RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9269
(148 letters)
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 52.4 bits (126), Expect = 1e-08
Identities = 27/124 (21%), Positives = 40/124 (32%), Gaps = 15/124 (12%)
Query: 3 YEKLVEGREPVESSLHRHLVEHLNSEIVLKTISDVSVAVEWLRSTFFFVRVLSNPGHYGF 62
Y + + E + E N L + V AV WL T F+ R NP YG
Sbjct: 413 YLAELYIQSEPEPIESKLGDEL-NLRTFLLGVISVGDAVSWLELTDFYERTFYNPQTYGE 471
Query: 63 PAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDGFDILPTVTGSIMAKFCIGFNT 122
+ + L E NGL L + T G ++++ I +
Sbjct: 472 ----GMLREE-----ILASLRYLEENGL---ILDADWEALH--ATELGKLVSRLYIDPES 517
Query: 123 MVAF 126
F
Sbjct: 518 AKIF 521
>gnl|CDD|153075 cd00330, phosphagen_kinases, Phosphagen (guanidino) kinases.
Phosphagen (guanidino) kinases are enzymes that
transphosphorylate a high energy phosphoguanidino
compound, like phosphocreatine (PCr) in the case of
creatine kinase (CK) or phosphoarginine in the case of
arginine kinase, which is used as an energy-storage and
-transport metabolite, to ADP, thereby creating ATP. The
substrate binding site is located in the cleft between
the N and C-terminal domains, but most of the catalytic
residues are found in the larger C-terminal domain. In
higher eukaryotes, CK exists in tissue-specific (muscle,
brain), as well as compartment-specific (mitochondrial
and cytosolic) isoforms. They are either coupled to
glycolysis (cytosolic form) or oxidative phosphorylation
(mitochondrial form). Besides CK and AK, the most
studied members of this family are also other phosphagen
kinases with different substrate specificities, like
glycocyamine kinase (GK), lombricine kinase (LK),
taurocyamine kinase (TK) and hypotaurocyamine kinase
(HTK). The majority of bacterial phosphagen kinases
appear to lack the N-terminal domain and have not been
functionally characterized.
Length = 236
Score = 29.9 bits (67), Expect = 0.42
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 51 VRVLSNPGHYGFPAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMND 100
VR+ + FP S+EE S Q L +E+ + +Y L+ M D
Sbjct: 6 VRLGRSFEGIRFPPRYSNEEASSIEQQFEDQLSSQEIPLIGKYYLLRMMD 55
>gnl|CDD|133029 cd04186, GT_2_like_c, Subfamily of Glycosyltransferase Family GT2
of unknown function. GT-2 includes diverse families of
glycosyltransferases with a common GT-A type structural
fold, which has two tightly associated beta/alpha/beta
domains that tend to form a continuous central sheet of
at least eight beta-strands. These are enzymes that
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. Glycosyltransferases have been
classified into more than 90 distinct sequence based
families.
Length = 166
Score = 28.3 bits (64), Expect = 1.1
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 41 VEWLRSTFFFVRVLSNPGHYGFPAG 65
VE LR F VR++ N + GF AG
Sbjct: 41 VELLRELFPEVRLIRNGENLGFGAG 65
>gnl|CDD|238266 cd00477, FTHFS, Formyltetrahydrofolate synthetase (FTHFS) catalyzes
the ATP-dependent activation of formate ion via its
addition to the N10 position of tetrahydrofolate. FTHFS
is a highly expressed key enzyme in both the
Wood-Ljungdahl pathway of autotrophic CO2 fixation
(acetogenesis) and the glycine synthase/reductase
pathways of purinolysis. The key physiological role of
this enzyme in acetogens is to catalyze the formylation
of tetrahydrofolate, an initial step in the reduction of
carbon dioxide and other one-carbon precursors to
acetate. In purinolytic organisms, the enzymatic
reaction is reversed, liberating formate from
10-formyltetrahydrofolate with concurrent production of
ATP.
Length = 524
Score = 28.3 bits (64), Expect = 1.5
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 96 ITMNDGFDILPTVTGSIMAKFCI 118
+ GFDI TV IMA C+
Sbjct: 172 VPRETGFDI--TVASEIMAILCL 192
>gnl|CDD|130586 TIGR01523, ATPase-IID_K-Na, potassium and/or sodium efflux P-type
ATPase, fungal-type. Initially described as a calcium
efflux ATPase , more recent work has shown that the S.
pombe CTA3 gene is in fact a potassium ion efflux pump.
This model describes the clade of fungal P-type ATPases
responsible for potassium and sodium efflux. The degree
to which these pumps show preference for sodium or
potassium varies. This group of ATPases has been
classified by phylogentic analysis as type IID. The
Leishmania sequence (GP|3192903), which falls between
trusted and noise in this model, may very well turn out
to be an active potassium pump.
Length = 1053
Score = 28.4 bits (63), Expect = 1.6
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 16/98 (16%)
Query: 63 PAGLSSEELQSRLQ--GKNS----------GLCMRE-LNGLSRYNLITMNDGFDILPTVT 109
P GL+ +E Q RL+ G+N + + + N + +I F + +
Sbjct: 24 PEGLTHDEAQHRLKEVGENRLEADSGIDAKAMLLHQVCNAMCMVLIIAAAISFAMHDWIE 83
Query: 110 GSIMAKFCIGFNTMVAFTGWEKAQKDLALLTTL--PLA 145
G +++ I N ++ F KA+K + L L P+A
Sbjct: 84 GGVIS-AIIALNILIGFIQEYKAEKTMDSLKNLASPMA 120
>gnl|CDD|224137 COG1216, COG1216, Predicted glycosyltransferases [General
function prediction only].
Length = 305
Score = 27.8 bits (62), Expect = 2.0
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 10/56 (17%)
Query: 20 HLVEHLNS---------EIVLKTISDVSVAVEWLRSTFFF-VRVLSNPGHYGFPAG 65
LVE L S IV+ ++E L++ FF VR++ N + GF G
Sbjct: 17 DLVECLASLAAQTYPDDVIVVVDNGSTDGSLEALKARFFPNVRLIENGENLGFAGG 72
>gnl|CDD|219109 pfam06621, SIM_C, Single-minded protein C-terminus. This family
represents the C-terminal region of the eukaryotic
single-minded (SIM) protein. Drosophila single-minded
acts as a positive master gene regulator in central
nervous system midline formation. There are two
homologues in mammals: SIM1 and SIM2, which are members
of the basic-helix-loop-helix PAS family of
transcription factors. SIM1 and SIM2 are novel
heterodimerisation partners for ARNT in vitro, and they
may function both as positive and negative
transcriptional regulators in vivo, during embryogenesis
and in the adult organism. SIM2 is thought to contribute
to some specific Down syndrome phenotypes. This family
is found in conjunction with a pfam00989 domain and
associated pfam00785 motif.
Length = 292
Score = 27.6 bits (61), Expect = 2.3
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 46 STFFFVRVLSNPG--HYGFPAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDG 101
S+ + R S+P YGFP L S L S+ +S C ++RY L T G
Sbjct: 69 SSSCYYRQYSDPFSLCYGFP--LDSHVLSSKKSHPHSKFCQGSPCEVARYFLGTPQAG 124
>gnl|CDD|216402 pfam01268, FTHFS, Formate--tetrahydrofolate ligase.
Length = 557
Score = 27.8 bits (63), Expect = 2.7
Identities = 11/22 (50%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 96 ITMNDGFDILPTVTGSIMAKFC 117
+ DGFDI TV IMA C
Sbjct: 188 VPREDGFDI--TVASEIMAILC 207
>gnl|CDD|214946 smart00973, Sec63, Sec63 Brl domain. This domain was named after
the yeast Sec63 (or NPL1) (also known as the Brl domain)
protein in which it was found. This protein is required
for assembly of functional endoplasmic reticulum
translocons. Other yeast proteins containing this domain
include pre-mRNA splicing helicase BRR2, HFM1 protein
and putative helicases.
Length = 314
Score = 27.3 bits (61), Expect = 3.2
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 106 PTVTGSIMAKFCIGFNTM 123
PT G I + + I + T+
Sbjct: 1 PTELGRIASYYYISYETI 18
>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 = 26.9 bits (60), Expect = 3.7
Identities = 9/56 (16%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 64 AGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDG---FDILPTVTGSIMAKF 116
++E L + L + + + + L RY + ++ ++P + S +A
Sbjct: 5 GADNNESLLNILFSEEAIKELAKECKLGRYTPLRASNRVSVLPLVPPESVSRIASL 60
>gnl|CDD|221312 pfam11916, Vac14_Fig4_bd, Vacuolar protein 14 C-terminal Fig4p
binding. Vac14 is a scaffold for the Fab1 kinase
complex, a complex that allows for the dynamic
interconversion of PI3P and PI(3,5)P2p
(phosphoinositide phosphate (PIP) lipids, that are
generated transiently on the cytoplasmic face of
selected intracellular membranes). This interconversion
is regulated by at least five proteins in yeast: the
lipid kinase Fab1p, lipid phosphatase Fig4p, the Fab1p
activator Vac7p, the Fab1p inhibitor Atg18p, and
Vac14p, a protein required for the activity of both
Fab1p and Fig4p. The C-terminal region of Vac14 binds
to Fig4p. The full length Vac14 in yeasts is likely to
be a protein carrying a succession of HEAT repeats,
most of which have now degenerated. This regulatory
system is crucial for the proper functioning of the
mammalian nervous system.
Length = 181
Score = 26.8 bits (60), Expect = 4.3
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 19 RHLVEHLNSEIVLKTISDVSVAVEWLRSTFFFVRVLSN 56
R L LN+E V +T++ + E L V+ L+
Sbjct: 14 RQLCLLLNAERVYRTLASILEEEEDLEFASKMVQTLNT 51
>gnl|CDD|217270 pfam02889, Sec63, Sec63 Brl domain. This domain (also known as the
Brl domain) is required for assembly of functional
endoplasmic reticulum translocons.
Length = 309
Score = 26.8 bits (60), Expect = 4.9
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 106 PTVTGSIMAKFCIGFNTM 123
PT G I + + I + TM
Sbjct: 1 PTELGRIASHYYILYETM 18
>gnl|CDD|162820 TIGR02356, adenyl_thiF, thiazole biosynthesis adenylyltransferase
ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF
family of proteins (pfam00899) include a number of
members encoded in the midst of thiamine biosynthetic
operons. This mix of known and putative ThiF proteins
shows a deep split in phylogenetic trees, with the
Escherichia. coli ThiF and the E. coli MoeB proteins
seemingly more closely related than E. coli ThiF and
Campylobacter (for example) ThiF. This model represents
the more widely distributed clade of ThiF proteins such
found in E. coli [Biosynthesis of cofactors, prosthetic
groups, and carriers, Thiamine].
Length = 202
Score = 25.8 bits (57), Expect = 9.9
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 9 GREPVESSLHRHLVEHLNSEIVLKTI 34
GR VE + R + LNS+I + +
Sbjct: 73 GRPKVEVAAQR--LRELNSDIQVTAL 96
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 0.135 0.396
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,434,199
Number of extensions: 655346
Number of successful extensions: 533
Number of sequences better than 10.0: 1
Number of HSP's gapped: 533
Number of HSP's successfully gapped: 22
Length of query: 148
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 60
Effective length of database: 7,034,450
Effective search space: 422067000
Effective search space used: 422067000
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: 54 (24.6 bits)