RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12737
(60 letters)
>gnl|CDD|193251 pfam12775, AAA_7, P-loop containing dynein motor region D3. the
380 kDa motor unit of dynein belongs to the AAA class of
chaperone-like ATPases. The core of the 380 kDa motor
unit contains a concatenated chain of six AAA modules,
of which four correspond to the ATP binding sites with
P-loop signatures described previously, and two are
modules in which the P loop has been lost in evolution.
This particular family is the D3 and is an ATP binding
site.
Length = 272
Score = 51.1 bits (122), Expect = 1e-09
Identities = 22/47 (46%), Positives = 31/47 (65%)
Query: 14 VNFSSRTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILFIDDLNMPQ 60
V F+ TTS +Q +E +EK+ +GPP KKL+ FIDD+NMP+
Sbjct: 67 VPFNYYTTSAMLQAVLEKPLEKKAGRNYGPPGTKKLVYFIDDMNMPE 113
>gnl|CDD|234297 TIGR03656, IsdC, heme uptake protein IsdC. Isd proteins are
iron-regulated surface proteins found in Bacillus,
Staphylococcus and Listeria species and are responsible
for heme scavenging from hemoproteins. The IsdC protein
consists of an N-terminal hydrophobic signal sequence, a
central NEAT (NEAr Transporter, pfam05031) domain which
confers the ability to bind heme and a C-terminal SrtB
processing signal which targets the protein to the cell
wall. IsdC is believed to make a direct contact with,
and transfer heme to, the heme-binding component (IsdE)
of an ABC transporter in the cytoplasmic membrane, and
to receive heme from other NEAT-containing heme-binding
proteins also localized in the cell wall.
Length = 217
Score = 28.3 bits (63), Expect = 0.14
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 10 VQLLVNFSSRTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILF-IDDLNMP 59
VQ+ VN S T V+ N +VV K DK+ + F + DL+ P
Sbjct: 70 VQITVNHSHWITGFKVEGNGVNVVSKNEA------ADKRTVEFPVSDLSGP 114
>gnl|CDD|234307 TIGR03676, aRF1/eRF1, peptide chain release factor 1, archaeal
and eukaryotic forms. Directs the termination of
nascent peptide synthesis (translation) in response to
the termination codons UAA, UAG and UGA. This model
identifies both archaeal (aRF1) and eukaryotic (eRF1)
of the protein. Also known as translation termination
factor 1 [Protein synthesis, Translation factors].
Length = 357
Score = 27.6 bits (62), Expect = 0.33
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 15 NFSSRTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILF 52
N S+ T +VQ IES+++ R K + PP+ L+LF
Sbjct: 49 NIKSKQTRKNVQSAIESIMQ-RLKL-YKKPPENGLVLF 84
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 26.9 bits (59), Expect = 0.62
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 14 VNFSSRTTSMDVQRNIESVVEKRTKD---VFGPPPD-KKLILFIDDLNMP 59
NFS+ T + +E E P P K L+LF D++N+P
Sbjct: 1526 FNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFCDEINLP 1575
>gnl|CDD|235198 PRK04011, PRK04011, peptide chain release factor 1; Provisional.
Length = 411
Score = 26.4 bits (59), Expect = 0.79
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 15 NFSSRTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILF 52
N S+TT +VQ +ES+++ R K + PP+ L++F
Sbjct: 56 NIKSKTTRKNVQSALESIIQ-RLKL-YKKPPENGLVIF 91
>gnl|CDD|132794 cd06884, PX_PI3K_C2_68D, The phosphoinositide binding Phox
Homology Domain of Class II Phosphoinositide 3-Kinases
similar to the Drosophila PI3K_68D protein. The PX
domain is a phosphoinositide (PI) binding module
present in many proteins with diverse functions. The
Phosphoinositide 3-Kinase (PI3K) family of enzymes
catalyzes the phosphorylation of the 3-hydroxyl group
of the inositol ring of phosphatidylinositol. PI3Ks
play an important role in a variety of fundamental
cellular processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, immune cell
activation and apoptosis. PI3Ks are divided into three
main classes (I, II, and III) based on their substrate
specificity, regulation, and domain structure. Class II
PI3Ks preferentially use PI as a substrate to produce
PI3P, but can also phosphorylate PI4P to produce
PI(3,4)P2. They function as monomers and do not
associate with any regulatory subunits. Class II
enzymes contain an N-terminal Ras binding domain, a
lipid binding C2 domain, a PI3K homology domain of
unknown function, an ATP-binding cataytic domain, a PX
domain, and a second C2 domain at the C-terminus.
PI3K_68D is a novel PI3K which is widely expressed
throughout the Drosophila life cycle. In vitro, it has
been shown to phosphorylate PI and PI4P. It is involved
in signaling pathways that affect pattern formation of
Drosophila wings.
Length = 111
Score = 25.8 bits (57), Expect = 0.89
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 13 LVNFSSRTTSMDVQR-NIESVVEKRTKDV 40
L +T V R NI+SV EKR +D+
Sbjct: 56 LAKLHPLSTGSHVGRSNIKSVAEKRKQDI 84
>gnl|CDD|99994 cd03825, GT1_wcfI_like, This family is most closely related to the
GT1 family of glycosyltransferases. wcfI in Bacteroides
fragilis has been shown to be involved in the capsular
polysaccharide biosynthesis.
Length = 365
Score = 26.1 bits (58), Expect = 0.96
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 38 KDVFGPPPDKKLILF 52
+ G P DKK+ILF
Sbjct: 182 RKRLGLPADKKIILF 196
>gnl|CDD|214868 smart00865, Tubulin_C, Tubulin/FtsZ family, C-terminal domain.
This domain is found in the tubulin alpha, beta and
gamma chains, as well as the bacterial FtsZ family of
proteins. These proteins are GTPases and are involved
in polymer formation. Tubulin is the major component of
microtubules, while FtsZ is the polymer-forming protein
of bacterial cell division, it is part of a ring in the
middle of the dividing cell that is required for
constriction of cell membrane and cell envelope to
yield two daughter cells. FtsZ can polymerise into
tubes, sheets, and rings in vitro and is ubiquitous in
bacteria and archaea. This is the C-terminal domain.
Length = 120
Score = 24.4 bits (54), Expect = 3.5
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 8 GAVQLLVNFS--SRTTSMDVQRNIESVVEKRTKDVF---GPPPDKKL 49
GA +LVN + T +V +E + EK D F GP D++L
Sbjct: 51 GAKGVLVNITGGPDLTLKEVNEAMERIREKADPDAFIIWGPVIDEEL 97
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 24.5 bits (54), Expect = 3.6
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 3/44 (6%)
Query: 13 LVNFSSRTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILFIDDL 56
L N ++RT + + + VV D++L+ +
Sbjct: 389 LGNLANRTLGF-INKYFDGVVPAAGAPD--LEEDEELLALAREA 429
>gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit
TAF6 (also component of histone acetyltransferase SAGA)
[Transcription].
Length = 450
Score = 24.2 bits (52), Expect = 5.9
Identities = 11/39 (28%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 19 RTTSMDVQRNIESVVEKRTKDVFGPPPDKKLILFIDDLN 57
R +MD++ I+ V ++ +K + K+ +L IDD++
Sbjct: 29 RALAMDLEYRIKEVCQEASKFMVH---SKRTVLTIDDIS 64
>gnl|CDD|150445 pfam09774, Cid2, Caffeine-induced death protein 2. Members of this
family of proteins mediate the disruption of the DNA
replication checkpoint (S-M checkpoint) mechanism caused
by caffeine.
Length = 149
Score = 23.9 bits (52), Expect = 6.1
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 26 QRNIESVVEKRTKDVF 41
+R++E ++ RT V
Sbjct: 122 ERSVEQIIRDRTWKVL 137
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
0.322 0.137 0.396
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,941,403
Number of extensions: 195096
Number of successful extensions: 173
Number of sequences better than 10.0: 1
Number of HSP's gapped: 173
Number of HSP's successfully gapped: 11
Length of query: 60
Length of database: 10,937,602
Length adjustment: 31
Effective length of query: 29
Effective length of database: 9,562,628
Effective search space: 277316212
Effective search space used: 277316212
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 (21.9 bits)
S2: 53 (24.0 bits)