RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8628
         (75 letters)



>gnl|CDD|216231 pfam00995, Sec1, Sec1 family. 
          Length = 554

 Score = 79.2 bits (196), Expect = 3e-19
 Identities = 25/60 (41%), Positives = 35/60 (58%)

Query: 11  HKDRAQQQVKNVPRLIVFIIGGVSFSEIRCAYEVTNNVKNWEVIIGSSHIMTPEDFLNNL 70
               A Q  +   R+IVF++GGV++SE R  YE++       VIIGS+ I+ PE FL  L
Sbjct: 495 RPTAAGQGRQPPQRIIVFVVGGVTYSEARALYELSKKTNGKRVIIGSTSILNPESFLEEL 554


>gnl|CDD|227487 COG5158, SEC1, Proteins involved in synaptic transmission and
           general secretion, Sec1 family [Intracellular
           trafficking and secretion].
          Length = 582

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 20/51 (39%), Positives = 35/51 (68%)

Query: 24  RLIVFIIGGVSFSEIRCAYEVTNNVKNWEVIIGSSHIMTPEDFLNNLSNLS 74
           R++VF+IGGV++ E+R  YE+  +  +  +I GS+ I+TP +FL+ +  L 
Sbjct: 528 RILVFVIGGVTYEELRVLYELNESQNSVRIIYGSTEILTPAEFLDEVKRLG 578


>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated.
          Length = 822

 Score = 28.4 bits (64), Expect = 0.28
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 7/53 (13%)

Query: 21 NVPRLIVFIIGGVSFSEIRCA----YEVTNNVKNWEVIIGSSHIMT---PEDF 66
          N  R I  I+ G    + R      YE     + W VI  S HI+T   PE++
Sbjct: 10 NAARRIADILSGGKAKKKRVNGVPYYEFERKGEKWIVIGLSGHIVTVDFPEEY 62


>gnl|CDD|153357 cd07673, F-BAR_FCHO2, The F-BAR (FES-CIP4 Homology and
           Bin/Amphiphysin/Rvs) domain of FCH domain Only 2
           protein.  F-BAR domains are dimerization modules that
           bind and bend membranes and are found in proteins
           involved in membrane dynamics and actin reorganization.
           The specific function of FCH domain Only 2 (FCHO2) is
           still unknown. It contains an N-terminal F-BAR domain
           and a C-terminal domain of unknown function named SAFF
           which is also present in FCHO1 and endophilin
           interacting protein 1. F-BAR domains form banana-shaped
           dimers with a positively-charged concave surface that
           binds to negatively-charged lipid membranes. They can
           induce membrane deformation in the form of long tubules.
          Length = 269

 Score = 25.0 bits (54), Expect = 3.8
 Identities = 12/31 (38%), Positives = 20/31 (64%), Gaps = 4/31 (12%)

Query: 45  TNNVKNWEVIIGSSHIMTPEDFLNNLSNLSV 75
           +N+VK   + IG  H    E+F+NN++N +V
Sbjct: 217 SNSVKEIHIQIGQVH----EEFINNMANTTV 243


>gnl|CDD|133129 cd06598, GH31_transferase_CtsZ, CtsZ (cyclic
           tetrasaccharide-synthesizing enzyme Z) is a bacterial
           6-alpha-glucosyltransferase, first identified in
           Arthrobacter globiformis, that produces cyclic
           tetrasaccharides together with a closely related enzyme
           CtsY.  CtsZ and CtsY both have a glycosyl hydrolase
           family 31 (GH31) catalytic domain.  All GH31 enzymes
           cleave a terminal carbohydrate moiety from a substrate
           that varies considerably in size, depending on the
           enzyme, and may be either a starch or a glycoprotein.
          Length = 317

 Score = 24.3 bits (53), Expect = 7.8
 Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 1/25 (4%)

Query: 7   YGH-WHKDRAQQQVKNVPRLIVFII 30
           YGH W K   +   +N P    FI+
Sbjct: 186 YGHLWAKSIYEGYQQNYPNERPFIL 210


>gnl|CDD|233368 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase.  This
           model describes dihydrolipoamide dehydrogenase, a
           flavoprotein that acts in a number of ways. It is the E3
           component of dehydrogenase complexes for pyruvate,
           2-oxoglutarate, 2-oxoisovalerate, and acetoin. It can
           also serve as the L protein of the glycine cleavage
           system. This family includes a few members known to have
           distinct functions (ferric leghemoglobin reductase and
           NADH:ferredoxin oxidoreductase) but that may be
           predicted by homology to act as dihydrolipoamide
           dehydrogenase as well. The motif GGXCXXXGCXP near the
           N-terminus contains a redox-active disulfide.
          Length = 460

 Score = 24.1 bits (53), Expect = 8.4
 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 12/53 (22%)

Query: 18  QVKNVPRLIVFIIGGVSFSEIRCAY-----EVTNNVKNWEVIIGSSHIMTPED 65
            ++ VP  +V I GGV   E    +     +VT       VI     I+  ED
Sbjct: 165 NLEEVPESLVIIGGGVIGVEFASIFASLGSKVT-------VIEMLDRILPGED 210


>gnl|CDD|234949 PRK01388, PRK01388, arginine deiminase; Provisional.
          Length = 406

 Score = 24.0 bits (53), Expect = 8.5
 Identities = 7/16 (43%), Positives = 10/16 (62%)

Query: 24  RLIVFIIGGVSFSEIR 39
            L   +IGGV+ SE+ 
Sbjct: 116 ELAEKLIGGVAKSELP 131


  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    0.136    0.423 

Gapped
Lambda     K      H
   0.267   0.0579    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,891,054
Number of extensions: 294643
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 11
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
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: 41 (22.0 bits)
S2: 53 (24.5 bits)