RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8538
(64 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 38.6 bits (91), Expect = 5e-06
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 5 EFHYSRYITIRRKAELANSLGLSERQVR 32
EF +RY + + ELA LGL+ERQV+
Sbjct: 18 EFEKNRYPSAEEREELAKKLGLTERQVK 45
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved
in the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 37.2 bits (87), Expect = 2e-05
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 5 EFHYSRYITIRRKAELANSLGLSERQVR 32
EF + Y + + ELA LGL+ERQV+
Sbjct: 18 EFEKNPYPSREEREELAKELGLTERQVK 45
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 36.8 bits (86), Expect = 3e-05
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 5 EFHYSRYITIRRKAELANSLGLSERQVR 32
EF + Y + + ELA LGLSERQV+
Sbjct: 19 EFQKNPYPSREEREELAKKLGLSERQVK 46
>gnl|CDD|237515 PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol
dehydrogenase; Provisional.
Length = 862
Score = 27.8 bits (63), Expect = 0.26
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 7 HYSRYITIRRKAELANSLGL 26
Y R AE+A LGL
Sbjct: 767 QYEYPRADERYAEIARHLGL 786
>gnl|CDD|201481 pfam00870, P53, P53 DNA-binding domain. This family contains one
anomalous member, viz: Zea mays (Q6JAD8). This sequence
is identical to human P53 and would appear to be a a
human contaminant within the Zea mays sampling effort.
Length = 196
Score = 27.1 bits (60), Expect = 0.42
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 32 RCPHHQLTTVNNNTAIIVSFLEKVHGDGR 60
RCPHH+ ++ +N S L +V G+
Sbjct: 81 RCPHHERSSEHNEGLAPPSHLIRVEGNQL 109
>gnl|CDD|226234 COG3711, BglG, Transcriptional antiterminator [Transcription].
Length = 491
Score = 27.0 bits (60), Expect = 0.59
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 4 LEFHYSRYITIRRKAELANSLGLSERQVR 32
L + +TI ELA LG+S R +R
Sbjct: 12 LLLLKNPLLTI---KELAEQLGVSRRTIR 37
>gnl|CDD|132580 TIGR03541, reg_near_HchA, LuxR family transcriptional regulatory,
chaperone HchA-associated. Members of this protein
family belong to the LuxR transcriptional regulator
family, and contain both autoinducer binding (pfam03472)
and transcriptional regulator (pfam00196) domains.
Members, however, occur only in a few members of the
Gammaproteobacteria that have the
chaperone/aminopeptidase HchA, and are always encoded by
the adjacent gene.
Length = 232
Score = 25.9 bits (57), Expect = 1.3
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 15 RRKAELANSLGLSERQV 31
RR+A++A LG+SER V
Sbjct: 187 RRQADIAAILGISERTV 203
>gnl|CDD|239609 cd03535, Rieske_RO_Alpha_NDO, Rieske non-heme iron oxygenase (RO)
family, Nathphalene 1,2-dioxygenase (NDO) subfamily,
N-terminal Rieske domain of the oxygenase alpha
subunit; ROs comprise a large class of aromatic
ring-hydroxylating dioxygenases that enable
microorganisms to tolerate and utilize aromatic
compounds for growth. The oxygenase alpha subunit
contains an N-terminal Rieske domain with an [2Fe-2S]
cluster and a C-terminal catalytic domain with a
mononuclear Fe(II) binding site. The Rieske [2Fe-2S]
cluster accepts electrons from a reductase or
ferredoxin component and transfers them to the
mononuclear iron for catalysis. NDO is a
three-component RO system consisting of a reductase, a
ferredoxin, and a hetero-hexameric alpha-beta subunit
oxygenase component. NDO catalyzes the oxidation of
naphthalene to
cis-(1R,2S)-dihydroxy-1,2-dihydronaphthalene
(naphthalene cis-dihydrodiol) with the consumption of
O2 and NAD(P)H. NDO has a relaxed substrate specificity
and can oxidize almost 100 substrates. Included in its
varied activities are the enantiospecific
cis-dihydroxylation of polycyclic aromatic hydrocarbons
and benzocycloalkenes, benzylic hydroxylation, N- and
O-dealkylation, sulfoxidation and desaturation
reactions.
Length = 123
Score = 25.5 bits (56), Expect = 1.5
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 17 KAELANSLGLSERQVRCPHHQLTTVNNNTAIIVSFLEKVHGDGRNSSR 64
+AE+ N RCP+H T N + V ++ +G G + S+
Sbjct: 54 RAEMGN-----TSHFRCPYHGWTYRNTGRLVGVPAQQEAYGGGFDKSQ 96
>gnl|CDD|215554 PLN03060, PLN03060, inositol phosphatase-like protein; Provisional.
Length = 206
Score = 25.7 bits (56), Expect = 1.5
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 14/41 (34%)
Query: 5 EFHYSRYITI-------RRKA-------ELANSLGLSERQV 31
+FHYSR+ I KA +L+ +L +S+R V
Sbjct: 134 KFHYSRFFAIGLFRLLECAKASDPAVLEKLSKALNVSKRSV 174
>gnl|CDD|146934 pfam04539, Sigma70_r3, Sigma-70 region 3. Region 3 forms a
discrete compact three helical domain within the
sigma-factor. Region is not normally involved in the
recognition of promoter DNA, but as some specific
bacterial promoters containing an extended -10 promoter
element, residues within region 3 play an important
role. Region 3 primarily is involved in binding the
core RNA polymerase in the holoenzyme.
Length = 78
Score = 24.5 bits (54), Expect = 2.3
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 18 AELANSLGLSERQVR 32
E+A LG+SE +VR
Sbjct: 24 EEIAEELGISEEKVR 38
>gnl|CDD|179455 PRK02645, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 305
Score = 24.5 bits (54), Expect = 3.9
Identities = 12/30 (40%), Positives = 13/30 (43%)
Query: 4 LEFHYSRYITIRRKAELANSLGLSERQVRC 33
LE YS Y T+R K A SL R
Sbjct: 276 LEESYSYYRTLREKLHWAGSLIHYNNNHRN 305
>gnl|CDD|173937 cd08178, AAD_C, C-terminal alcohol dehydrogenase domain of the
acetaldehyde dehydrogenase-alcohol dehydrogenase
bifunctional two-domain protein (AAD). Alcohol
dehydrogenase domain located on the C-terminal of a
bifunctional two-domain protein. The N-terminal of the
protein contains an acetaldehyde-CoA dehydrogenase
domain. This protein is involved in pyruvate metabolism.
Pyruvate is converted to acetyl-CoA and formate by
pyruvate formate-lysase (PFL). Under anaerobic
condition, acetyl-CoA is reduced to acetaldehyde and
ethanol by this two-domain protein. Acetyl-CoA is first
converted into an enzyme-bound thiohemiacetal by the
N-terminal acetaldehyde dehydrogenase domain. The
enzyme-bound thiohemiacetal is subsequently reduced by
the C-terminal NAD+-dependent alcohol dehydrogenase
domain. In E. coli, this protein is called AdhE and was
shown pyruvate formate-lysase (PFL) deactivase activity,
which is involved in the inactivation of PFL, a key
enzyme in anaerobic metabolism. In Escherichia coli and
Entamoeba histolytica, this enzyme forms homopolymeric
peptides composed of more than 20 protomers associated
in a helical rod-like structure.
Length = 398
Score = 24.5 bits (54), Expect = 3.9
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 7 HYSRYITIRRKAELANSLGL 26
Y R AE+A LGL
Sbjct: 306 QYKYPKAKERYAEIARFLGL 325
>gnl|CDD|235369 PRK05231, PRK05231, homoserine kinase; Provisional.
Length = 319
Score = 24.4 bits (54), Expect = 4.6
Identities = 11/38 (28%), Positives = 14/38 (36%), Gaps = 7/38 (18%)
Query: 26 LSERQVRCPH-------HQLTTVNNNTAIIVSFLEKVH 56
L+ R V P L + A IV+FLE
Sbjct: 71 LAARGVPVPAPVARRDGAALGELAGKPAAIVTFLEGKW 108
>gnl|CDD|180963 PRK07405, PRK07405, RNA polymerase sigma factor SigD; Validated.
Length = 317
Score = 23.9 bits (52), Expect = 6.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 18 AELANSLGLSERQVR 32
ELA L L+ +QVR
Sbjct: 188 GELAEELELTPKQVR 202
>gnl|CDD|239100 cd02419, Peptidase_C39C, A sub-family of peptidase family C39.
Peptidase family C39 mostly contains
bacteriocin-processing endopeptidases from bacteria.
The cysteine peptidases in family C39 cleave the
"double-glycine" leader peptides from the precursors of
various bacteriocins (mostly non-lantibiotic). The
cleavage is mediated by the transporter as part of the
secretion process. Bacteriocins are antibiotic proteins
secreted by some species of bacteria that inhibit the
growth of other bacterial species. The bacteriocin is
synthesized as a precursor with an N-terminal leader
peptide, and processing involves removal of the leader
peptide by cleavage at a Gly-Gly bond, followed by
translocation of the mature bacteriocin across the
cytoplasmic membrane. Most endopeptidases of family C39
are N-terminal domains in larger proteins (ABC
transporters) that serve both functions. The proposed
protease active site is conserved in this sub-family.
Length = 127
Score = 23.8 bits (52), Expect = 7.1
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 12 ITIRRKAELANSLGLSERQVRCP 34
T+ ++A LGLS R +R
Sbjct: 44 ATLADLIDIAQQLGLSTRALRLD 66
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
0.320 0.131 0.375
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,070,365
Number of extensions: 206314
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 219
Number of HSP's successfully gapped: 15
Length of query: 64
Length of database: 10,937,602
Length adjustment: 35
Effective length of query: 29
Effective length of database: 9,385,212
Effective search space: 272171148
Effective search space used: 272171148
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.1 bits)