RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3260
(100 letters)
>gnl|CDD|217007 pfam02383, Syja_N, SacI homology domain. This Pfam family
represents a protein domain which shows homology to the
yeast protein SacI. The SacI homology domain is most
notably found at the amino terminal of the inositol
5'-phosphatase synaptojanin.
Length = 298
Score = 153 bits (389), Expect = 8e-48
Identities = 51/100 (51%), Positives = 68/100 (68%), Gaps = 3/100 (3%)
Query: 2 LHIHLLRFSIDPSPWLLKIMCGSIEIRTVYVGH--RQARAVIISRLSCERAGTRFNVRGV 59
L L+ F D S WLL ++ G +E RT+ V ++ +ISR S +RAGTR+N RG+
Sbjct: 113 LLKPLIDFRSDLSDWLLPLIQGFVEQRTISVNGEGKKVTLTLISRRSRKRAGTRYNRRGI 172
Query: 60 NDDGHVANFVETEQVLFLDDE-VTSYVQTRGSVPLFWEQP 98
+DDG+VANFVETEQ++ D + S+VQ RGSVPLFWEQ
Sbjct: 173 DDDGNVANFVETEQIVSDDSGRIFSFVQIRGSVPLFWEQD 212
>gnl|CDD|227637 COG5329, COG5329, Phosphoinositide polyphosphatase (Sac family)
[Signal transduction mechanisms].
Length = 570
Score = 109 bits (274), Expect = 2e-29
Identities = 39/82 (47%), Positives = 54/82 (65%)
Query: 16 WLLKIMCGSIEIRTVYVGHRQARAVIISRLSCERAGTRFNVRGVNDDGHVANFVETEQVL 75
+L ++ G E + VG +ISR S ERAGTR+ RG++DDG+V+NFVETEQ++
Sbjct: 192 FLTTVIRGFAETVDIKVGGNTISLTLISRRSSERAGTRYLSRGIDDDGNVSNFVETEQIV 251
Query: 76 FLDDEVTSYVQTRGSVPLFWEQ 97
+ S+ Q RGS+PLFWEQ
Sbjct: 252 TDSQYIFSFTQVRGSIPLFWEQ 273
>gnl|CDD|177369 PHA02528, 43, DNA polymerase; Provisional.
Length = 881
Score = 28.9 bits (65), Expect = 0.40
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 45 LSCERAGTRFNVRGVNDDG-HVANFVETEQVLFLD 78
S E+ G R ++D+G + V+ E LF+
Sbjct: 6 TSVEQVGDNILERYIDDNGKERSRKVKYEPTLFVH 40
>gnl|CDD|205156 pfam12945, YcgR_2, Flagellar protein YcgR. This domain is found
N terminal to pfam07238. Proteins which contain YcgR
domains are known to interact with the flagellar
switch-complex proteins FliG and FliM. This interaction
results in a reduction of torque generation and induces
CCW motor bias. This family contains members not
captured by pfam07317.
Length = 87
Score = 25.3 bits (56), Expect = 3.5
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 28 RTVYVGHRQARAVIIS------RLSCERAGTRFNVRGVNDDGHVANF 68
++ +G R +IIS R R GT VR V+DDG V F
Sbjct: 21 KSRLIGIDPDRYLIISLPVDDGRTLPLREGTEVIVRFVSDDGAVYAF 67
>gnl|CDD|239072 cd02257, Peptidase_C19, Peptidase C19 contains ubiquitinyl
hydrolases. They are intracellular peptidases that
remove ubiquitin molecules from polyubiquinated peptides
by cleavage of isopeptide bonds. They hydrolyse bonds
involving the carboxyl group of the C-terminal Gly
residue of ubiquitin The purpose of the
de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 255
Score = 25.9 bits (57), Expect = 4.0
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 2 LHIHLLRFSIDPSPWLLKIMC 22
L IHL RFS + K+
Sbjct: 143 LIIHLKRFSFNEDGTKEKLNT 163
>gnl|CDD|118392 pfam09862, DUF2089, Protein of unknown function (DUF2089). This
domain, found in various hypothetical prokaryotic
proteins, has no known function. This domain is a
zinc-ribbon.
Length = 113
Score = 25.3 bits (56), Expect = 4.1
Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 38 RAVIISRLSCERAGTRFNVRGVNDDGHVANFVETEQVLFLDDEVTSYVQTRGSV 91
+ ++RL C + GT + G + EQ+ F++ +++ RG++
Sbjct: 6 EELTVTRLECSKCGT--TIEGRFTLCKFC-RLTPEQLEFVE----LFIKCRGNI 52
>gnl|CDD|234824 PRK00725, glgC, glucose-1-phosphate adenylyltransferase;
Provisional.
Length = 425
Score = 25.6 bits (57), Expect = 4.9
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 52 TRFNVRGVNDDGHVANFVE 70
+ F V V+++ + FVE
Sbjct: 172 SAFGVMAVDENDRITAFVE 190
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and repair].
Length = 226
Score = 25.6 bits (57), Expect = 5.0
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 43 SRLSCERAGTRFNVRGVNDDGHVANFVETEQV--LFLDDEVTSYVQTRGS 90
+RL+ G F + ++D+ +A L L DEV Y+ GS
Sbjct: 146 TRLA---WGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGS 192
>gnl|CDD|240964 cd12520, RRM1_MRN1, RNA recognition motif 1 of RNA-binding
protein MRN1 and similar proteins. This subgroup
corresponds to the RRM1 of MRN1, also termed multicopy
suppressor of RSC-NHP6 synthetic lethality protein 1,
or post-transcriptional regulator of 69 kDa,which is a
RNA-binding protein found in yeast. Although its
specific biological role remains unclear, MRN1 might be
involved in translational regulation. Members in this
family contain four copies of conserved RNA recognition
motif (RRM), also known as RBD (RNA binding domain) or
RNP (ribonucleoprotein domain). .
Length = 74
Score = 24.3 bits (53), Expect = 6.5
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 28 RTVYVGHRQARAVIISRLSCERAGTRFNVR 57
RTVY+G+ + LS R+G NVR
Sbjct: 2 RTVYLGNLPPNTTVKELLSHVRSGPIENVR 31
>gnl|CDD|234353 TIGR03788, marine_srt_targ, marine proteobacterial sortase target
protein. Members of this protein family are restricted
to the Proteobacteria. Each contains a C-terminal
sortase-recognition motif, transmembrane domain, and
basic residues cluster at the the C-terminus, and is
encoded adjacent to a sortase gene. This protein is
frequently the only sortase target in its genome, which
is as unusual its occurrence in Gram-negative rather
than Gram-positive genomes. Many bacteria with this
system are marine. In addition to the LPXTG signal,
members carry a vault protein inter-alpha-trypsin
inhibitor domain (pfam08487) and a von Willebrand factor
type A domain (pfam00092).
Length = 596
Score = 25.4 bits (56), Expect = 6.8
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 35 RQARAVIISRLSCERAGTRFNVRGVNDDGH 64
QA++ ++ L R G RFN+ + D
Sbjct: 290 EQAKSALLLALDQLRPGDRFNIIQFDSDVT 319
>gnl|CDD|233308 TIGR01198, pgl, 6-phosphogluconolactonase. This enzyme of the
pentose phosphate pathway is often found as a part of a
multifunctional protein with [Energy metabolism, Pentose
phosphate pathway].
Length = 233
Score = 25.0 bits (55), Expect = 8.2
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 58 GVNDDGHVAN-FVETEQVLFLDDEVT 82
G+ DGH A+ F T + + VT
Sbjct: 133 GMGPDGHTASLFPHTPALQETERLVT 158
>gnl|CDD|199879 cd02847, E_set_Chitobiase_C, C-terminal Early set domain
associated with the catalytic domain of chitobiase
(also called N-acetylglucosaminidase). E or "early"
set domains are associated with the catalytic domain of
chitobiase at the C-terminus. Chitobiase digests the
beta, 1-4 glycosidic bonds of the N-acetylglucosamine
(NAG) oligomers found in chitin, an important
structural element of fungal cell wall and arthropod
exoskeletons. It is thought to proceed through an
acid-base reaction mechanism, in which one protein
carboxylate acts as the catalytic acid, while the
nucleophile is the polar acetamido group of the sugar
in a substrate-assisted reaction with retention of the
anomeric configuration. The C-terminus of chitobiase
may be related to the immunoglobulin and/or fibronectin
type III superfamilies. E set domains are associated
with different types of catalytic domains at either the
N-terminal or C-terminal end and may be involved in
homodimeric/tetrameric/dodecameric interactions.
Members of this family include members of the alpha
amylase family, sialidase, galactose oxidase,
cellulase, cellulose, hyaluronate lyase, chitobiase,
and chitinase, among others.
Length = 62
Score = 23.7 bits (52), Expect = 9.5
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 7 LRFSIDPSPWLL----KIMC-GSIEIRTVYVGHRQARAVII 42
+ +S+D W + G +++R G R++R V +
Sbjct: 22 IEYSLDGGEWQTYSAGPVAVSGKVKLRAFSAGGRKSRVVTV 62
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
0.326 0.141 0.439
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,192,336
Number of extensions: 427874
Number of successful extensions: 414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 412
Number of HSP's successfully gapped: 18
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
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 (21.7 bits)
S2: 53 (24.1 bits)