RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17341
         (232 letters)



>gnl|CDD|149835 pfam08897, DUF1841, Domain of unknown function (DUF1841).  This
           family of proteins are functionally uncharacterized.
          Length = 137

 Score = 30.7 bits (70), Expect = 0.26
 Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 13/48 (27%)

Query: 153 RQFFDEKWSKNRN--------VTYMDWSTQHPELLLASYHRNKEAPNE 192
           R+FF + W K +             D   +HPE     YH   E P  
Sbjct: 7   RRFFCDAWRKYQAGEPLTPLETIAADVILEHPE-----YHALLEDPEA 49


>gnl|CDD|217351 pfam03070, TENA_THI-4, TENA/THI-4/PQQC family.  Members of this
           family are found in all the three major phyla of life:
           archaebacteria, eubacteria, and eukaryotes. In Bacillus
           subtilis, TENA is one of a number of proteins that
           enhance the expression of extracellular enzymes, such as
           alkaline protease, neutral protease and levansucrase.
           The THI-4 protein, which is involved in thiamine
           biosynthesis, is also a member of this family. The
           C-terminal part of these proteins consistently show
           significant sequence similarity to TENA proteins. This
           similarity was first noted with the Neurospora crassa
           THI-4. This family includes bacterial coenzyme PQQ
           synthesis protein C or PQQC proteins. Pyrroloquinoline
           quinone (PQQ) is the prosthetic group of several
           bacterial enzymes,including methanol dehydrogenase of
           methylotrophs and the glucose dehydrogenase of a number
           of bacteria. PQQC has been found to be required in the
           synthesis of PQQ but its function is unclear. The exact
           molecular function of members of this family is
           uncertain.
          Length = 210

 Score = 30.0 bits (68), Expect = 0.70
 Identities = 12/35 (34%), Positives = 17/35 (48%)

Query: 66  EKLKITLSEEFQHFVARTGRVMERLLAEKSDMYKD 100
           E +    SEEF+  V    R++  LLA  SD   +
Sbjct: 153 EWIDDYGSEEFRSAVEEAERLLNHLLAYVSDSELE 187


>gnl|CDD|235218 PRK04081, PRK04081, hypothetical protein; Provisional.
          Length = 207

 Score = 29.7 bits (67), Expect = 1.1
 Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 12/86 (13%)

Query: 12 SMLSSLGVAPVADVMSSLSSVSANGTPESNNTPDTSILNSYHSAAYLVVELSEDEKLKIT 71
          +++  LG      VM  L    +N   + N   ++S+  S    A++++E   D   KI 
Sbjct: 11 AIVGGLGAL----VMVGLVGCGSNS--DQNQKENSSLQASQQQGAFVIIEEQADGSYKIL 64

Query: 72 LSEEF----QHFVARTGRVMERLLAE 93
            EE+       V R     ER+L++
Sbjct: 65 --EEYPSSETRVVLRDLDGTERVLSQ 88


>gnl|CDD|227918 COG5631, COG5631, Predicted transcription regulator, contains HTH
          domain (MarR family) [Transcription].
          Length = 199

 Score = 29.6 bits (66), Expect = 1.1
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 12 SMLSSLGVAPVADVMSSLSSVSANGTPESNNTPDTSILNSYHSAAYLVVELSEDEKLKIT 71
          S ++S G   V    +       N   +S  TP   I++S H A  L  ++SE E   + 
Sbjct: 2  SKINSCGRNHVDQREAMAGDRQMNERRKSLETP-GEIVSSAHLARTLSPDVSEVEYALMR 60

Query: 72 LSEEFQHFVAR 82
            E F  +  R
Sbjct: 61 AYEAFGRWQVR 71


>gnl|CDD|240725 cd12279, RRM_TUT1, RNA recognition motif in speckle targeted
          PIP5K1A-regulated poly(A) polymerase (Star-PAP) and
          similar proteins.  This subfamily corresponds to the
          RRM of Star-PAP, also termed RNA-binding motif protein
          21 (RBM21), which is a ubiquitously expressed U6
          snRNA-specific terminal uridylyltransferase (U6-TUTase)
          essential for cell proliferation. Although it belongs
          to the well-characterized poly(A) polymerase protein
          superfamily, Star-PAP is highly divergent from both,
          the poly(A) polymerase (PAP) and the terminal uridylyl
          transferase (TUTase), identified within the editing
          complexes of trypanosomes. Star-PAP predominantly
          localizes at nuclear speckles and catalyzes
          RNA-modifying nucleotidyl transferase reactions. It
          functions in mRNA biosynthesis and may be regulated by
          phosphoinositides. It binds to glutathione
          S-transferase (GST)-PIPKIalpha. Star-PAP preferentially
          uses ATP as a nucleotide substrate and possesses PAP
          activity that is stimulated by PtdIns4,5P2. It contains
          an N-terminal C2H2-type zinc finger motif followed by
          an RNA recognition motif (RRM), also termed RBD (RNA
          binding domain) or RNP (ribonucleoprotein domain), a
          split PAP domain linked by a proline-rich region, a PAP
          catalytic and core domain, a PAP-associated domain, an
          RS repeat, and a nuclear localization signal (NLS). .
          Length = 74

 Score = 27.4 bits (61), Expect = 2.0
 Identities = 10/35 (28%), Positives = 12/35 (34%)

Query: 55 AAYLVVELSEDEKLKITLSEEFQHFVARTGRVMER 89
            Y +VE    E +   LSE          RV  R
Sbjct: 39 GVYAIVEFDSKEGVDKVLSEPQHTLNGHRLRVRPR 73


>gnl|CDD|178195 PLN02583, PLN02583, cinnamoyl-CoA reductase.
          Length = 297

 Score = 28.5 bits (64), Expect = 3.0
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 130 WSKNQQMAPKDGDEKSSTKLSFCRQF 155
           W  +     KD DE+S +  +FCR+F
Sbjct: 134 WRDDNISTQKDVDERSWSDQNFCRKF 159


>gnl|CDD|182134 PRK09897, PRK09897, hypothetical protein; Provisional.
          Length = 534

 Score = 28.6 bits (64), Expect = 3.4
 Identities = 7/25 (28%), Positives = 11/25 (44%)

Query: 165 NVTYMDWSTQHPELLLASYHRNKEA 189
             TY++W  +  +  L  Y   KE 
Sbjct: 66  YCTYLEWLQKQEDSHLQRYGVKKET 90


>gnl|CDD|184966 PRK15004, PRK15004, alpha-ribazole phosphatase; Provisional.
          Length = 199

 Score = 27.7 bits (62), Expect = 4.1
 Identities = 9/22 (40%), Positives = 11/22 (50%)

Query: 74  EEFQHFVARTGRVMERLLAEKS 95
           E FQ F  R  R + RL A + 
Sbjct: 119 EGFQAFSQRVERFIARLSAFQH 140


>gnl|CDD|220458 pfam09890, DUF2117, Uncharacterized protein conserved in archaea
           (DUF2117).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 209

 Score = 27.6 bits (62), Expect = 4.2
 Identities = 9/19 (47%), Positives = 10/19 (52%)

Query: 188 EAPNEPDGVCLIWNTKFKK 206
           E P E DG  + WN K K 
Sbjct: 37  ERPGESDGTIIPWNRKAKT 55


>gnl|CDD|239275 cd02977, ArsC_family, Arsenate Reductase (ArsC) family; composed of
           TRX-fold arsenic reductases and similar proteins
           including the transcriptional regulator, Spx. ArsC
           catalyzes the reduction of arsenate [As(V)] to arsenite
           [As(III)], using reducing equivalents derived from
           glutathione (GSH) via glutaredoxin (GRX), through a
           single catalytic cysteine. This family of predominantly
           bacterial enzymes is unrelated to two other families of
           arsenate reductases which show similarity to
           low-molecular-weight acid phosphatases and
           phosphotyrosyl phosphatases. Spx is a general regulator
           that exerts negative and positive control over
           transcription initiation by binding to the C-terminal
           domain of the alpha subunit of RNA polymerase.
          Length = 105

 Score = 26.7 bits (60), Expect = 4.6
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 7/63 (11%)

Query: 53  HSAAYLVVELSEDEKLKITLS-EEFQHFVARTGRVMERLLAEKSDMYKDYMGLGDADEIG 111
           H   Y  ++  ++       + EE +  +A+ G  +E L   +   Y+  +GL D DE+ 
Sbjct: 22  HGIEYEFIDYLKE-----PPTKEELKELLAKLGLGVEDLFNTRGTPYRK-LGLADKDELS 75

Query: 112 DEK 114
           DE+
Sbjct: 76  DEE 78


>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit.
           Archaeal ATP synthase shares extensive sequence
           similarity with eukaryotic and prokaryotic V-type
           (H+)-ATPases [Energy metabolism, ATP-proton motive force
           interconversion].
          Length = 458

 Score = 27.8 bits (62), Expect = 5.3
 Identities = 25/101 (24%), Positives = 41/101 (40%), Gaps = 13/101 (12%)

Query: 10  LDSMLSSLGVAPVADVMSSLSSVSANGTPESNNTPDTSILNSYHSAAY-----------L 58
           L   L   G+ P  +V+ SLS +  +G  E     D   ++    AAY           +
Sbjct: 326 LSRELHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHKDVSDQLYAAYAEGRDLRGLVAI 385

Query: 59  VVE--LSEDEKLKITLSEEFQHFVARTGRVMERLLAEKSDM 97
           V E  LSE ++  +  ++ F+    R G    R + E  D+
Sbjct: 386 VGEEALSERDRKYLKFADLFERKFVRQGFNENRSIEETLDI 426


>gnl|CDD|227061 COG4717, COG4717, Uncharacterized conserved protein [Function
           unknown].
          Length = 984

 Score = 27.5 bits (61), Expect = 7.2
 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 58  LVVELSEDEKLKITLSEEFQHF-VARTGRVMERLLAEKSDMYK 99
           L+ E+   E L     + F HF   R  R++E LLA+ S+  +
Sbjct: 918 LIHEVRTREPLPFIADDIFVHFDDERAKRMLE-LLADLSEGNQ 959


>gnl|CDD|217443 pfam03234, CDC37_N, Cdc37 N terminal kinase binding.  Cdc37 is a
           molecular chaperone required for the activity of
           numerous eukaryotic protein kinases. This domain
           corresponds to the N terminal domain which binds
           predominantly to protein kinases and is found N terminal
           to the Hsp (Heat shocked protein) 90-binding domain
           pfam08565. Expression of a construct consisting of only
           the N-terminal domain of Saccharomyces pombe Cdc37
           results in cellular viability. This indicates that
           interactions with the cochaperone Hsp90 may not be
           essential for Cdc37 function.
          Length = 172

 Score = 26.7 bits (59), Expect = 7.4
 Identities = 21/92 (22%), Positives = 39/92 (42%)

Query: 8   KELDSMLSSLGVAPVADVMSSLSSVSANGTPESNNTPDTSILNSYHSAAYLVVELSEDEK 67
           + +D +LS L    +    + + S++ N T + N  P+    N      +  V+   DEK
Sbjct: 63  ERVDKLLSELKEESLDSSQAVMKSLNENFTDKENVEPEQPTYNEMVEDLFDQVKDEVDEK 122

Query: 68  LKITLSEEFQHFVARTGRVMERLLAEKSDMYK 99
               L EE Q    +  +  + LL +  ++ K
Sbjct: 123 NGAALIEELQKHRDKLKKEQKELLKKLDELEK 154


>gnl|CDD|188875 cd09769, Luminal_IRE1, The Luminal domain, a dimerization domain,
           of the Serine/Threonine protein kinase,
           Inositol-requiring protein 1.  The Luminal domain is a
           dimerization domain present in Inositol-requiring
           protein 1 (IRE1), a serine/threonine protein kinase
           (STK) and a type I transmembrane protein that is
           localized in the endoplasmic reticulum (ER). IRE1, also
           called Endoplasmic reticulum (ER)-to-nucleus signaling
           protein (or ERN), is a kinase receptor that also
           contains an endoribonuclease domain in the cytoplasmic
           side. It plays roles in the signaling of the unfolded
           protein response (UPR), which is activated when protein
           misfolding is detected in the ER in order to decrease
           the synthesis of new proteins and increase the capacity
           of the ER to cope with the stress. IRE1 acts as an ER
           stress sensor and is the oldest and most conserved
           component of the UPR in eukaryotes. During ER stress,
           IRE1 dimerizes through its luminal domain and forms
           oligomers, allowing the kinase domain to undergo
           trans-autophosphorylation. This leads to a
           conformational change that stimulates its
           endoribonuclease activity and results in the cleavage of
           its mRNA substrate, HAC1 in yeast and Xbp1 in metazoans,
           promoting a splicing event that enables translation into
           a transcription factor which activates the UPR. Mammals
           contain two IRE1 proteins, IRE1alpha (or ERN1) and
           IRE1beta (or ERN2). IRE1alpha is expressed in all cells
           and tissues while IRE1beta is found only in intestinal
           epithelial cells.
          Length = 295

 Score = 26.9 bits (60), Expect = 9.1
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 165 NVTYMDWSTQHPELLLASYHRN 186
           NVTY D++    +  L S +  
Sbjct: 166 NVTYSDYTPNSNDRDLQSQYSK 187


  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
   0.316    0.130    0.387 

Gapped
Lambda     K      H
   0.267   0.0792    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,419,651
Number of extensions: 1014055
Number of successful extensions: 825
Number of sequences better than 10.0: 1
Number of HSP's gapped: 824
Number of HSP's successfully gapped: 18
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
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 (21.6 bits)
S2: 57 (25.6 bits)