RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10016
(149 letters)
>gnl|CDD|147073 pfam04729, ASF1_hist_chap, ASF1 like histone chaperone. This
family includes the yeast and human ASF1 protein. These
proteins have histone chaperone activity. ASF1
participates in both the replication-dependent and
replication-independent pathways. The structure
three-dimensional has been determined as a a compact
immunoglobulin-like beta sandwich fold topped by three
helical linkers.
Length = 154
Score = 227 bits (581), Expect = 6e-78
Identities = 92/134 (68%), Positives = 112/134 (83%)
Query: 16 MAKVQLTNVTVLDNSSPFSQQFRFELVFECIEELKEDLEWKMIYVGSAESEEYDQVLDTI 75
M+ V LTNV VL+N + F+ F+FE+ FEC+E LK+DLEWK+IYVGSAESE+YDQVLD++
Sbjct: 1 MSLVNLTNVEVLNNPASFTDPFQFEITFECLEPLKDDLEWKLIYVGSAESEKYDQVLDSV 60
Query: 76 YVGPIPEGKHMFVFEADPPDVNKIPEKDVLGVTVVLLTCSYRGNEFVRVGFFVNNEYADP 135
VGPIP G+H F FEADPPD KIP +D+LGVTV+LLTCSYRG EF+RVG++VNNEY D
Sbjct: 61 LVGPIPVGRHEFTFEADPPDPEKIPPEDILGVTVLLLTCSYRGQEFIRVGYYVNNEYTDE 120
Query: 136 ELKENPPEKPQFDK 149
EL+ENPP KP DK
Sbjct: 121 ELRENPPAKPIIDK 134
>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing
[Transcription / Chromatin structure and dynamics].
Length = 279
Score = 148 bits (374), Expect = 5e-45
Identities = 76/139 (54%), Positives = 100/139 (71%), Gaps = 5/139 (3%)
Query: 16 MAKVQLTNVTVLDNSSPFSQQFRFELVFECIEELKEDLEWKMIYVGSAESEEYDQVLDTI 75
M+ V+L ++ VL+N + F ++FE+ FEC+EELK DLEWK+ YVGS S+E DQVLD I
Sbjct: 1 MSIVKLLSIEVLNNPAKFGDPYKFEITFECLEELKCDLEWKLTYVGSVHSDENDQVLDEI 60
Query: 76 YVGPIPEGKHMFVFEADPPDVNKIPEKDVLGVTVVLLTCSYRGNEFVRVGFFVNNEY--- 132
VGPIP+GK+ FVF+ADPPDVN IP ++ GVTV+LL+C Y+G EFVRVG++VNNEY
Sbjct: 61 LVGPIPKGKNKFVFDADPPDVNLIPLSEMFGVTVILLSCRYKGQEFVRVGYYVNNEYPGI 120
Query: 133 --ADPELKENPPEKPQFDK 149
+ E P EK +
Sbjct: 121 TKLEKSDVEEPSEKVDEED 139
>gnl|CDD|107299 cd06304, PBP1_BmpA_like, Periplasmic binding component of a
family of basic membrane lipoproteins from Borrelia and
various putative lipoproteins from other bacteria.
Periplasmic binding component of a family of basic
membrane lipoproteins from Borrelia and various
putative lipoproteins from other bacteria. These outer
membrane proteins include Med, a cell-surface localized
protein regulating the competence transcription factor
gene comK in Bacillus subtilis, and PnrA, a periplasmic
purine nucleoside binding protein of an ATP-binding
cassette (ABC) transport system in Treponema pallidum.
All contain the type I periplasmic sugar-binding
protein-like fold.
Length = 260
Score = 29.0 bits (66), Expect = 0.89
Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 21 LTNVTVLDNSSPFSQQFRFELVFECIEELKEDLEWKMIYVGSAESEEYDQVLD 73
+ + D S F+Q +E +E+ +++L ++ YV S E +Y+ L
Sbjct: 5 VYDGGGGDKS--FNQS-----AYEGLEKAEKELGVEVKYVESVEDADYEPNLR 50
>gnl|CDD|224978 COG2067, FadL, Long-chain fatty acid transport protein [Lipid
metabolism].
Length = 440
Score = 28.5 bits (64), Expect = 1.3
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 112 LTCSYRGNEFVRVGFFVNNEYADPELK 138
+ SYR N+ VG + YA +LK
Sbjct: 158 PSGSYRVNDGFSVGLGLIAVYASAKLK 184
>gnl|CDD|217506 pfam03349, Toluene_X, Outer membrane protein transport protein
(OMPP1/FadL/TodX). This family includes TodX from
Pseudomonas putida F1 and TbuX from Ralstonia pickettii
PKO1. These are membrane proteins of uncertain function
that are involved in toluene catabolism. Related
proteins involved in the degradation of similar aromatic
hydrocarbons are also in this family, such as CymD. This
family also includes FadL involved in translocation of
long-chain fatty acids across the outer membrane. It is
also a receptor for the bacteriophage T2.
Length = 414
Score = 28.5 bits (64), Expect = 1.4
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 112 LTCSYRGNEFVRVGFFVNNEYADPELKEN 140
+ SYR N+ + VG V+ YA L+
Sbjct: 133 FSLSYRVNDKLSVGAGVDAVYASGNLERL 161
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 28.4 bits (64), Expect = 1.7
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 29 NSSPFSQQFRFELVFECIEELKE 51
N F+ RF+ + EELKE
Sbjct: 350 NGGEFAGMHRFDCRRKIEEELKE 372
>gnl|CDD|239428 cd03312, CIMS_N_terminal_like, CIMS - Cobalamine-independent
methonine synthase, or MetE, N-terminal domain_like.
Many members have been characterized as
5-methyltetrahydropteroyltriglutamate-homocysteine
methyltransferases, EC:2.1.1.14, mostly from bacteria
and plants. This enzyme catalyses the last step in the
production of methionine by transferring a methyl group
from 5-methyltetrahydrofolate to L-homocysteine without
using an intermediate methyl carrier. The active enzyme
has a dual (beta-alpha)8-barrel structure, and this
model covers the N-terminal barrel, and a few
single-barrel sequences most similar to the N-terminal
barrel. It is assumed that the homologous N-terminal
barrel has evolved from the C-terminus via gene
duplication and has subsequently lost binding sites,
and it seems as if the two barrels forming the active
enzyme may sometimes reside on different polypeptides.
The C-terminal domain incorporates the Zinc ion, which
binds and activates homocysteine. Side chains from both
barrels contribute to the binding of the folate
substrate.
Length = 360
Score = 27.9 bits (63), Expect = 2.1
Identities = 10/16 (62%), Positives = 11/16 (68%), Gaps = 1/16 (6%)
Query: 68 YDQVLDTIY-VGPIPE 82
YD VLDT +G IPE
Sbjct: 64 YDHVLDTSVLLGAIPE 79
>gnl|CDD|238948 cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily. Adenine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins probably binds ATP. This
domain is about 200 amino acids long with a strongly
conserved motif SGGKD at the N terminus.
Length = 202
Score = 27.6 bits (62), Expect = 2.2
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 14/55 (25%)
Query: 103 DVLGVTVVLLTC---SYRGNEF-----------VRVGFFVNNEYADPELKENPPE 143
D LG V+ +T + E +R +E DPE +NPP+
Sbjct: 20 DALGDRVLAVTATSPLFPRRELEEAKRLAKEIGIRHEVIETDELDDPEFAKNPPD 74
>gnl|CDD|235367 PRK05222, PRK05222,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase; Provisional.
Length = 758
Score = 27.4 bits (62), Expect = 3.0
Identities = 10/16 (62%), Positives = 11/16 (68%), Gaps = 1/16 (6%)
Query: 68 YDQVLDTIY-VGPIPE 82
YD VLDT +G IPE
Sbjct: 66 YDHVLDTAVLLGAIPE 81
>gnl|CDD|215264 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 27.4 bits (61), Expect = 3.6
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 10/47 (21%)
Query: 46 IEELKEDLE---WKMI------YVGSAESEEYDQVLDTI-YVGPIPE 82
++++ DL WK + Y+ S YDQVLDT +G +P
Sbjct: 34 LQKVAADLRSSIWKQMSAAGIKYIPSNTFSYYDQVLDTTAMLGAVPP 80
>gnl|CDD|179056 PRK00523, PRK00523, hypothetical protein; Provisional.
Length = 72
Score = 25.8 bits (57), Expect = 3.9
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 124 VGFFVNNEYADPELKENPP 142
+G+FV+ + +++ENPP
Sbjct: 21 IGYFVSKKMFKKQIRENPP 39
>gnl|CDD|238932 cd01972, Nitrogenase_VnfE_like, Nitrogenase_VnfE_like: VnfE subunit
of the VnfEN complex_like. This group in addition to
VnfE contains a subset of the alpha subunit of the
nitrogenase MoFe protein and NifE-like proteins. The
nitrogenase enzyme system catalyzes the ATP-dependent
reduction of dinitrogen to ammonia. NifEN participates
in the synthesis of the iron-molybdenum cofactor
(FeMoco) of MoFe protein of the
molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur
containing precursor of the FeMoco) from NifB is
transferred to NifEN where it is further processed to
FeMoco. VnfEN may similarly be a scaffolding protein
for the iron-vanadium cofactor (FeVco) of the
vanadium-dependent (V)-nitrogenase. NifE and NifN are
essential for the Mo-nitrogenase, VnfE and VnfN are not
essential for the V-nitrogenase. NifE and NifN can
substitute when the vnfEN genes are inactivated.
Length = 426
Score = 26.6 bits (59), Expect = 5.9
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 40 ELVFECIEELKEDLEWKMIYVGSAESEEYDQVLDTIYVGPIPEGKHMFVFEADPPDVNKI 99
E V IEEL++ L+ K V + + + + +G E + VF DP
Sbjct: 278 ERVAPEIEELRKALKGKKAIVETGAAYGHLLIAVLRELGFG-EVPVVLVFHHDPTYDRGD 336
Query: 100 PEKDVLGVTV 109
EKD+L V
Sbjct: 337 SEKDLLEHGV 346
>gnl|CDD|226286 COG3763, COG3763, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 71
Score = 25.0 bits (55), Expect = 6.5
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 7/39 (17%)
Query: 104 VLGVTVVLLTCSYRGNEFVRVGFFVNNEYADPELKENPP 142
+L + + LL + GFF+ + +LK+NPP
Sbjct: 7 ILLIVLALLA-------GLIGGFFIARKQMKKQLKDNPP 38
>gnl|CDD|217311 pfam02995, DUF229, Protein of unknown function (DUF229). Members
of this family are uncharacterized. They are 500-1200
amino acids in length and share a long region
conservation that probably corresponds to several
domains. The Go annotation for the protein indicates
that it is involved in nematode larval development and
has a positive regulation on growth rate.
Length = 492
Score = 26.5 bits (59), Expect = 6.6
Identities = 8/38 (21%), Positives = 10/38 (26%), Gaps = 2/38 (5%)
Query: 112 LTCSYRGNEFVRVGFFVNNEYADPELKENPPEKPQFDK 149
L C YR E R N+ + K
Sbjct: 45 LNCEYR--EIKRKRDSENHYSYSKLFPLRLLTQSVEVK 80
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 26.5 bits (59), Expect = 6.7
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 78 GPIPEGKHMFVFEADPPDVN---KIPEKDVLGVTVV--LLTCSYRGNEFVRVGFF 127
GP+P+G + A PP + ++ E LGV + LTC RG R+G F
Sbjct: 114 GPLPQGPVPYPLRAPPPPAHSRARVGEPLDLGVRALNTFLTCC-RGQ---RMGIF 164
>gnl|CDD|235718 PRK06154, PRK06154, hypothetical protein; Provisional.
Length = 565
Score = 26.3 bits (58), Expect = 7.2
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 74 TIYVGPIPEGKHMFVFEADPPDVNK 98
+ Y P+PEGK + D D+NK
Sbjct: 294 SYYGLPMPEGKTIIHSTLDDADLNK 318
>gnl|CDD|153277 cd07593, BAR_MUG137_fungi, The Bin/Amphiphysin/Rvs (BAR) domain of
Schizosaccharomyces pombe Meiotically Up-regulated Gene
137 protein and similar proteins. BAR domains are
dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions including organelle biogenesis, membrane
trafficking or remodeling, and cell division and
migration. This subfamily is composed predominantly of
uncharacterized fungal proteins with similarity to
Schizosaccharomyces pombe Meiotically Up-regulated Gene
137 protein (MUG137), which may play a role in meiosis
and sporulation in fission yeast. MUG137 contains an
N-terminal BAR domain and a C-terminal SH3 domain,
similar to endophilins. Endophilins play roles in
synaptic vesicle formation, virus budding, mitochondrial
morphology maintenance, receptor-mediated endocytosis
inhibition, and endosomal sorting. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions.
Length = 215
Score = 25.8 bits (57), Expect = 8.6
Identities = 9/27 (33%), Positives = 18/27 (66%)
Query: 47 EELKEDLEWKMIYVGSAESEEYDQVLD 73
EE ED+E +M+ + +E+++Y + D
Sbjct: 159 EESSEDVEARMVAIKESEADQYRDLTD 185
>gnl|CDD|192120 pfam08672, APC2, Anaphase promoting complex (APC) subunit 2. The
anaphase promoting complex or cyclosome (APC2) is an E3
ubiquitin ligase which is part of the SCF family of
ubiquitin ligases. Ubiquitin ligases catalyze the
transfer of ubiquitin from the ubiquitin conjugating
enzyme (E2), to the substrate protein.
Length = 60
Score = 24.5 bits (54), Expect = 8.8
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 20/68 (29%)
Query: 1 MVINLPSMEIIPIKRMAKVQLTNVTVLDNSSPFSQQFRFELVFECIEELKEDLEW----- 55
M+ NL S+ + I M K+ + + SQ EEL+E L+
Sbjct: 5 MLTNLGSLPLERIHSMLKMFVKD----PGGYTISQ-----------EELEEFLDGLVAEG 49
Query: 56 KMIYVGSA 63
K+ +VG +
Sbjct: 50 KLEFVGGS 57
>gnl|CDD|233499 TIGR01631, Trypano_RHS, trypanosome RHS (retrotransposon hot spot)
family. This model describes full-length and
part-length members of the RHS (retrotransposon hot
spot) family in Trypanosoma brucei and Trypanosoma
cruzi. Members of this family are frequently interrupted
by non-LTR retrotransposons inserted at exactly the same
relative position.
Length = 760
Score = 25.9 bits (57), Expect = 9.3
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 47 EELKEDLEWKMIYVGSAESE 66
+EL L W++IYV +S
Sbjct: 704 DELSRQLVWEIIYVQHVDST 723
>gnl|CDD|100947 PRK01844, PRK01844, hypothetical protein; Provisional.
Length = 72
Score = 24.6 bits (53), Expect = 9.5
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 122 VRVGFFVNNEYADPELKENPPEKPQ 146
V +GFF+ +Y L++NPP Q
Sbjct: 18 VALGFFIARKYMMNYLQKNPPINEQ 42
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
0.318 0.139 0.407
Gapped
Lambda K H
0.267 0.0687 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,941,776
Number of extensions: 722961
Number of successful extensions: 581
Number of sequences better than 10.0: 1
Number of HSP's gapped: 581
Number of HSP's successfully gapped: 27
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.7 bits)