, against their ionic gradients [Transport and
           binding proteins, Cations and iron carrying compounds].
          Length = 289

 Score = 82.0 bits (203), Expect = 3e-19
 Identities = 42/164 (25%), Positives = 74/164 (45%), Gaps = 30/164 (18%)

Query: 7   IFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPGLGFRPMSSDPEAAS 66
           I LFY++FY  LA +F   + V++ T++D  PK Q D      +PGL  RP     +   
Sbjct: 39  ILLFYLVFYGCLAGIFIGTIQVMLQTISDFTPKYQ-DRV---ASPGLTQRP---KVQKLE 91

Query: 67  LIRYKINNTESASMWTKEIDNYL--------EGNLLF--PDLEVYKNPQKLPGNQVKCDY 116
            I + +++  S   + + +  +L        E   LF   D   Y+             +
Sbjct: 92  -ISFNVSDPSSYEGYVQNLHKFLKPYNDSAQEDKNLFDCGDGAEYEQRG---------PF 141

Query: 117 DNPPPQGKICEIELEKNMGPCT--EAFNYGFTAGKPCVFIKLNK 158
           + P    K C+ + +  +G C+      +G++ GKPC+ IK+N+
Sbjct: 142 NAPYGTKKACQFKRDW-LGNCSGLNDPTFGYSEGKPCIIIKMNR 184


>gnl|CDD|131268 TIGR02213, lolE_release, lipoprotein releasing system,
           transmembrane protein LolE.  This protein is part of an
           unusual ABC transporter complex that releases
           lipoproteins from the periplasmic side of the bacterial
           inner membrane, rather than transport any substrate
           across the inner membrane. In some species, the
           permease-like transmembrane protein is represented by
           two paralogs, LolC and LolE, both in the LolCDE complex.
           This family consists of LolE, as found in E. coli and
           related species [Protein fate, Protein and peptide
           secretion and trafficking].
          Length = 411

 Score = 29.4 bits (66), Expect = 1.0
 Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 8/60 (13%)

Query: 2   AIIRGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPGLGFRPMSSD 61
            +I+ IF++Y +   +   L  I + V+++        L L   I G+   +G + +S D
Sbjct: 310 GLIKRIFVWYGLQAGMKGSLIGIVLGVIVA--------LNLTTFIQGIEWVIGHQFLSGD 361


>gnl|CDD|222553 pfam14116, YyzF, YyzF-like protein.  The YyzF-like protein family
           includes the B. subtilis YyzF protein, which is
           functionally uncharacterized. This family of proteins is
           found in bacteria. Proteins in this family are
           approximately 60 amino acids in length.
          Length = 48

 Score = 26.9 bits (60), Expect = 1.1
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)

Query: 85  IDNYLEGNLLFPDLEVYKNPQKLPGNQVKCDY-DNPP 120
           ID++++     PD+E  +  +KLP    KCDY D P 
Sbjct: 10  IDDFVDEYEQAPDIEKLEEVEKLP---TKCDYCDEPA 43


>gnl|CDD|225204 COG2322, COG2322, Predicted membrane protein [Function unknown].
          Length = 177

 Score = 27.4 bits (61), Expect = 2.8
 Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 1/39 (2%)

Query: 2   AIIRGIFLFYVIFYSILACL-FAICMYVLMSTLTDEYPK 39
            I +GI+ F +I + ILA +   + +Y L+      Y +
Sbjct: 109 GIYKGIYFFILITHIILAAINVPLALYALILAWKGLYER 147


>gnl|CDD|148567 pfam07019, Rab5ip, Rab5-interacting protein (Rab5ip).  This
          family consists of several Rab5-interacting protein
          (RIP5 or Rab5ip) sequences. The ras-related GTPase rab5
          is rate-limiting for homotypic early endosome fusion.
          Rab5ip represents a novel rab5 interacting protein that
          may function on endocytic vesicles as a receptor for
          rab5-GDP and participate in the activation of rab5.
          Length = 81

 Score = 26.4 bits (59), Expect = 3.2
 Identities = 4/19 (21%), Positives = 9/19 (47%)

Query: 8  FLFYVIFYSILACLFAICM 26
          F+FY +     + L+   +
Sbjct: 29 FIFYFLISLGTSYLYYAKV 47


>gnl|CDD|153108 cd01049, RNRR2, Ribonucleotide Reductase, R2/beta subunit,
           ferritin-like diiron-binding domain.  Ribonucleotide
           Reductase, R2/beta subunit (RNRR2) is a member of a
           broad superfamily of ferritin-like diiron-carboxylate
           proteins. The RNR protein catalyzes the conversion of
           ribonucleotides to deoxyribonucleotides and is found in
           all eukaryotes, many prokaryotes, several viruses, and
           few archaea. The catalytically active form of RNR is a
           proposed alpha2-beta2 tetramer. The homodimeric alpha
           subunit (R1) contains the active site and redox active
           cysteines as well as the allosteric binding sites. The
           beta subunit (R2) contains a diiron cluster that, in its
           reduced state, reacts with dioxygen to form a stable
           tyrosyl radical and a diiron(III) cluster. This
           essential tyrosyl radical is proposed to generate a
           thiyl radical, located on a cysteine residue in the R1
           active site that initiates ribonucleotide reduction. The
           beta subunit is composed of 10-13 helices, the 8 longest
           helices form an alpha-helical bundle; some have 2
           addition beta strands. Yeast is unique in that it
           assembles both homodimers and heterodimers of RNRR2. The
           yeast heterodimer, Y2Y4, contains R2 (Y2) and a R2
           homolog (Y4) that lacks the diiron center and is
           proposed to only assist in cofactor assembly, and
           perhaps stabilize R1 (Y1) in its active conformation.
          Length = 288

 Score = 27.6 bits (62), Expect = 3.7
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 5/56 (8%)

Query: 1   MAIIRGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPGLGFR 56
            AI+ GIF     FYS  A +F +     M  L +    +  DES+ G    L  R
Sbjct: 152 FAILEGIF-----FYSGFAAIFWLARRGKMPGLAEIIELISRDESLHGDFACLLIR 202


>gnl|CDD|215807 pfam00230, MIP, Major intrinsic protein.  MIP (Major Intrinsic
           Protein) family proteins exhibit essentially two
           distinct types of channel properties: (1) specific water
           transport by the aquaporins, and (2) small neutral
           solutes transport, such as glycerol by the glycerol
           facilitators.
          Length = 218

 Score = 26.9 bits (60), Expect = 5.3
 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 2/54 (3%)

Query: 2   AIIRGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPGLGF 55
            + R I L   I+Y I   L AIC   L+  +T      +       + PG+  
Sbjct: 74  LVGRRISLLRAIYYIIAQLLGAICGAALLKGVT--NGLQRAGGFANSLAPGVNA 125


>gnl|CDD|215187 PLN02328, PLN02328, lysine-specific histone demethylase 1 homolog.
          Length = 808

 Score = 27.3 bits (60), Expect = 5.9
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 55  FRPMSSDPEAASLIRYKINNTESAS 79
           F P S+DPE+ SL+R K    +  S
Sbjct: 718 FDPRSNDPESLSLLRVKFQGEKPDS 742


>gnl|CDD|200380 TIGR04129, CxxH_BA5709, CxxH/CxxC protein, BA_5709 family.  Members
           of this protein family occur exclusively in the
           Firmicutes, in at least 50 different species. Members
           average about 55 residues in length, and four of the
           five invariant or nearly invariant residues occur in
           motifs CxxH and CxxC. The function is unknown.
          Length = 49

 Score = 24.9 bits (55), Expect = 5.9
 Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 3/42 (7%)

Query: 84  EIDNYLEGNLLFPDLEVYKNPQKLPGNQVKCDYDNPPPQGKI 125
            ID+Y++     PDLE  +  +KL      C+Y + P    +
Sbjct: 11  AIDDYVDEYETAPDLEKLEEVKKLS---TTCEYCSEPAVYLV 49


>gnl|CDD|234493 TIGR04189, surface_SprA, cell surface protein SprA.  SprA is a cell
            surface protein widely distributed in the Bacteroidetes
            lineage. In Flavobacterium johnsoniae, a species that
            shows gliding motility, mutation disrupts gliding.
          Length = 2315

 Score = 27.3 bits (61), Expect = 5.9
 Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 1/41 (2%)

Query: 60   SDPEAASLIRYK-INNTESASMWTKEIDNYLEGNLLFPDLE 99
                 + L RYK  N TE  S    +  NY  GN   PD+E
Sbjct: 1049 DSGPGSILERYKNYNGTEGNSPVAVQGTNYNRGNTTIPDVE 1089


>gnl|CDD|236860 PRK11146, PRK11146, outer membrane-specific lipoprotein transporter
           subunit LolE; Provisional.
          Length = 412

 Score = 26.8 bits (60), Expect = 5.9
 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 4/46 (8%)

Query: 4   IRGIFLFYVIFYSILACLFAICMYVLMS-TLTDEYPKLQLDESIIG 48
           IR IF++Y +   +   L  + + V++S  LT   P ++  E +IG
Sbjct: 313 IRAIFVWYGLLAGLKGSLIGVVIGVVVSLNLT---PIIKGIEKLIG 355


>gnl|CDD|220700 pfam10337, DUF2422, Protein of unknown function (DUF2422).  This is
           a family of proteins conserved in fungi. The function is
           not known. This family is the C-terminal half of some
           member proteins which contain the DUF2421 pfam10334
           domain at their N-terminus.
          Length = 438

 Score = 26.5 bits (59), Expect = 8.2
 Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 1/26 (3%)

Query: 7   IFLFYVIFYSILACLFAICMYVLMST 32
            F F  IF  I A +F      L+ T
Sbjct: 152 KFAFGYIFGIIAANVFL-TYGPLLPT 176


>gnl|CDD|226476 COG3967, DltE, Short-chain dehydrogenase involved in D-alanine
           esterification of lipoteichoic acid and wall teichoic
           acid (D-alanine transfer protein) [Cell envelope
           biogenesis, outer membrane].
          Length = 245

 Score = 26.2 bits (58), Expect = 8.8
 Identities = 10/17 (58%), Positives = 12/17 (70%)

Query: 46  IIGVNPGLGFRPMSSDP 62
           II V+ GL F PM+S P
Sbjct: 134 IINVSSGLAFVPMASTP 150


  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
   0.321    0.141    0.435 

Gapped
Lambda     K      H
   0.267   0.0753    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,842,760
Number of extensions: 798301
Number of successful extensions: 837
Number of sequences better than 10.0: 1
Number of HSP's gapped: 831
Number of HSP's successfully gapped: 29
Length of query: 171
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 81
Effective length of database: 6,945,742
Effective search space: 562605102
Effective search space used: 562605102
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.9 bits)