RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6911
(263 letters)
>gnl|CDD|238066 cd00119, LYZ1, C-type lysozyme (1, 4-beta-N-acetylmuramidase, LYZ)
and alpha-lactalbumin (lactose synthase B protein, LA).
They have a close evolutionary relationship and similar
tertiary structure, however, functionally they are quite
different. Lysozymes have primarily bacteriolytic
function; hydrolysis of peptidoglycan of prokaryotic
cell walls and transglycosylation. LA is a
calcium-binding metalloprotein that is expressed
exclusively in the mammary gland during lactation. LA is
the regulatory subunit of the enzyme lactose synthase.
The association of LA with the catalytic component of
lactose synthase, galactosyltransferase, alters the
acceptor substrate specificity of this
glycosyltransferase, facilitating biosynthesis of
lactose.
Length = 123
Score = 124 bits (314), Expect = 3e-36
Identities = 46/101 (45%), Positives = 64/101 (63%), Gaps = 3/101 (2%)
Query: 156 KTFRPCELAKVLLDNDI-SKDDIATWLCIARYESTFNSSAVGHMSGDGSLDHGIFQINDR 214
K F CELAK L + +A W+C+A +ES FN+ AV + + DGS D+G+FQIN +
Sbjct: 1 KIFTRCELAKELKRLGLYPGISLANWVCLAEHESGFNTQAVNN-NNDGSTDYGLFQINSK 59
Query: 215 YWCTDADDDI-KACGITCKALEDDDLTDDIACARRIYRQHK 254
YWC D C I+C L DDD+TDDI CA++I ++H+
Sbjct: 60 YWCNDGKTPSGNICHISCSKLLDDDITDDIKCAKKIVKEHQ 100
Score = 67.3 bits (165), Expect = 2e-14
Identities = 21/45 (46%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 57 INDRYWCTDADDDI-KACGITCKALEDDDLTDDIACARRIYRQHK 100
IN +YWC D C I+C L DDD+TDDI CA++I ++H+
Sbjct: 56 INSKYWCNDGKTPSGNICHISCSKLLDDDITDDIKCAKKIVKEHQ 100
>gnl|CDD|197612 smart00263, LYZ1, Alpha-lactalbumin / lysozyme C.
Length = 127
Score = 110 bits (277), Expect = 1e-30
Identities = 43/103 (41%), Positives = 61/103 (59%), Gaps = 6/103 (5%)
Query: 156 KTFRPCELAKVLLDNDIS---KDDIATWLCIARYESTFNSSAVGHMSGDGSLDHGIFQIN 212
K F CELA+ L + +A W+C+A +ES +N+ A + +G S D+GIFQIN
Sbjct: 1 KVFTRCELARELKRLGLDGYRGISLANWVCLAFHESGYNTQATNYNNGG-STDYGIFQIN 59
Query: 213 DRYWCTDADDD--IKACGITCKALEDDDLTDDIACARRIYRQH 253
+YWC D + ACGI+C L DDD+TDD+ CA++I
Sbjct: 60 SKYWCNDGKTPGSVNACGISCSKLLDDDITDDVKCAKKIVSDQ 102
Score = 64.2 bits (157), Expect = 5e-13
Identities = 21/45 (46%), Positives = 28/45 (62%), Gaps = 2/45 (4%)
Query: 57 INDRYWCTDADDD--IKACGITCKALEDDDLTDDIACARRIYRQH 99
IN +YWC D + ACGI+C L DDD+TDD+ CA++I
Sbjct: 58 INSKYWCNDGKTPGSVNACGISCSKLLDDDITDDVKCAKKIVSDQ 102
>gnl|CDD|200968 pfam00062, Lys, C-type lysozyme/alpha-lactalbumin family.
Alpha-lactalbumin is the regulatory subunit of lactose
synthase, changing the substrate specificity of
galactosyltransferase from N-acetylglucosamine to
glucose. C-type lysozymes are secreted bacteriolytic
enzymes that cleave the peptidoglycan of bacterial cell
walls. Structure is a multi-domain, mixed alpha and beta
fold, containing four conserved disulfide bonds.
Length = 125
Score = 102 bits (255), Expect = 2e-27
Identities = 45/101 (44%), Positives = 62/101 (61%), Gaps = 6/101 (5%)
Query: 156 KTFRPCELAKVLLDNDISK---DDIATWLCIARYESTFNSSAVGHMSGDGSLDHGIFQIN 212
K F CELA+ L + +A W+C+A +ES +N+ A + + +GS D+GIFQIN
Sbjct: 1 KVFTRCELARELKRLGMDGYRGISLANWVCLAFHESGYNTQATNN-NNNGSTDYGIFQIN 59
Query: 213 DRYWCTDA--DDDIKACGITCKALEDDDLTDDIACARRIYR 251
+YWC D ACGI+C L DDD+TDDI CA++I R
Sbjct: 60 SKYWCNDGKTPGSKNACGISCSKLLDDDITDDIMCAKKILR 100
Score = 58.9 bits (143), Expect = 3e-11
Identities = 23/43 (53%), Positives = 28/43 (65%), Gaps = 2/43 (4%)
Query: 57 INDRYWCTDA--DDDIKACGITCKALEDDDLTDDIACARRIYR 97
IN +YWC D ACGI+C L DDD+TDDI CA++I R
Sbjct: 58 INSKYWCNDGKTPGSKNACGISCSKLLDDDITDDIMCAKKILR 100
>gnl|CDD|185228 PRK15328, PRK15328, invasion protein IagB; Provisional.
Length = 160
Score = 32.5 bits (74), Expect = 0.12
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 183 IARYESTFNSSAVGHMSGDGSLDHGIFQIN 212
IA+ ES A+GH + DGS D G+ QIN
Sbjct: 39 IAQQESAMKPGAIGH-NRDGSTDLGLMQIN 67
>gnl|CDD|238157 cd00254, LT_GEWL, Lytic Transglycosylase (LT) and Goose Egg White
Lysozyme (GEWL) domain. Members include the soluble and
insoluble membrane-bound LTs in bacteria, the LTs in
bacteriophage lambda, as well as, the eukaryotic
"goose-type" lysozymes (GEWL). LTs catalyze the
cleavage of the beta-1,4-glycosidic bond between
N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine
(GlcNAc), as do "goose-type" lysozymes. However, in
addition to this, they also make a new glycosidic bond
with the C6 hydroxyl group of the same muramic acid
residue.
Length = 113
Score = 31.6 bits (72), Expect = 0.14
Identities = 24/83 (28%), Positives = 31/83 (37%), Gaps = 21/83 (25%)
Query: 183 IARYESTFNSSAVGHMSGDGSLDHGIFQINDRYWCTDADDDIKACGITCKALEDDDLTDD 242
I R ES FN +AV SG G++ G+ Q D DDL D
Sbjct: 7 IIRQESGFNPNAVN--SGAGAV--GLMQFMPSTARAYGVDGGD---------GADDLFD- 52
Query: 243 IAC------ARRIYRQHKRQGGN 259
AR + +KR GG+
Sbjct: 53 -PEDNIRAGARYLKELYKRFGGD 74
>gnl|CDD|189996 pfam01464, SLT, Transglycosylase SLT domain. This family is
distantly related to pfam00062. Members are found in
phages, type II, type III and type IV secretion systems.
Length = 117
Score = 30.0 bits (68), Expect = 0.46
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 178 ATWLCIARYESTFNSSAVGHMSGDGSLDHGIFQINDR 214
+ IA+ ES FN +A+ GS G+ QI
Sbjct: 15 SLLAAIAQQESGFNPNAIS-----GSGALGLMQIMPS 46
>gnl|CDD|216129 pfam00803, 3A, 3A/RNA2 movement protein family. This family
includes movement proteins from various viruses. The 3A
protein is found in bromoviruses and Cucumoviruses. The
genome of these viruses contain 3 RNA segments. The
third segment (RNA 3) contains two proteins, the coat
protein and the 3A protein. The function of the 3A
protein is uncertain but has been shown to be involved
in cell-to- cell movement of the virus. The family also
includes movement proteins from Dianthoviruses.
Length = 234
Score = 30.0 bits (68), Expect = 1.0
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 27 KLSSKGFLHIEGFLTHVVPTAPANVP 52
L S G++ I L VVPT P + P
Sbjct: 69 SLPSNGYMSISRVLVFVVPTVPDDAP 94
>gnl|CDD|112322 pfam03498, CDtoxinA, Cytolethal distending toxin A/C family.
Length = 149
Score = 29.0 bits (65), Expect = 1.6
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 18/72 (25%)
Query: 104 GNGKI-------SNLVQISQLNKYSTNGQYKPKPLPKKMIKSIAILFCVTNSFFSLARCK 156
GNG I +L + L +T G + IKS++ C+T +F S
Sbjct: 69 GNGVIHLKACDDDDLATLFSLIP-TTTGAVQ--------IKSLSSGLCITANFNSTTFAF 119
Query: 157 TFR--PCELAKV 166
T C+LA
Sbjct: 120 TITLEKCDLATT 131
>gnl|CDD|188459 TIGR03944, dehyd_SbnB_fam, 2,3-diaminopropionate biosynthesis
protein SbnB. Members of this protein family are
probable NAD-dependent dehydrogenases related to the
alanine dehydrogenase of Archaeoglobus fulgidus (see
TIGR02371, PDB structure 1OMO and PMID:15313611) and
more distantly to ornithine cyclodeaminase. Members
include the staphylobactin biosynthesis protein SbnB and
tend to occur in contexts suggesting non-ribosomal
peptide synthesis, always adjacent to (occasionally
fused with) a pyridoxal phosphate-dependent enzyme,
SbnA. The pair appears to provide 2,3-diaminopropionate
for biosynthesis of siderophores or other secondary
metabolites [Cellular processes, Biosynthesis of natural
products].
Length = 327
Score = 28.0 bits (63), Expect = 4.7
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 87 DDIACARRIYRQHKRQG 103
D+A AR +Y Q + G
Sbjct: 303 LDLAVARWVYEQAQAAG 319
Score = 28.0 bits (63), Expect = 4.7
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 241 DDIACARRIYRQHKRQG 257
D+A AR +Y Q + G
Sbjct: 303 LDLAVARWVYEQAQAAG 319
>gnl|CDD|218609 pfam05497, Destabilase, Destabilase. Destabilase is an
endo-epsilon(gamma-Glu)-Lys isopeptidase, which cleaves
isopeptide bonds formed by transglutaminase (Factor
XIIIa) between glutamine gamma-carboxamide and the
epsilon-amino group of lysine.
Length = 116
Score = 27.0 bits (60), Expect = 5.1
Identities = 19/81 (23%), Positives = 27/81 (33%), Gaps = 12/81 (14%)
Query: 182 CIARYESTFNSSAVGHMSGDGSLDHGIFQINDRYW--CTDADDDIKACGITCKALEDDDL 239
CI ES + M GSL G F+I YW D + C
Sbjct: 8 CICEAESG-CAPIGCRM-DVGSLSCGYFRIKWAYWIDAGKPGDSPEGAYENC-------- 57
Query: 240 TDDIACARRIYRQHKRQGGNG 260
+D CA + + ++ G
Sbjct: 58 ANDPDCAATCVQNYMKRYGTD 78
>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 = 27.2 bits (61), Expect = 7.1
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 94 RIYRQHKRQGGNGKISNLVQISQLNKY 120
R+ ++ G N K++NL++ + +Y
Sbjct: 61 RLLIGGEKVGINPKVNNLIKGYEEARY 87
>gnl|CDD|116688 pfam08083, PROCN, PROCN (NUC071) domain. The PROCN domain is the
central domain in pre-mRNA splicing factors of PRO8
family.
Length = 408
Score = 27.4 bits (61), Expect = 8.5
Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 1/55 (1%)
Query: 88 DIACARRIYRQHKRQGGNGKISNLVQISQLNKYSTNGQYKPKPLPKKMIKSIAIL 142
DI ++ Y +H +G K+ Q L Y N + KP +K + L
Sbjct: 31 DIPLVKKWYLEHPPKGYPVKVRVSYQ-KLLKNYVLNELHSKKPKNRKKRNLLKSL 84
>gnl|CDD|240767 cd12321, RRM1_TDP43, RNA recognition motif 1 in TAR DNA-binding
protein 43 (TDP-43) and similar proteins. This
subfamily corresponds to the RRM1 of TDP-43 (also
termed TARDBP), a ubiquitously expressed pathogenic
protein whose normal function and abnormal aggregation
are directly linked to the genetic disease cystic
fibrosis, and two neurodegenerative disorders:
frontotemporal lobar degeneration (FTLD) and
amyotrophic lateral sclerosis (ALS). TDP-43 binds both
DNA and RNA, and has been implicated in transcriptional
repression, pre-mRNA splicing and translational
regulation. TDP-43 is a dimeric protein with two RNA
recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains),
and a C-terminal glycine-rich domain. The RRMs are
responsible for DNA and RNA binding; they bind to TAR
DNA and RNA sequences with UG-repeats. The glycine-rich
domain can interact with the hnRNP family proteins to
form the hnRNP-rich complex involved in splicing
inhibition. It is also essential for the cystic
fibrosis transmembrane conductance regulator (CFTR)
exon 9-skipping activity. .
Length = 77
Score = 25.8 bits (57), Expect = 8.5
Identities = 14/45 (31%), Positives = 16/45 (35%), Gaps = 4/45 (8%)
Query: 19 CVVKKRVLKLSSKGFLHIEGFLTHVVPTAPANVPEMNHINDRYWC 63
VKK SKGF GF+ V H+ D WC
Sbjct: 29 VQVKKDPKTGQSKGF----GFVRFADYEDQVKVLSQRHMIDGRWC 69
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 0.138 0.435
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,347,788
Number of extensions: 1241952
Number of successful extensions: 916
Number of sequences better than 10.0: 1
Number of HSP's gapped: 899
Number of HSP's successfully gapped: 20
Length of query: 263
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 168
Effective length of database: 6,723,972
Effective search space: 1129627296
Effective search space used: 1129627296
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: 58 (26.1 bits)