RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16911
         (194 letters)



>gnl|CDD|216977 pfam02330, MAM33, Mitochondrial glycoprotein.  This mitochondrial
           matrix protein family contains members of the MAM33
           family which bind to the globular 'heads' of C1Q. It is
           thought to be involved in mitochondrial oxidative
           phosphorylation and in nucleus-mitochondrion
           interactions.
          Length = 202

 Score = 85.0 bits (210), Expect = 1e-20
 Identities = 63/204 (30%), Positives = 91/204 (44%), Gaps = 23/204 (11%)

Query: 8   LSEEIQAEKKIQKS-----KSIPSEIDGFQVKLDGPEVSLEKTVGSEKIEIHFNVNHSVD 62
           LS EI+ EK+ Q S     KS+P      +      EV L + VG EKI + FNVN SV 
Sbjct: 1   LSSEIKEEKEQQLSLDNLNKSLPPMSFDIEDTPGDAEVKLTRKVGGEKIHVTFNVNQSVP 60

Query: 63  ADAEPQIDPNMDEPEIEMKSKPSFEVNFIKGN----KTLGFTCSFIPPESEPSEDGYNDL 118
              + ++D + ++   E  S P+F V     +      L    S      E  ++  +D+
Sbjct: 61  PPYDGEMDESQEQEP-EQTSTPNFVVEVPNNDNGNFPPLVLEISKPGVSIEFEDEAQSDI 119

Query: 119 FSIDEVDTYERENGKTTTIACLEEV-----------LDGPLYDLLMNYLEEKGISNEFVD 167
           FS++EV  Y   +G +   +   E            LD  L DL   YLEE+G+   F  
Sbjct: 120 FSVEEV--YFYPSGDSLNQSAEAEWRDTYYGPSFKNLDPELQDLFHRYLEERGVDATFAK 177

Query: 168 KLSNLSTGYEHASYINLLSEIQKF 191
            L   ST  EH  YI  L +++KF
Sbjct: 178 FLVAYSTAKEHQEYITWLEKVKKF 201


>gnl|CDD|181800 PRK09362, PRK09362, phosphoribosylaminoimidazole-succinocarboxamide
           synthase; Reviewed.
          Length = 238

 Score = 30.8 bits (71), Expect = 0.31
 Identities = 9/20 (45%), Positives = 12/20 (60%)

Query: 151 LLMNYLEEKGISNEFVDKLS 170
            +   LEE GI   F++KLS
Sbjct: 56  FIFKKLEEAGIPTHFIEKLS 75


>gnl|CDD|133470 cd01415, SAICAR_synt_PurC, bacterial and archaeal
           5-aminoimidazole-4-(N-succinylcarboxamide)
           ribonucleotide (SAICAR) synthase.  A subfamily of SAICAR
           synthetases represented by the Thermotoga maritima (Tm)
           enzyme and E. coli PurC. SAICAR synthetase catalyzes the
           seventh step of the de novo biosynthesis of purine
           nucleotides (also reported as eighth step). It converts
           5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP,
           and L-aspartate into
           5-aminoimidazole-4-(N-succinylcarboxamide)
           ribonucleotide (SAICAR), ADP, and phosphate.
          Length = 230

 Score = 30.5 bits (70), Expect = 0.40
 Identities = 11/21 (52%), Positives = 15/21 (71%)

Query: 151 LLMNYLEEKGISNEFVDKLSN 171
           L+  YLEE GI   F++KLS+
Sbjct: 51  LIFKYLEENGIKTHFIEKLSD 71


>gnl|CDD|176553 cd08612, GDPD_GDE4, Glycerophosphodiester phosphodiesterase domain
           of mammalian glycerophosphodiester phosphodiesterase
           GDE4 and similar proteins.  This subfamily corresponds
           to the glycerophosphodiester phosphodiesterase domain
           (GDPD) present in mammalian GDE4 (also known as
           glycerophosphodiester phosphodiesterase
           domain-containing protein 1 (GDPD1)) and similar
           proteins. Mammalian GDE4 is a transmembrane protein
           whose cellular function has not yet been elucidated. It
           is expressed widely, including in placenta, liver,
           kidney, pancreas, spleen, thymus, ovary, small intestine
           and peripheral blood leukocytes. It is also expressed in
           the growth cones in neuroblastoma Neuro2a cells, which
           suggests GDE4 may play some distinct role from other
           members of the GDE family.
          Length = 300

 Score = 29.1 bits (66), Expect = 1.2
 Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 11/70 (15%)

Query: 111 SEDGYNDLFSIDEV-------DTYERENGKTTTIACLEEVLDG-PLYDLLMNYLEEKGIS 162
           S+  Y DL    E          Y    G    I  LEEV +  P  D  +N ++ K  +
Sbjct: 89  SDLNYADLPPYLEKLEVTFSPGDYCVPKGSDRRIPLLEEVFEAFP--DTPIN-IDIKVEN 145

Query: 163 NEFVDKLSNL 172
           +E + K+S+L
Sbjct: 146 DELIKKVSDL 155


>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
          Length = 319

 Score = 28.5 bits (64), Expect = 2.2
 Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)

Query: 132 GKTTTIACLEEVLDGPLYD---LLMNYLEEKGI 161
           GKTT+I  L   L GP Y    L +N  +++GI
Sbjct: 46  GKTTSILALAHELLGPNYKEAVLELNASDDRGI 78


>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
          Length = 437

 Score = 27.6 bits (62), Expect = 4.0
 Identities = 14/51 (27%), Positives = 29/51 (56%), Gaps = 5/51 (9%)

Query: 145 DGPLYDLLMNYLEEKG-----ISNEFVDKLSNLSTGYEHASYINLLSEIQK 190
             P +D + N+LE++G      S E  D++ ++  G  H +YI++ S +++
Sbjct: 140 SNPWFDKVKNFLEKEGARVIVTSPEEHDRIMSVVQGLTHFAYISIASTLKR 190


>gnl|CDD|133065 cd06915, NTP_transferase_WcbM_like, WcbM_like is a subfamily of
           nucleotidyl transferases.  WcbM protein of Burkholderia
           mallei is involved in the biosynthesis, export or
           translocation of capsule. It is a subfamily of
           nucleotidyl transferases that transfer nucleotides onto
           phosphosugars.
          Length = 223

 Score = 27.5 bits (62), Expect = 4.1
 Identities = 14/40 (35%), Positives = 17/40 (42%), Gaps = 6/40 (15%)

Query: 139 CLEEVLDGPLYDLLMNYLEEKGISNEFVDKLSNLSTGYEH 178
            L  V   P  + L+ YL  +GIS   V     LS GY  
Sbjct: 22  PLAPVAGRPFLEYLLEYLARQGIS-RIV-----LSVGYLA 55


>gnl|CDD|133012 cd02520, Glucosylceramide_synthase, Glucosylceramide synthase
           catalyzes the first glycosylation step of
           glycosphingolipid synthesis.
           UDP-glucose:N-acylsphingosine D-glucosyltransferase
           (glucosylceramide synthase or ceramide
           glucosyltransferase) catalyzes the first glycosylation
           step of glycosphingolipid synthesis. Its product,
           glucosylceramide, serves as the core of more than 300
           glycosphingolipids (GSL). GSLs are a group of membrane
           components that have the lipid portion embedded in the
           outer plasma membrane leaflet and the sugar chains
           extended to the outer environment. Several lines of
           evidence suggest the importance of GSLs in various
           cellular processes such as differentiation, adhesion,
           proliferation, and cell-cell recognition. In pathogenic
           fungus Cryptococcus neoformans,  glucosylceramide serves
           as an antigen that elicits an antibody response in
           patients and it is essential for fungal growth in host
           extracellular environment.
          Length = 196

 Score = 26.8 bits (60), Expect = 6.7
 Identities = 8/14 (57%), Positives = 10/14 (71%)

Query: 168 KLSNLSTGYEHASY 181
           K++NL  GYE A Y
Sbjct: 74  KVNNLIKGYEEARY 87


>gnl|CDD|164889 PHA02067, PHA02067, hypothetical protein.
          Length = 221

 Score = 26.6 bits (58), Expect = 7.4
 Identities = 13/65 (20%), Positives = 26/65 (40%)

Query: 126 TYERENGKTTTIACLEEVLDGPLYDLLMNYLEEKGISNEFVDKLSNLSTGYEHASYINLL 185
           TY R +  +  + C  +++D  +         +  +S+EF D          +A+  NLL
Sbjct: 145 TYRRSDAPSWALGCSAKIVDNDVLPKWAAEASKNKLSSEFADVRWKFDVAMFNATLDNLL 204

Query: 186 SEIQK 190
               +
Sbjct: 205 KNTDQ 209


  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
   0.309    0.132    0.362 

Gapped
Lambda     K      H
   0.267   0.0772    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,880,854
Number of extensions: 925520
Number of successful extensions: 737
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 24
Length of query: 194
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 102
Effective length of database: 6,857,034
Effective search space: 699417468
Effective search space used: 699417468
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 56 (25.3 bits)