RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy358
         (176 letters)



>gnl|CDD|150823 pfam10208, Armet, Degradation arginine-rich protein for
           mis-folding.  This is a family of small proteins of
           approximately 170 residues which contain four di-sulfide
           bridges that are highly conserved from nematodes to
           humans. Armet is a soluble protein resident in the
           endoplasmic reticulum and induced by ER stress. It
           appears to be involved with dealing with mis-folded
           proteins in the ER, thus in quality control of ER
           stress.
          Length = 154

 Score =  209 bits (533), Expect = 3e-70
 Identities = 96/148 (64%), Positives = 107/148 (72%), Gaps = 1/148 (0%)

Query: 30  NCEVCVTVVEKFADRLTPE-AKADTKEIEKAFKKWCKGTKGKENRFCYYLGGLEESATGI 88
            CEVCV  + +F   L P   K    +IEK   K+CK TKGKENRFCYYLG L +SAT I
Sbjct: 1   ECEVCVKFLGRFYQSLEPRDVKFSPDKIEKELIKFCKDTKGKENRFCYYLGALSDSATKI 60

Query: 89  LGELSKPLSWGMPATKICEKLKKSDSQICDLRYDKQIDFKTVDLKKLKVRDLKKILNDWE 148
             E+SKPLSW MP  KICEKLKK DSQIC+LRY+KQID  TVDLKKLKV++LKKIL DW 
Sbjct: 61  TNEVSKPLSWHMPVEKICEKLKKKDSQICELRYEKQIDLSTVDLKKLKVKELKKILADWG 120

Query: 149 EECDGCLEKGDFIKRIEELKPKYVREEL 176
           EEC GCLEK DFIK I+EL PKY     
Sbjct: 121 EECRGCLEKSDFIKLIQELMPKYAPSAA 148


>gnl|CDD|236106 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed.
          Length = 466

 Score = 35.4 bits (82), Expect = 0.009
 Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 2/34 (5%)

Query: 30  NCEVCVTVVEKFADRLTPEAKAD-TKEIEKAFKK 62
           N  V VT+VE F DR  P   A+ +KEI K +KK
Sbjct: 193 NYGVDVTIVE-FLDRALPNEDAEVSKEIAKQYKK 225


>gnl|CDD|220472 pfam09924, DUF2156, Uncharacterized conserved protein (DUF2156).
           This domain, found in various hypothetical prokaryotic
           proteins, has no known function.
          Length = 246

 Score = 31.8 bits (73), Expect = 0.14
 Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 11/67 (16%)

Query: 17  GLKNAVNCAVTKENCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCKGTKGKENRFCY 76
            L+NA+N    +E        V    D  +PE   +  EI      W KG KG E  F  
Sbjct: 114 KLRNALN-RFEREGYTF---EVVPPPD--SPELLDELLEISDE---WLKGKKGPEKGFS- 163

Query: 77  YLGGLEE 83
            LG  +E
Sbjct: 164 -LGAFDE 169


>gnl|CDD|173170 PRK14707, PRK14707, hypothetical protein; Provisional.
          Length = 2710

 Score = 29.4 bits (65), Expect = 1.1
 Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 7/69 (10%)

Query: 2   KLSSLPLCCMILVLNGLKNAVNCAVTKENCEVCVTVVEKFADRLT--PEAKAD-----TK 54
           +L+  P  C  L   GL  A+N      +  VC   V   A+RL   PE + D       
Sbjct: 317 RLADDPELCKALNARGLSTALNALSKWPDNPVCAAAVSALAERLVADPELRKDLEPQGVS 376

Query: 55  EIEKAFKKW 63
            +  A  KW
Sbjct: 377 SVLNALSKW 385


>gnl|CDD|234953 PRK01406, gltX, glutamyl-tRNA synthetase; Reviewed.
          Length = 476

 Score = 29.3 bits (67), Expect = 1.1
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 25  AVTKENCEVCVTVVEKFADRLTPEAKADTKEIEKAFKKWCK--GTKGK 70
           A  K   EV   V+E   ++L    +   + IE A K   +  G KG 
Sbjct: 390 AAKKHLKEVAREVLEALLEKLEALEEWTAEAIEAAIKAVAEELGLKGG 437


>gnl|CDD|219897 pfam08549, SWI-SNF_Ssr4, Fungal domain of unknown function
           (DUF1750).  This is a fungal domain of unknown function.
          Length = 669

 Score = 29.2 bits (65), Expect = 1.2
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 37  VVEKFADRLTPEAKADTKEIEK 58
           V ++FADR+  +    T EIEK
Sbjct: 361 VADEFADRVAKKVADMTAEIEK 382


>gnl|CDD|163573 TIGR03861, phenyl_ABC_PedC, alcohol ABC transporter, permease
          protein.  Members of this protein family, part of a
          larger class of efflux-type ABC transport permease
          proteins, are found exclusively in genomic contexts
          with pyrroloquinoline-quinone (PQQ) biosynthesis
          enzymes and/or PQQ-dependent alcohol dehydrogenases,
          such as the phenylethanol dehydrogenase PedE of
          Pseudomonas putida U. Members include PedC, an apparent
          phenylethanol transport protein whose suggested role is
          efflux to limit intracellular concentrations of toxic
          metabolites during phenylethanol catalysis [Transport
          and binding proteins, Carbohydrates, organic alcohols,
          and acids].
          Length = 253

 Score = 28.2 bits (63), Expect = 2.0
 Identities = 9/22 (40%), Positives = 17/22 (77%)

Query: 8  LCCMILVLNGLKNAVNCAVTKE 29
          LCCMIL+ NG++++++    +E
Sbjct: 66 LCCMILLFNGMQSSLSMVYDRE 87


>gnl|CDD|220531 pfam10032, Pho88, Phosphate transport (Pho88).  Members of this
           family of proteins are involved in regulating inorganic
           phosphate transport, as well as telomere length
           regulation and maintenance.
          Length = 192

 Score = 27.7 bits (62), Expect = 2.8
 Identities = 11/29 (37%), Positives = 13/29 (44%)

Query: 41  FADRLTPEAKADTKEIEKAFKKWCKGTKG 69
           +A  +  E K D K IE A K    G K 
Sbjct: 163 WAGGMAGEVKTDKKSIEAAEKAGRGGVKA 191


>gnl|CDD|200472 cd11333, AmyAc_SI_OligoGlu_DGase, Alpha amylase catalytic domain
           found in Sucrose isomerases, oligo-1,6-glucosidase (also
           called isomaltase; sucrase-isomaltase; alpha-limit
           dextrinase), dextran glucosidase (also called glucan
           1,6-alpha-glucosidase), and related proteins.  The
           sucrose isomerases (SIs) Isomaltulose synthase (EC
           5.4.99.11) and Trehalose synthase (EC 5.4.99.16)
           catalyze the isomerization of sucrose and maltose to
           produce isomaltulose and trehalulose, respectively.
           Oligo-1,6-glucosidase (EC 3.2.1.10) hydrolyzes the
           alpha-1,6-glucosidic linkage of
           isomaltooligosaccharides, pannose, and dextran. Unlike
           alpha-1,4-glucosidases (EC 3.2.1.20), it fails to
           hydrolyze the alpha-1,4-glucosidic bonds of
           maltosaccharides. Dextran glucosidase (DGase, EC
           3.2.1.70) hydrolyzes alpha-1,6-glucosidic linkages at
           the non-reducing end of panose, isomaltooligosaccharides
           and dextran to produce alpha-glucose.The common reaction
           chemistry of the alpha-amylase family enzymes is based
           on a two-step acid catalytic mechanism that requires two
           critical carboxylates: one acting as a general acid/base
           (Glu) and the other as a nucleophile (Asp). Both
           hydrolysis and transglycosylation proceed via the
           nucleophilic substitution reaction between the anomeric
           carbon, C1 and a nucleophile. Both enzymes contain the
           three catalytic residues (Asp, Glu and Asp) common to
           the alpha-amylase family as well as two histidine
           residues which are predicted to be critical to binding
           the glucose residue adjacent to the scissile bond in the
           substrates. The Alpha-amylase family comprises the
           largest family of glycoside hydrolases (GH), with the
           majority of enzymes acting on starch, glycogen, and
           related oligo- and polysaccharides. These proteins
           catalyze the transformation of alpha-1,4 and alpha-1,6
           glucosidic linkages with retention of the anomeric
           center. The protein is described as having 3 domains: A,
           B, C. A is a (beta/alpha) 8-barrel; B is a loop between
           the beta 3 strand and alpha 3 helix of A; C is the
           C-terminal extension characterized by a Greek key. The
           majority of the enzymes have an active site cleft found
           between domains A and B where a triad of catalytic
           residues performs catalysis. Other members of this
           family have lost the catalytic activity as in the case
           of the human 4F2hc, or only have 2 residues that serve
           as the catalytic nucleophile and the acid/base, such as
           Thermus A4 beta-galactosidase with 2 Glu residues (GH42)
           and human alpha-galactosidase with 2 Asp residues
           (GH31). The family members are quite extensive and
           include: alpha amylase, maltosyltransferase,
           cyclodextrin glycotransferase, maltogenic amylase,
           neopullulanase, isoamylase, 1,4-alpha-D-glucan
           maltotetrahydrolase, 4-alpha-glucotransferase,
           oligo-1,6-glucosidase, amylosucrase, sucrose
           phosphorylase, and amylomaltase.
          Length = 428

 Score = 27.8 bits (63), Expect = 3.0
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 131 DLKKLKVRDLKKILNDWEEECDG 153
             K   + +LKKIL+ W++   G
Sbjct: 289 KPKPWDLEELKKILSKWQKALQG 311


  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    0.137    0.416 

Gapped
Lambda     K      H
   0.267   0.0709    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,755,770
Number of extensions: 790868
Number of successful extensions: 885
Number of sequences better than 10.0: 1
Number of HSP's gapped: 882
Number of HSP's successfully gapped: 31
Length of query: 176
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 86
Effective length of database: 6,945,742
Effective search space: 597333812
Effective search space used: 597333812
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 (21.7 bits)
S2: 56 (25.4 bits)