RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16066
         (182 letters)



>gnl|CDD|216479 pfam01399, PCI, PCI domain.  This domain has also been called the
           PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15).
          Length = 100

 Score = 31.4 bits (72), Expect = 0.079
 Identities = 13/64 (20%), Positives = 22/64 (34%), Gaps = 2/64 (3%)

Query: 109 ITEFLEHLYVSFDFESAREKLTECTEVLDNDFFLVACLDEFVENARLMIFETFCRIHQCI 168
             + L   Y S D     E L +  + L  D  L   L++     R +      + +  I
Sbjct: 1   YRDLLRAFY-SGDLSDFEEILADNEDELL-DDGLAELLEDLRRKIRELNLRRLAKPYSSI 58

Query: 169 SIQK 172
           S+  
Sbjct: 59  SLSD 62


>gnl|CDD|233825 TIGR02344, chap_CCT_gamma, T-complex protein 1, gamma subunit.
           Members of this family, all eukaryotic, are part of the
           group II chaperonin complex called CCT (chaperonin
           containing TCP-1) or TRiC. The archaeal equivalent group
           II chaperonin is often called the thermosome. Both are
           somewhat related to the group I chaperonin of bacterial,
           GroEL/GroES. This family consists exclusively of the CCT
           gamma chain (part of a paralogous family) from animals,
           plants, fungi, and other eukaryotes.
          Length = 525

 Score = 28.2 bits (63), Expect = 3.1
 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 27  VIINRSKRNALKDLVKVIQQVSRDLIIDMFLNRPHYLNAIQT 68
            II R+ + AL D + V++++S  + ++   +    L  IQ+
Sbjct: 115 TIIIRAYKKALDDALSVLEEISIPVDVN---DDAAMLKLIQS 153


>gnl|CDD|130335 TIGR01268, Phe4hydrox_tetr, phenylalanine-4-hydroxylase, tetrameric
           form.  This model describes the larger, tetrameric form
           of phenylalanine-4-hydroxylase, as found in metazoans.
           The enzyme irreversibly converts phenylalanine to
           tryosine and is known to be the rate-limiting step in
           phenylalanine catabolism in some systems. It is closely
           related to metazoan tyrosine 3-monooxygenase and
           tryptophan 5-monoxygenase, and more distantly to
           monomeric phenylalanine-4-hydroxylases of some
           Gram-negative bacteria. The member of this family from
           Drosophila has been described as having both
           phenylalanine-4-hydroxylase and tryptophan
           5-monoxygenase activity (PMID:1371286). However, a
           Drosophila member of the tryptophan 5-monoxygenase clade
           has subsequently been discovered.
          Length = 436

 Score = 27.9 bits (62), Expect = 3.6
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 106 KDPITEFLEHLYVSFDFESAREKLTE 131
           K PITEF    +++  FE A+EKL  
Sbjct: 360 KYPITEFQPLYFLAESFEDAKEKLKS 385


>gnl|CDD|218372 pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, domain 4.  RNA
          polymerases catalyze the DNA dependent polymerisation
          of RNA. Prokaryotes contain a single RNA polymerase
          compared to three in eukaryotes (not including
          mitochondrial. and chloroplast polymerases). This
          domain, domain 4, represents the funnel domain. The
          funnel contain the binding site for some elongation
          factors.
          Length = 108

 Score = 26.6 bits (59), Expect = 4.2
 Identities = 8/42 (19%), Positives = 15/42 (35%)

Query: 28 IINRSKRNALKDLVKVIQQVSRDLIIDMFLNRPHYLNAIQTM 69
          I   +     + L+  I   +RD   ++        N+I  M
Sbjct: 13 IWGMTLEETFEALINNILNKARDPAGNIASKSLDPNNSIYMM 54


>gnl|CDD|206047 pfam13876, Phage_gp49_66, Phage protein (N4 Gp49/phage Sf6 gene 66)
           family.  This family of phage proteins is functionally
           uncharacterized. The family includes bacteriophage Sf6
           gene 66, as well as phage N4 GP49 protein. Proteins in
           this family are typically between 87 and 154 amino acids
           in length. There is a conserved NGF sequence motif.
          Length = 79

 Score = 26.0 bits (58), Expect = 4.3
 Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 4/41 (9%)

Query: 111 EFLEHLYVSFDFESARE-KLTECTEVLDNDFFLV---ACLD 147
           E +E L  S ++ +  +  LT C   L N F +    AC+D
Sbjct: 5   EDIESLIASEEYFTVGDGTLTVCVLTLRNGFTVTGESACVD 45


>gnl|CDD|239463 cd03347, eu_PheOH, Eukaryotic phenylalanine-4-hydroxylase
           (eu_PheOH); a member of the biopterin-dependent aromatic
           amino acid hydroxylase family of non-heme,
           iron(II)-dependent enzymes that also includes
           prokaryotic phenylalanine-4-hydroxylase (pro_PheOH),
           eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic
           tryptophan hydroxylase (TrpOH).  PheOH catalyzes the
           first and rate-limiting step in the metabolism of the
           amino acid L-phenylalanine (L-Phe), the hydroxylation of
           L-Phe to L-tyrosine (L-Tyr). It uses
           (6R)-L-erythro-5,6,7,8-tetrahydrobiopterin (BH4) as the
           physiological electron donor. The catalytic activity of
           the tetrameric enzyme is tightly regulated by the
           binding of L-Phe and BH4 as well as by phosphorylation.
           Mutations in the human enzyme are linked to a severe
           variant of phenylketonuria.
          Length = 306

 Score = 27.4 bits (61), Expect = 4.5
 Identities = 14/24 (58%), Positives = 16/24 (66%)

Query: 106 KDPITEFLEHLYVSFDFESAREKL 129
           K PITEF    YV+  FE A+EKL
Sbjct: 258 KYPITEFQPLYYVAESFEDAKEKL 281


>gnl|CDD|178269 PLN02664, PLN02664, enoyl-CoA
          hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase.
          Length = 275

 Score = 27.2 bits (60), Expect = 4.9
 Identities = 8/26 (30%), Positives = 15/26 (57%)

Query: 41 VKVIQQVSRDLIIDMFLNRPHYLNAI 66
          +++IQ+     +  + LNRP   NA+
Sbjct: 7  LEIIQKSPNSSVFHLNLNRPSQRNAL 32


>gnl|CDD|222243 pfam13585, CHU_C, C-terminal domain of CHU protein family.  The
           function of this C-terminal domain is not known; there
           are several conserved tryptophan and asparagine
           residues.
          Length = 86

 Score = 25.5 bits (57), Expect = 7.8
 Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 1/21 (4%)

Query: 138 NDFFLVACLDEFVENARLMIF 158
           ND F +  ++ +  N  L IF
Sbjct: 15  NDTFKIEGIENYPNN-ELSIF 34


  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
   0.329    0.140    0.413 

Gapped
Lambda     K      H
   0.267   0.0626    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,182,885
Number of extensions: 851521
Number of successful extensions: 1032
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1031
Number of HSP's successfully gapped: 34
Length of query: 182
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 91
Effective length of database: 6,901,388
Effective search space: 628026308
Effective search space used: 628026308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 56 (25.6 bits)