RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3327
(125 letters)
>gnl|CDD|238607 cd01276, PKCI_related, Protein Kinase C Interacting protein related
(PKCI): PKCI and related proteins belong to the
ubiquitous HIT family of hydrolases that act on
alpha-phosphates of ribonucleotides. The members of this
subgroup have a conserved HxHxHxx motif (x is a
hydrophobic residue) that is a signature for this
family. No enzymatic activity has been reported however,
for PKCI and its related members.
Length = 104
Score = 172 bits (439), Expect = 2e-57
Identities = 58/104 (55%), Positives = 82/104 (78%), Gaps = 1/104 (0%)
Query: 15 DTIFGRILRKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILG 74
D IF +I+R EIP ++EDD+ +AF+DINP+AP+H LVIP+K I SLS+A +ED E+LG
Sbjct: 1 DCIFCKIIRGEIPAKKVYEDDEVLAFHDINPQAPVHILVIPKKHIASLSDATEEDEELLG 60
Query: 75 HLMVTASKLAKKQGLD-NGYRLVVNNGRHGAQSVYHLHIHVMGG 117
HL+ A+K+AK G+ +GYRLV+N G+ G Q V+HLH+H++GG
Sbjct: 61 HLLSAAAKVAKDLGIAEDGYRLVINCGKDGGQEVFHLHLHLLGG 104
>gnl|CDD|221348 pfam11969, DcpS_C, Scavenger mRNA decapping enzyme C-term binding.
This family consists of several scavenger mRNA decapping
enzymes (DcpS) and is the C-terminal region. DcpS is a
scavenger pyrophosphatase that hydrolyses the residual
cap structure following 3' to 5' decay of an mRNA. The
association of DcpS with 3' to 5' exonuclease exosome
components suggests that these two activities are linked
and there is a coupled exonucleolytic decay-dependent
decapping pathway. The C-terminal domain contains a
histidine triad (HIT) sequence with three histidines
separated by hydrophobic residues. The central histidine
within the DcpS HIT motif is critical for decapping
activity and defines the HIT motif as a new mRNA
decapping domain, making DcpS the first member of the
HIT family of proteins with a defined biological
function.
Length = 113
Score = 125 bits (317), Expect = 8e-39
Identities = 45/102 (44%), Positives = 62/102 (60%), Gaps = 1/102 (0%)
Query: 15 DTIFGRILRKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILG 74
+F I+ E P ++EDD VAF DI P+AP+H LVIP+K I SL + E +LG
Sbjct: 1 KWVFCIIINGEEPERIVYEDDGFVAFKDIKPKAPLHLLVIPKKHIKSLRDLTKEHLPLLG 60
Query: 75 HLMVTASKLAKKQGLDNGYRLVVNNGRHGAQSVYHLHIHVMG 116
H+ A K+AK++ + YR V+ G H SVYHLH+HV+
Sbjct: 61 HMREVAKKIAKEKYNEG-YRDVLRLGFHYGPSVYHLHLHVIA 101
>gnl|CDD|216377 pfam01230, HIT, HIT domain.
Length = 97
Score = 115 bits (289), Expect = 1e-34
Identities = 48/100 (48%), Positives = 61/100 (61%), Gaps = 5/100 (5%)
Query: 23 RKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILGHLMVTASK 82
R EIP ++EDD +AF DI+P+AP H LVIP+K I L + E LG LM A K
Sbjct: 1 RGEIPSKVVYEDDLVLAFLDIDPQAPGHVLVIPKKHITELHDL---TPEELGDLMSEAKK 57
Query: 83 LAKKQGLDN--GYRLVVNNGRHGAQSVYHLHIHVMGGRQL 120
+A+ G GYR+V+NNG QSV HLHIHV+ R+
Sbjct: 58 VARALGKAKADGYRIVINNGAAAGQSVPHLHIHVIPRREG 97
>gnl|CDD|182648 PRK10687, PRK10687, purine nucleoside phosphoramidase; Provisional.
Length = 119
Score = 114 bits (288), Expect = 2e-34
Identities = 47/107 (43%), Positives = 80/107 (74%), Gaps = 1/107 (0%)
Query: 15 DTIFGRILRKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILG 74
+TIF +I+R+EIP + +++D+ AF DI+P+AP H L+IP IP++++ E + LG
Sbjct: 4 ETIFSKIIRREIPSDIVYQDELVTAFRDISPQAPTHILIIPNILIPTVNDVSAEHEQALG 63
Query: 75 HLMVTASKLAKKQGL-DNGYRLVVNNGRHGAQSVYHLHIHVMGGRQL 120
++ A+K+A+++G+ ++GYRL++N RHG Q VYH+H+H++GGR L
Sbjct: 64 RMITVAAKIAEQEGIAEDGYRLIMNTNRHGGQEVYHIHMHLLGGRPL 110
>gnl|CDD|223611 COG0537, Hit, Diadenosine tetraphosphate (Ap4A) hydrolase and other
HIT family hydrolases [Nucleotide transport and
metabolism / Carbohydrate transport and metabolism /
General function prediction only].
Length = 138
Score = 112 bits (283), Expect = 3e-33
Identities = 44/114 (38%), Positives = 63/114 (55%), Gaps = 6/114 (5%)
Query: 15 DTIFGRILRKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILG 74
IF +I+R EIP N ++ED+ +AF DI P AP H LVIP++ + L D D E L
Sbjct: 2 MCIFCKIIRGEIPANKVYEDEHVLAFLDIYPAAPGHTLVIPKRHVSDLE---DLDPEELA 58
Query: 75 HLMVTASKLAKKQGLD---NGYRLVVNNGRHGAQSVYHLHIHVMGGRQLRWPPG 125
L + A K+AK +GY + +NNG+ Q V+HLHIH++ +
Sbjct: 59 ELFLLAQKIAKALKEAFGADGYNIGINNGKAAGQEVFHLHIHIIPRYKGDDNFP 112
>gnl|CDD|238608 cd01277, HINT_subgroup, HINT (histidine triad nucleotide-binding
protein) subgroup: Members of this CD belong to the
superfamily of histidine triad hydrolases that act on
alpha-phosphate of ribonucleotides. This subgroup
includes members from all three forms of cellular life.
Although the biochemical function has not been
characterised for many of the members of this subgroup,
the proteins from Yeast have been shown to be involved
in secretion, peroxisome formation and gene expression.
Length = 103
Score = 96.9 bits (242), Expect = 2e-27
Identities = 38/101 (37%), Positives = 57/101 (56%)
Query: 15 DTIFGRILRKEIPCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILG 74
D IF +I+ EIP ++EDD +AF DINP + H LVIP+K +L + E+ L
Sbjct: 1 DCIFCKIIAGEIPSYKVYEDDHVLAFLDINPASKGHTLVIPKKHYENLLDLDPEELAELI 60
Query: 75 HLMVTASKLAKKQGLDNGYRLVVNNGRHGAQSVYHLHIHVM 115
++ KK +G ++ NNGR Q V+H+H+HV+
Sbjct: 61 LAAKKVARALKKALKADGLNILQNNGRAAGQVVFHVHVHVI 101
>gnl|CDD|238263 cd00468, HIT_like, HIT family: HIT (Histidine triad) proteins,
named for a motif related to the sequence HxHxH/Qxx (x,
a hydrophobic amino acid), are a superfamily of
nucleotide hydrolases and transferases, which act on the
alpha-phosphate of ribonucleotides. On the basis of
sequence, substrate specificity, structure, evolution
and mechanism, HIT proteins are classified in the
literacture into three major branches: the Hint branch,
which consists of adenosine 5' -monophosphoramide
hydrolases, the Fhit branch, that consists of
diadenosine polyphosphate hydrolases, and the GalT
branch consisting of specific nucloside monophosphate
transferases. Further sequence analysis reveals several
new closely related, yet uncharacterized subgroups.
Length = 86
Score = 73.7 bits (181), Expect = 2e-18
Identities = 30/89 (33%), Positives = 50/89 (56%), Gaps = 6/89 (6%)
Query: 31 IHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILGHLMVTASKLA---KKQ 87
+ +D+ AF ++ P AP H LV P++ + +L + DE L L++TA ++A +K
Sbjct: 1 VPDDEHSFAFVNLKPAAPGHVLVCPKRHVETLPDL-DEAL--LADLVITAQRVAAELEKH 57
Query: 88 GLDNGYRLVVNNGRHGAQSVYHLHIHVMG 116
G + VN+G QSV H+H+HV+
Sbjct: 58 GNVPSLTVFVNDGAAAGQSVPHVHLHVLP 86
>gnl|CDD|238609 cd01278, aprataxin_related, aprataxin related: Aprataxin, a HINT
family hydrolase is mutated in ataxia oculomotor apraxia
syndrome. All the members of this subgroup have the
conserved HxHxHxx (where x is a hydrophobic residue)
signature motif. Members of this subgroup are
predominantly eukaryotic in origin.
Length = 104
Score = 58.2 bits (141), Expect = 3e-12
Identities = 38/104 (36%), Positives = 49/104 (47%), Gaps = 6/104 (5%)
Query: 16 TIFGRIL-RKEIPCNFIH-EDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEIL 73
F I R++ EDD+ V F DI P+A H+LVIP++ I SL ED +L
Sbjct: 2 CHFCDIAKRRDPDPEDQVYEDDRVVVFKDIYPKARHHYLVIPKEHIASLKALTKEDVPLL 61
Query: 74 GHLMVTASKLAKKQGLDNGYRLVVNNGRHG--AQSVYHLHIHVM 115
H M T + K DN G H SV HLH+HV+
Sbjct: 62 EH-METVGR-EKLLRSDNTDPSEFRFGFHAPPFTSVSHLHLHVI 103
>gnl|CDD|238606 cd01275, FHIT, FHIT (fragile histidine family): FHIT proteins,
related to the HIT family carry a motif HxHxH/Qxx (x, is
a hydrophobic amino acid), On the basis of sequence,
substrate specificity, structure, evolution and
mechanism, HIT proteins are classified into three
branches: the Hint branch, which consists of adenosine
5' -monophosphoramide hydrolases, the Fhit branch, that
consists of diadenosine polyphosphate hydrolases, and
the GalT branch consisting of specific nucloside
monophosphate transferases. Fhit plays a very important
role in the development of tumours. Infact, Fhit
deletions are among the earliest and most frequent
genetic alterations in the development of tumours.
Length = 126
Score = 58.1 bits (141), Expect = 5e-12
Identities = 28/100 (28%), Positives = 48/100 (48%), Gaps = 1/100 (1%)
Query: 17 IFGRILRKEIPCNFI-HEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILGH 75
+F I K N + + A ++ P P H LV+P + +P L + E+ L
Sbjct: 2 VFCDIPIKPDEDNLVFYRTKHSFAVVNLYPYNPGHVLVVPYRHVPRLEDLTPEEIADLFK 61
Query: 76 LMVTASKLAKKQGLDNGYRLVVNNGRHGAQSVYHLHIHVM 115
L+ A K K +G+ + +N+G+ G V H+HIH++
Sbjct: 62 LVQLAMKALKVVYKPDGFNIGINDGKAGGGIVPHVHIHIV 101
>gnl|CDD|165200 PHA02866, PHA02866, Hypothetical protein; Provisional.
Length = 333
Score = 29.6 bits (66), Expect = 0.44
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 63 SEAGDEDAEILGHLMVTASKLAKKQGLDNGYRLVVNNGRHGAQS--VYHLHIHVMGGR 118
S D D + HL + K K G DN + ++ + G + V HL GG+
Sbjct: 70 SSLTDYDVYVCEHLTIV--KCFKGVGFDNRFSILTEDRHRGREYTLVLHLSSPKNGGK 125
>gnl|CDD|235485 PRK05471, PRK05471, CDP-diacylglycerol pyrophosphatase;
Provisional.
Length = 252
Score = 29.2 bits (66), Expect = 0.51
Identities = 23/105 (21%), Positives = 35/105 (33%), Gaps = 32/105 (30%)
Query: 27 PCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEIL------------- 73
PC + V D N P+ +L++P I G E +L
Sbjct: 54 PCAEVDPQAGYVLLKDRN--GPLQYLLMPTYRIS-----GIESPLLLEPSTPNYFALAWQ 106
Query: 74 --GHLMVTASKLAKKQGLDNGYRLVVN--NGRHGAQSVYHLHIHV 114
+ + K K D+ L +N GR + LHIH+
Sbjct: 107 ARDFM---SKKYGKPIP-DSAVSLAINSRYGR----TQDQLHIHI 143
>gnl|CDD|185129 PRK15207, PRK15207, long polar fimbrial outer membrane usher
protein LpfC; Provisional.
Length = 842
Score = 28.3 bits (63), Expect = 1.2
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 35 DKCVAFNDINPEAPIHFLVIPRKPIPSLSEA 65
+ CVAF++I P+A HF + S +A
Sbjct: 128 EACVAFDEIIPQATSHFDFNTQTLHLSFPQA 158
>gnl|CDD|218361 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3. RNA
polymerases catalyze the DNA dependent polymerisation
of RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). This
domain, domain 3, represents the pore domain. The 3'
end of RNA is positioned close to this domain. The pore
delimited by this domain is thought to act as a channel
through which nucleotides enter the active site and/or
where the 3' end of the RNA may be extruded during
back-tracking.
Length = 158
Score = 26.8 bits (60), Expect = 2.3
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 14 GDTIFGRILRKEI-PCNF--IHEDDKCV 38
G F R+L EI P +E+ C
Sbjct: 62 GKQTFSRLLPNEINPKGKPKTNEETLCE 89
>gnl|CDD|145739 pfam02744, GalP_UDP_tr_C, Galactose-1-phosphate uridyl transferase,
C-terminal domain. SCOP reports fold duplication with
N-terminal domain. Both involved in Zn and Fe binding.
Length = 168
Score = 26.3 bits (58), Expect = 3.5
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 15/77 (19%)
Query: 48 PIHFLVIPRKPIPSLSEAGDEDAEILGHLMVTASKLAKKQGLDN----------GYRLVV 97
P L +P+ + SL+E D++ E L L ++ DN G
Sbjct: 50 PFETLRLPKDHVLSLTELTDKERE---DLAAIVKPLTRRY--DNLFETSFPYSMGIHQAP 104
Query: 98 NNGRHGAQSVYHLHIHV 114
NG +H H +
Sbjct: 105 LNGEENNHWQFHPHFYP 121
>gnl|CDD|222217 pfam13552, DUF4127, Protein of unknown function (DUF4127). This
family of uncharacterized bacterial proteins are about
500 amino acids in length.
Length = 495
Score = 26.5 bits (59), Expect = 5.0
Identities = 14/52 (26%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 44 NPEAPIH-FLVIPRKPIPSLSEAGDEDAEILGHLMVTASKLAKKQGLDNGYR 94
NP I+ F I R PI + S+ + E G + S L K
Sbjct: 101 NPGLKIYAFSTIMRTPIYNSSDEEPDYYEEYGRKIFRYSALLDKVDRGLTEE 152
>gnl|CDD|238377 cd00736, bacteriophage_lambda_lysozyme, The lysozyme from
bacteriophage lambda hydrolyses the beta-1,4-glycosidic
bond between N-acetylmuramic acid (MurNAc) and
N-acetylglucosamine (GlcNAc), as do other lysozymes.
But unlike other lysozymes, bacteriophage lambda does
not produce a reducing end upon cleavage of the
peptidoglycan but rather uses the 6-OH of the same
MurNAc residue to produce a 1,6-anhydromuramic acid
terminal residue and is therefore a lytic
transglycosylase. An identical 1,6-anhydro bond is
formed in bacterial peptidoglycans by the action of the
lytic transglycosylases of E. coli. However, they differ
structurally.
Length = 151
Score = 25.8 bits (57), Expect = 5.3
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 77 MVTASKLAKKQGLDNGYRLVVNNGR 101
+ AS+ D GY ++V G
Sbjct: 14 TIAASEGTDNGTRDRGYDVLVGGGL 38
>gnl|CDD|224010 COG1085, GalT, Galactose-1-phosphate uridylyltransferase [Energy
production and conversion].
Length = 338
Score = 26.2 bits (58), Expect = 5.3
Identities = 26/114 (22%), Positives = 44/114 (38%), Gaps = 18/114 (15%)
Query: 13 GGDTIFGRILRKEI--PCNFIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDED- 69
G ++ ++ +E + E+D +AF P L+ P++ + L++ DE+
Sbjct: 184 NGSCMYCDLVEREKGDGERIVVENDHFLAFVPFWARWPFEVLIYPKEHVSFLTDLSDEEL 243
Query: 70 ---AEILGHLMVTASKLAKKQGLDNGYRLVVNNGRHGA-----QSVYHLHIHVM 115
AEIL KL + G + G H A YHLH +
Sbjct: 244 KDLAEIL-------KKLLARYDNLFGNSFPYSMGFHQAPFNEVNEHYHLHAEIY 290
>gnl|CDD|99905 cd05563, PTS_IIB_ascorbate, PTS_IIB_ascorbate: subunit IIB of
enzyme II (EII) of the L-ascorbate-specific
phosphoenolpyruvate:carbohydrate phosphotransferase
system (PTS). In this system, EII is an
L-ascorbate-specific permease with two cytoplasmic
subunits (IIA and IIB) and a transmembrane channel IIC
subunit. Subunits IIA, IIB, and IIC are encoded by the
sgaA, sgaB, and sgaT genes of the E. coli sgaTBA
operon. In some bacteria, the IIB (SgaB) domain is
fused C-terminal to the IIA (SgaT) domain. The IIB
domain fold includes a central four-stranded parallel
open twisted beta-sheet flanked by alpha-helices on
both sides. The seven major PTS systems with this IIB
fold include ascorbate, chitobiose/lichenan, lactose,
galactitol, mannitol, fructose, and a sensory system
with similarity to the bacterial bgl system.
Length = 86
Score = 24.8 bits (55), Expect = 6.6
Identities = 9/39 (23%), Positives = 14/39 (35%), Gaps = 4/39 (10%)
Query: 61 SLSEAGDEDAEILGHLMVTASKLAKKQGLDNGYRLVVNN 99
L A A+I+ VT+ LA + + N
Sbjct: 37 DLGSAKASSADII----VTSKDLASLLADGGAKVIGLKN 71
>gnl|CDD|193526 cd05649, M20_ArgE_DapE_like4, M20 Peptidases with similarity to
acetylornithine deacetylases and
succinyl-diaminopimelate desuccinylases. Peptidase M20
family, Uncharacterized protein subfamily with
similarity to acetylornithine
deacetylase/succinyl-diaminopimelate desuccinylase
(ArgE/DapE) subfamily. This group includes the
hypothetical protein ygeY from Escherichia coli, a
putative deacetylase, but many in this subfamily are
classified as unassigned peptidases. ArgE/DapE enzymes
catalyze analogous reactions and share a common
activator, the metal ion (usually Co2+ or Zn2+). ArgE
catalyzes a broad range of substrates, including
N-acetylornithine, alpha-N-acetylmethionine and
alpha-N-formylmethionine, while DapE catalyzes the
hydrolysis of N-succinyl-L,L-diaminopimelate (L,L-SDAP)
to L,L-diaminopimelate and succinate. Proteins in this
subfamily are mostly bacterial and archaeal, and have
been inferred by homology as being related to both ArgE
and DapE.
Length = 376
Score = 25.7 bits (57), Expect = 8.3
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 77 MVTASKLAKKQGLDNGYRLVV 97
MV A+K+ K GLD + V
Sbjct: 102 MVYAAKILKDLGLDFAGTIYV 122
>gnl|CDD|130353 TIGR01286, nifK, nitrogenase molybdenum-iron protein beta chain.
This model represents the majority of known sequences of
the nitrogenase molybdenum-iron protein beta subunit. A
distinct clade in a phylogenetic tree contains
molybdenum-iron, vanadium-iron, and iron-iron forms of
nitrogenase beta subunit and is excluded from this
model. Nitrogenase, also called dinitrogenase, is
responsible for nitrogen fixation. Note: the trusted
cutoff score has recently been lowered to include an
additional family in which the beta subunit is shorter
by about 50 amino acids at the N-terminus. In species
with the shorter form of the beta subunit, the alpha
subunit has a novel insert of similar length [Central
intermediary metabolism, Nitrogen fixation].
Length = 515
Score = 25.6 bits (56), Expect = 8.8
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 16/68 (23%)
Query: 30 FIHEDDKCVAFNDINPEAPIHFLVIPRKPIPSLSEAGDEDAEILGHL--MVTASKLAKKQ 87
F+H CVA+ HF ++P+ ++S + EDA + G L MV
Sbjct: 87 FVHGSQGCVAY--FRSHFNRHF----KEPVSAVSSSMTEDAAVFGGLKNMV--------D 132
Query: 88 GLDNGYRL 95
GL N Y L
Sbjct: 133 GLQNCYAL 140
>gnl|CDD|236778 PRK10859, PRK10859, membrane-bound lytic transglycosylase F;
Provisional.
Length = 482
Score = 25.6 bits (57), Expect = 9.4
Identities = 8/18 (44%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 73 LGHLMVTASKLAKKQGLD 90
GH++ A +L KKQG +
Sbjct: 387 YGHML-DARRLTKKQGGN 403
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 0.139 0.429
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,585,103
Number of extensions: 576318
Number of successful extensions: 473
Number of sequences better than 10.0: 1
Number of HSP's gapped: 464
Number of HSP's successfully gapped: 28
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
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 (24.2 bits)