RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7569
(71 letters)
>gnl|CDD|219727 pfam08145, BOP1NT, BOP1NT (NUC169) domain. This N terminal
domain is found in BOP1-like WD40 proteins.
Length = 259
Score = 73.0 bits (180), Expect = 1e-17
Identities = 25/38 (65%), Positives = 29/38 (76%)
Query: 30 YDDLPHLGYDWSGKKIMKPEQSDQLDDFLSKMENPNFW 67
YDD PH+GYD GKKIMKP D LDDFL K+++PN W
Sbjct: 1 YDDYPHIGYDIDGKKIMKPATGDALDDFLDKIDDPNAW 38
>gnl|CDD|214986 smart01035, BOP1NT, BOP1NT (NUC169) domain. This N terminal
domain is found in BOP1-like WD40 proteins.
Length = 264
Score = 70.0 bits (172), Expect = 2e-16
Identities = 24/38 (63%), Positives = 29/38 (76%)
Query: 30 YDDLPHLGYDWSGKKIMKPEQSDQLDDFLSKMENPNFW 67
YDD PH+GYD GKKIMKP + D LD FL +++PNFW
Sbjct: 1 YDDYPHIGYDIDGKKIMKPAKGDALDKFLDSIDDPNFW 38
>gnl|CDD|143591 cd07567, biotinidase_like, biotinidase and vanins (class 4
nitrilases). These secondary amidases participate in
vitamin recycling. Biotinidase (EC 3.5.1.12) has both a
hydrolase and a transferase activity. It hydrolyzes free
biocytin or small biotinyl-peptides produced during the
proteolytic degradation of biotin-dependent
carboxylases, to release free biotin (vitamin H), and it
can transfer biotin to acceptor molecules such as
histones. Biotinidase deficiency in humans is an
autosomal recessive disorder characterized by
neurological and cutaneous symptoms. This subgroup
includes the three human vanins, vanin1-3. Vanins are
ectoenzymes, Vanin-1, and -2 are membrane associated,
vanin-3 is secreted. They are pantotheinases (EC
3.5.1.92, pantetheine hydrolase), which convert
pantetheine, to pantothenic acid (vitamin B5) and
cysteamine (2-aminoethanethiol, a potent anti-oxidant).
They are potential targets for therapeutic intervention
in inflammatory disorders. Vanin-1 deficient mice
lacking free cysteamine are less susceptible to
intestinal inflammation, and expression of vanin-1 and
-3 is induced as part of the inflammatory-regenerative
differentiation program of human epidermis. This
subgroup belongs to a larger nitrilase superfamily
comprised of nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13), this subgroup corresponds to
class 4. Members of this superfamily generally form
homomeric complexes, the basic building block of which
is a homodimer.
Length = 299
Score = 29.5 bits (67), Expect = 0.087
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 11 QLVKSEDIRNTVGNIPMNWYDDLPHL 36
+LVK + + V P W+ +LP L
Sbjct: 191 ELVKKLGVDDIV--FPTAWFSELPFL 214
>gnl|CDD|100091 cd03089, PMM_PGM, The phosphomannomutase/phosphoglucomutase
(PMM/PGM) bifunctional enzyme catalyzes the reversible
conversion of 1-phospho to 6-phospho-sugars (e.g.
between mannose-1-phosphate and mannose-6-phosphate or
glucose-1-phosphate and glucose-6-phosphate) via a
bisphosphorylated sugar intermediate. The reaction
involves two phosphoryl transfers, with an intervening
180 degree reorientation of the reaction intermediate
during catalysis. Reorientation of the intermediate
occurs without dissociation from the active site of the
enzyme and is thus, a simple example of processivity, as
defined by multiple rounds of catalysis without release
of substrate. Glucose-6-phosphate and
glucose-1-phosphate are known to be utilized for energy
metabolism and cell surface construction, respectively.
PMM/PGM belongs to the alpha-D-phosphohexomutase
superfamily which includes several related enzymes that
catalyze a reversible intramolecular phosphoryl transfer
on their sugar substrates. Other members of this
superfamily include phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the
phosphoglucomutases (PGM1 and PGM2). Each of these
enzymes has four domains with a centrally located active
site formed by four loops, one from each domain. All
four domains are included in this alignment model.
Length = 443
Score = 25.6 bits (57), Expect = 2.1
Identities = 6/36 (16%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 35 HLGYDWSGKKIMKPEQS---DQLDDFLSKMENPNFW 67
H +++G KI+ + + + E +F
Sbjct: 97 HNPPEYNGFKIVIGGGPLSGEDIQALRERAEKGDFA 132
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 25.3 bits (55), Expect = 2.6
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 43 KKIMKPEQSDQLDDFLSKMENPNFWIQAP 71
K+I K +Q L K++NP+F AP
Sbjct: 849 KEIGKVDQ--DLAVLERKLQNPSFVQNAP 875
>gnl|CDD|213890 TIGR04070, photo_TT_lyase, spore photoproduct lyase. DNA damage to
bacterial spores from ultraviolet light accumulates in
the form of 5-thyminyl-5,6-dihydrothymine, spore
photoproduct. The damage is repaired by spore
photoproduct lyase, a member of the radical SAM family
of enzymes. The score of this model is set to restrict
itself to spore-forming members of the Firmicutes, but
additional homologs scoring below the trusted cutoff
tend to occur in radioresistant organisms (e.g.
Kineococcus radiotolerans) and may be functionally
equivalent. A related family in the Mycobacterium
lineage is described by family TIGR03886, and may or may
not be equivalent in function [DNA metabolism, DNA
replication, recombination, and repair, Cellular
processes, Sporulation and germination].
Length = 338
Score = 25.0 bits (55), Expect = 4.0
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 3/30 (10%)
Query: 37 GYDWSGKKIMKPEQSDQLDDFLSKMENPNF 66
GY GK + E D++ +F N F
Sbjct: 303 GY---GKYVYPKEDLDEMKEFFRGNINEYF 329
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 24.5 bits (54), Expect = 5.8
Identities = 5/26 (19%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 43 KKIMKPEQ-SDQLDDFLSKMENPNFW 67
+ ++ + ++L++ ++ E+P+FW
Sbjct: 20 RGVLDVDALKERLEELEAEAEDPDFW 45
>gnl|CDD|235018 PRK02256, PRK02256, putative aminopeptidase 1; Provisional.
Length = 462
Score = 24.0 bits (53), Expect = 8.1
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 31 DDLPHLGYDWSGKKIMK 47
D LPHL D KK +
Sbjct: 172 DLLPHLAKDQMEKKASE 188
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
0.317 0.136 0.432
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,629,896
Number of extensions: 263762
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 10
Length of query: 71
Length of database: 10,937,602
Length adjustment: 41
Effective length of query: 30
Effective length of database: 9,119,088
Effective search space: 273572640
Effective search space used: 273572640
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: 53 (24.2 bits)