RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8521
(75 letters)
>gnl|CDD|144673 pfam01166, TSC22, TSC-22/dip/bun family.
Length = 57
Score = 76.7 bits (189), Expect = 7e-21
Identities = 35/52 (67%), Positives = 43/52 (82%)
Query: 19 DLVKSHLMFAVREEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLP 70
DLVKSHLM+AVREEVEVLKE+I EL E+ +QLE EN++LK+ A+ E L QL
Sbjct: 2 DLVKSHLMYAVREEVEVLKEQIKELEEKNSQLERENTLLKSLASPEQLEQLQ 53
>gnl|CDD|183876 PRK13169, PRK13169, DNA replication intiation control protein
YabA; Reviewed.
Length = 110
Score = 29.8 bits (68), Expect = 0.055
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILK 58
+E+ LK+++AEL+E L +EN L+
Sbjct: 22 KELGALKKQLAELLEENTALRLENDKLR 49
>gnl|CDD|237560 PRK13922, PRK13922, rod shape-determining protein MreC;
Provisional.
Length = 276
Score = 29.6 bits (67), Expect = 0.096
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 27 FAVREEVEVLKEKIAELMERI---NQLEMENSILKA 59
F +REE E LK+++ EL R+ QLE EN+ L+
Sbjct: 72 FDLREENEELKKELLELESRLQELEQLEAENARLRE 107
>gnl|CDD|233255 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 738
Score = 28.6 bits (64), Expect = 0.22
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 26 MFAVREEVEVLKEKIAELMERINQLEMENSILK 58
+F ++EE L++KI L + I + N +LK
Sbjct: 429 IFELKEEQNELEKKIISLEQIIASEKARNKLLK 461
>gnl|CDD|149133 pfam07892, DUF1667, Protein of unknown function (DUF1667).
Hypothetical archaeal and bacterial proteins make up
this family. A few proteins are annotated as being
potential metal-binding proteins, and in fact the
members of this family have four highly conserved
cysteine residues, but no further literature evidence
was found in this regard.
Length = 82
Score = 27.9 bits (63), Expect = 0.22
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 29 VREEVEVLKEKIAELMERINQLEMENSI 56
V+ + KE I E M+ + +L ++ +
Sbjct: 34 VKTSKPIPKELIFECMKELKKLVVKAPV 61
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 27.9 bits (63), Expect = 0.33
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKA 59
E++ L+ K+ +L +LE E LK+
Sbjct: 14 EEQIRQLELKLRDLEAENEKLERELERLKS 43
Score = 24.4 bits (54), Expect = 6.3
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILK 58
A+ E L+E+I +L ++ LE EN L+
Sbjct: 5 ALEERNSELEEQIRQLELKLRDLEAENEKLE 35
Score = 24.0 bits (53), Expect = 8.4
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKANATQETL 66
E +E L+E+ +EL E+I QLE++ + A E L
Sbjct: 1 ERLEALEERNSELEEQIRQLELK--LRDLEAENEKL 34
>gnl|CDD|119352 cd02873, GH18_IDGF, The IDGF's (imaginal disc growth factors) are a
family of growth factors identified in insects that
include at least five members, some of which are encoded
by genes in a tight cluster. The IDGF's have an
eight-stranded alpha/beta barrel fold and are related to
the glycosyl hydrolase family 18 (GH18) chitinases, but
they have an amino acid substitution known to abolish
chitinase catalytic activity. IDGFs may have evolved
from chitinases to gain new functions as growth factors,
interacting with cell surface glycoproteins involved in
growth-promoting processes.
Length = 413
Score = 28.0 bits (63), Expect = 0.38
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 35 VLKEKIAELMERINQL--EMENSILKANATQETLGQLPHPNSS 75
V+ EK AE E+ L E++N+ L+ + TL LPH NS+
Sbjct: 159 VVDEKAAEHKEQFTALVRELKNA-LRPDGLLLTLTVLPHVNST 200
>gnl|CDD|236319 PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 589
Score = 27.2 bits (61), Expect = 0.62
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 29 VREEVEVLK--EKIAELMERINQLEMENSILKANAT 62
VRE ++L+ EKI ELMER ++ + ++ +N
Sbjct: 466 VRENDKLLETDEKIQELMERYKRISVNDTSRWSNQG 501
>gnl|CDD|218915 pfam06156, DUF972, Protein of unknown function (DUF972). This
family consists of several hypothetical bacterial
sequences. The function of this family is unknown.
Length = 106
Score = 26.5 bits (59), Expect = 0.78
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILK 58
E+ LK+++AEL+E +L +EN L+
Sbjct: 22 AELGELKQQLAELLEENAELRIENEHLR 49
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 27.0 bits (61), Expect = 0.79
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 28 AVREEVEVLKEKIAELMERINQLEME-NSILKANATQETLGQLPHP 72
A+ EV+ LKE+I L +++LE E +L + LPH
Sbjct: 70 ALIAEVKELKEEIKALEAELDELEAELEELLL------RIPNLPHD 109
>gnl|CDD|203138 pfam04977, DivIC, Septum formation initiator. DivIC from B.
subtilis is necessary for both vegetative and
sporulation septum formation. These proteins are mainly
composed of an amino terminal coiled-coil.
Length = 80
Score = 26.0 bits (58), Expect = 1.1
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 26 MFAVREEVEVLKEKIAELMERINQLEMENSILK 58
+ + +E+ L+ ++A+L +LE E LK
Sbjct: 19 YYQLNQEIAALQAELAKLKAENEELEAEVKDLK 51
>gnl|CDD|181381 PRK08316, PRK08316, acyl-CoA synthetase; Validated.
Length = 523
Score = 26.4 bits (59), Expect = 1.4
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 13/56 (23%)
Query: 3 WVSLSRSDRLADLGLSDLVKSH----LMFAVREEVEVLKEKIAELMERINQLEMEN 54
W+SL R LS L K + +M VEVLK EL ER+ L N
Sbjct: 271 WISLLRHPDFDTRDLSSLRKGYYGASIM-----PVEVLK----ELRERLPGLRFYN 317
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 26.1 bits (58), Expect = 1.5
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKAN 60
+ EE L+E++AEL + LE EN L+ N
Sbjct: 129 ELDEENRELREELAELKQENEALEAENERLQEN 161
Score = 24.2 bits (53), Expect = 6.6
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILKANATQ 63
+++E+ L+E++AEL E++ +L+ EN LK +
Sbjct: 70 ELQQELAELQEELAELQEQLAELQQENQELKQELST 105
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 26.0 bits (58), Expect = 1.6
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 7/46 (15%)
Query: 28 AVREEVEVLKEKIAELMERINQLEME-NSILKANATQETLGQLPHP 72
+ EV+ LKEK+ EL +++LE E +++L T+ +PH
Sbjct: 72 ELIAEVKELKEKLKELEAALDELEAELDTLLL------TIPNIPHE 111
>gnl|CDD|221419 pfam12097, DUF3573, Protein of unknown function (DUF3573). This
family of proteins is functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 372 to 530 amino acids in
length.
Length = 375
Score = 26.0 bits (57), Expect = 1.6
Identities = 7/27 (25%), Positives = 17/27 (62%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSI 56
++++ L+++I L +IN LE + +
Sbjct: 41 KKDISKLQKQIKSLQAQINHLEEQTNS 67
>gnl|CDD|217163 pfam02646, RmuC, RmuC family. This family contains several
bacterial RmuC DNA recombination proteins. The function
of the RMUC protein is unknown but it is suspected that
it is either a structural protein that protects DNA
against nuclease action, or is itself involved in DNA
cleavage at the regions of DNA secondary structures.
Length = 301
Score = 26.1 bits (58), Expect = 1.7
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 31 EEVEVLKEKIAELMERINQLEME----NSILKANATQETLGQL 69
EE+E L+E + EL E QL E + LK T+ G++
Sbjct: 31 EELERLQEGLGELQELNQQLAKEVGNLTAALKNPKTRGNWGEV 73
>gnl|CDD|239499 cd03405, Band_7_HflC, Band_7_HflC: The band 7 domain of flotillin
(reggie) like proteins. This group includes proteins
similar to prokaryotic HlfC (High frequency of
lysogenization C). Although many members of the band 7
family are lipid raft associated, prokaryote plasma
membranes lack cholesterol and are unlikely to have
lipid raft domains. Individual proteins of this band 7
domain family may cluster to form membrane microdomains
which may in turn recruit multiprotein complexes.
Escherichia coli HflC is an integral membrane protein
which may localize to the plasma membrane. HflC
associates with another band 7 family member (HflK) to
form an HflKC complex. HflKC interacts with FtsH in a
large complex termed the FtsH holo-enzyme. FtsH is an
AAA ATP-dependent protease which exerts progressive
proteolysis against membrane-embedded and soluble
substrate proteins. HflKC can modulate the activity of
FtsH. HflKC plays a role in the decision between
lysogenic and lytic cycle growth during lambda phage
infection.
Length = 242
Score = 26.0 bits (58), Expect = 1.9
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 17 LSDLVKSHL--MFAVREEVEVLKEKIAELMERINQ 49
L +V S L F R +E++ + ELME I +
Sbjct: 93 LDQIVNSALRAEFGKRTLIELVSGERGELMEEIRR 127
>gnl|CDD|239121 cd02656, MIT, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. The MIT domain
is found in sorting nexins, the nuclear thiol protease
PalBH, the AAA protein spastin and archaebacterial
proteins with similar domain architecture, vacuolar
sorting proteins and others. The molecular function of
the MIT domain is unclear.
Length = 75
Score = 25.3 bits (56), Expect = 1.9
Identities = 9/32 (28%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 24 HLMFAVREEVE-----VLKEKIAELMERINQL 50
+L+ A++ E E +L++K+ E ++R L
Sbjct: 35 YLLQALKAEKEPKLRKLLRKKVKEYLDRAEFL 66
>gnl|CDD|215969 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 427
Score = 25.9 bits (58), Expect = 2.1
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 30 REEVEVLKEKIAELMERINQLE 51
+EE+E L+++I EL + I +LE
Sbjct: 391 KEEIEKLEKEIEELEKEIAELE 412
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 25.7 bits (57), Expect = 2.2
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 30 REEVEVLKEKIAELMERINQLEMEN 54
R+E+E LK+K+AEL E E
Sbjct: 778 RKEIERLKKKLAELKIYELISEAER 802
>gnl|CDD|183592 PRK12556, PRK12556, tryptophanyl-tRNA synthetase; Provisional.
Length = 332
Score = 25.8 bits (57), Expect = 2.3
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 3/43 (6%)
Query: 21 VKSHLMFAVREEVEVLKEKIAELMERINQLEMENSILKANATQ 63
VK L V E+ +EK A M + L+ L+ A +
Sbjct: 274 VKKELFRVVDRELAGPREKYAMYMNEPSLLD---EALEKGAER 313
>gnl|CDD|226873 COG4467, COG4467, Regulator of replication initiation timing
[Replication, recombination, and repair].
Length = 114
Score = 25.5 bits (56), Expect = 2.3
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 32 EVEVLKEKIAELMERINQLEMENSILK 58
E+ LK+ + L+E L +EN L+
Sbjct: 23 ELGGLKQHLGSLVEENTALRLENEKLR 49
>gnl|CDD|197664 smart00338, BRLZ, basic region leucin zipper.
Length = 65
Score = 24.8 bits (55), Expect = 2.4
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 37 KEKIAELMERINQLEMENSILKA 59
K +I EL ++ QLE EN LK
Sbjct: 25 KAEIEELERKVEQLEAENERLKK 47
>gnl|CDD|99963 cd03788, GT1_TPS, Trehalose-6-Phosphate Synthase (TPS) is a
glycosyltransferase that catalyses the synthesis of
alpha,alpha-1,1-trehalose-6-phosphate from
glucose-6-phosphate using a UDP-glucose donor. It is a
key enzyme in the trehalose synthesis pathway. Trehalose
is a nonreducing disaccharide present in a wide variety
of organisms and may serve as a source of energy and
carbon. It is characterized most notably in insect,
plant, and microbial cells. Its production is often
associated with a variety of stress conditions,
including desiccation, dehydration, heat, cold, and
oxidation. This family represents the catalytic domain
of the TPS. Some members of this domain family coexist
with a C-terminal trehalose phosphatase domain.
Length = 460
Score = 25.6 bits (57), Expect = 2.5
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 23 SHLMFAV--REEVEV---LKEKIAELMERINQ 49
+ AV R +V L+ ++ EL+ RIN
Sbjct: 301 VLVQIAVPSRTDVPEYQELRREVEELVGRING 332
>gnl|CDD|217372 pfam03105, SPX, SPX domain. We have named this region the SPX
domain after (SYG1, Pho81 and XPR1). This 180 residue
length domain is found at the amino terminus of a
variety of proteins. In the yeast protein SYG1, the
N-terminus directly binds to the G- protein beta subunit
and inhibits transduction of the mating pheromone
signal. This finding suggests that all the members of
this family are involved in G-protein associated signal
transduction. The N-termini of several proteins involved
in the regulation of phosphate transport, including the
putative phosphate level sensors PHO81 from
Saccharomyces cerevisiae and NUC-2 from Neurospora
crassa, are also members of this family. The SPX domain
of S. cerevisiae low-affinity phosphate transporters
Pho87 and Pho90 auto-regulates uptake and prevents
efflux. This SPX dependent inhibition is mediated by the
physical interaction with Spl2 NUC-2 contains several
ankyrin repeats pfam00023. Several members of this
family are annotated as XPR1 proteins: the xenotropic
and polytropic retrovirus receptor confers
susceptibility to infection with murine leukaemia
viruses (MLV). The similarity between SYG1, phosphate
regulators and XPR1 sequences has been previously noted,
as has the additional similarity to several predicted
proteins, of unknown function, from Drosophila
melanogaster, Arabidopsis thaliana, Caenorhabditis
elegans, Schizosaccharomyces pombe, and Saccharomyces
cerevisiae. In addition, given the similarities between
XPR1 and SYG1 and phosphate regulatory proteins, it has
been proposed that XPR1 might be involved in G-protein
associated signal transduction and may itself function
as a phosphate sensor.
Length = 176
Score = 25.5 bits (56), Expect = 2.6
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 37 KEKIAELMERINQLEMENSILKANATQE 64
KEK AEL+ER+ +LE + L+ +
Sbjct: 81 KEKEAELLERLEELEKQLEELEERRDET 108
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 25.4 bits (57), Expect = 2.7
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 36 LKEKIAELMERINQLEMENSILKANATQETLGQL 69
L E++ L+E + +LE E LKA G L
Sbjct: 717 LPERVEALLEELKELEKELEQLKAKLAAAAAGDL 750
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 25.7 bits (57), Expect = 2.7
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 29 VREEVEVLKEKIAELMERINQLEMENSILK 58
+ +E++ L+E+I+EL I +LE E L+
Sbjct: 98 IEKEIKELEEEISELENEIKELEQEIERLE 127
Score = 25.7 bits (57), Expect = 2.8
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKAN 60
EE+E ++++I EL E I++LE E L+
Sbjct: 93 EELEKIEKEIKELEEEISELENEIKELEQE 122
>gnl|CDD|179877 PRK04778, PRK04778, septation ring formation regulator EzrA;
Provisional.
Length = 569
Score = 25.6 bits (57), Expect = 2.8
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 5/65 (7%)
Query: 10 DRLADL--GLSDLVKSHLMF---AVREEVEVLKEKIAELMERINQLEMENSILKANATQE 64
D+L +L G +LV+ + +E++ LKE+I E + + +L+++ + K QE
Sbjct: 230 DQLQELKAGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQE 289
Query: 65 TLGQL 69
+ QL
Sbjct: 290 RIDQL 294
>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain. Axonemal
dynein light chain proteins play a dynamic role in
flagellar and cilia motility. Eukaryotic cilia and
flagella are complex organelles consisting of a core
structure, the axoneme, which is composed of nine
microtubule doublets forming a cylinder that surrounds a
pair of central singlet microtubules. This
ultra-structural arrangement seems to be one of the most
stable micro-tubular assemblies known and is responsible
for the flagellar and ciliary movement of a large number
of organisms ranging from protozoan to mammals. This
light chain interacts directly with the N-terminal half
of the heavy chains.
Length = 189
Score = 25.2 bits (56), Expect = 2.9
Identities = 9/36 (25%), Positives = 22/36 (61%)
Query: 29 VREEVEVLKEKIAELMERINQLEMENSILKANATQE 64
+ +E++ L+E+ EL +R+ +LE + ++ +E
Sbjct: 125 LEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEE 160
>gnl|CDD|226513 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain,
potential nuclease [General function prediction only].
Length = 290
Score = 25.3 bits (55), Expect = 3.2
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 28 AVREEVEVLKEKIAELMERINQLEMENSILK 58
+ +E+E L+ + E+ ER+ +LE+ENS L+
Sbjct: 153 ELLKELEELEAEYEEVQERLKRLEVENSRLE 183
>gnl|CDD|238111 cd00187, TOP4c, DNA Topoisomerase, subtype IIA; domain A';
bacterial DNA topoisomerase IV (C subunit, ParC),
bacterial DNA gyrases (A subunit, GyrA),mammalian DNA
toposiomerases II. DNA topoisomerases are essential
enzymes that regulate the conformational changes in DNA
topology by catalysing the concerted breakage and
rejoining of DNA strands during normal cellular growth.
Length = 445
Score = 25.2 bits (56), Expect = 3.4
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 30 REEVEVLKEKIAELMERINQLE 51
+ E E L +++ EL I LE
Sbjct: 404 KLEREKLLKELKELEAEIEDLE 425
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 25.3 bits (56), Expect = 3.5
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 29 VREEVEVLKEKIAELMERINQLEMENSILK 58
+R E++ E++ EL RI QLE+E LK
Sbjct: 396 IRMEIDSKPEELDELDRRIIQLEIEREALK 425
>gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase
domains [DNA replication, recombination, and repair].
Length = 593
Score = 25.3 bits (56), Expect = 3.9
Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 25 LMFAVR-EEVEVLKEKIAELMERINQLEMENSILKANAT 62
L+F V EE+E +K+ + +ME L + L+ +
Sbjct: 549 LVFEVPKEELEEVKKLLKAIMENAVNLSVP---LEVDVG 584
>gnl|CDD|205769 pfam13591, MerR_2, MerR HTH family regulatory protein.
Length = 84
Score = 24.4 bits (54), Expect = 4.0
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 40 IAELMERINQLEMENSILK 58
I +L+ERI QL+ EN L+
Sbjct: 65 ILDLLERIEQLQQENRSLR 83
>gnl|CDD|163064 TIGR02894, DNA_bind_RsfA, transcription factor, RsfA family. In a
subset of endospore-forming members of the Firmcutes,
members of this protein family are found, several to a
genome. Two very strongly conserved sequences regions
are separated by a highly variable linker region. Much
of the linker region was excised from the seed alignment
for this model. A characterized member is the
prespore-specific transcription RsfA from Bacillus
subtilis, previously called YwfN, which is controlled by
sigma factor F and seems to fine-tune expression of some
genes in the sigma-F regulon. A paralog in Bacillus
subtilis is designated YlbO [Regulatory functions, DNA
interactions, Cellular processes, Sporulation and
germination].
Length = 161
Score = 24.7 bits (54), Expect = 4.0
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 26 MFAVREEVEVLKEKIAELMERINQLEMENSILK 58
A+++E E LK + L +R +LE E L+
Sbjct: 99 DQALQKENERLKNQNESLQKRNEELEKELEKLR 131
>gnl|CDD|234038 TIGR02865, spore_II_E, stage II sporulation protein E. Stage II
sporulation protein E (SpoIIE) is a multiple membrane
spanning protein with two separable functions. It plays
a role in the switch to polar cell division during
sporulation. By means of it protein phosphatase
activity, located in the C-terminal region, it activates
sigma-F. All proteins that score above the trusted
cutoff to this model are found in endospore-forming
Gram-positive bacteria. Surprisingly, a sequence from
the Cyanobacterium-like (and presumably
non-spore-forming) photosynthesizer Heliobacillus
mobilis is homologous, and scores between the trusted
and noise cutoffs [Cellular processes, Sporulation and
germination].
Length = 764
Score = 25.0 bits (55), Expect = 4.5
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 28 AVREEVEVLK--EKIAEL-MERINQLEMENSILKANATQET 65
A +E ++ EK E +R ++ NSIL +T E
Sbjct: 595 AAQESSACVRLLEKFLESGFDREVAIKTVNSILSLRSTDEK 635
>gnl|CDD|219955 pfam08657, DASH_Spc34, DASH complex subunit Spc34. The DASH
complex is a ~10 subunit microtubule-binding complex
that is transferred to the kinetochore prior to mitosis.
In Saccharomyces cerevisiae DASH forms both rings and
spiral structures on microtubules in vitro. Components
of the DASH complex, including Dam1, Duo1, Spc34, Dad1
and Ask1, are essential and connect the centromere to
the plus end of spindle microtubules.
Length = 255
Score = 24.8 bits (54), Expect = 4.7
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 29 VREEVEVLKEKIAELMERINQLEME 53
RE++E L+++ EL E I +LE E
Sbjct: 177 AREKIETLRDRYNELSESIAELEAE 201
>gnl|CDD|216326 pfam01142, TruD, tRNA pseudouridine synthase D (TruD). TruD is
responsible for synthesis of pseudouridine from
uracil-13 in transfer RNAs. The structure of TruD
reveals an overall V-shaped molecule which contains an
RNA-binding cleft.
Length = 336
Score = 24.9 bits (55), Expect = 5.0
Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 9 SDRLADLGLSDLVKS-HLMFAVREEVEVLKEKIAELMERINQLE 51
S+RL L+ ++ + A V V+++ A L +R+ + E
Sbjct: 206 SERLEGGSLNRPLEGDIVQLAGSRSVFVVEDNDAALQQRVKRGE 249
>gnl|CDD|191675 pfam07047, OPA3, Optic atrophy 3 protein (OPA3). This family
consists of several optic atrophy 3 (OPA3) proteins.
OPA3 deficiency causes type III 3-methylglutaconic
aciduria (MGA) in humans. This disease manifests with
early bilateral optic atrophy, spasticity,
extrapyramidal dysfunction, ataxia, and cognitive
deficits, but normal longevity.
Length = 134
Score = 24.5 bits (54), Expect = 5.1
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 34 EVLKEKIAELMERINQLEMENSILKA 59
E L++++ EL R+ +LE+E KA
Sbjct: 108 EELQQELEELEARVGELELEIERQKA 133
>gnl|CDD|237754 PRK14554, PRK14554, putative pseudouridylate synthase; Provisional.
Length = 422
Score = 24.9 bits (55), Expect = 5.2
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 25 LMFAVREEVEVLKEK 39
L FA R+EVE +KE+
Sbjct: 292 LRFATRKEVERIKEE 306
>gnl|CDD|235395 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional.
Length = 652
Score = 24.6 bits (55), Expect = 5.5
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 22 KSHLMFAV-REEVEVLKEKI-AELMERINQLEMENSILKA 59
SH + RE +E E I EL ER+ +LE E +L+A
Sbjct: 246 ASH--YVTPRERLERAIESIKEELEERLKELEKEGKLLEA 283
>gnl|CDD|217500 pfam03337, Pox_F12L, Poxvirus F12L protein.
Length = 651
Score = 24.6 bits (54), Expect = 5.7
Identities = 10/45 (22%), Positives = 18/45 (40%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKANATQETLGQLPHPNSS 75
VL++ + L+ I +L + + N T LP P+
Sbjct: 543 RSAPVLRDGLEALIAAIAKLNTDQTDNLMNRIARTGKLLPAPDEC 587
>gnl|CDD|224705 COG1792, MreC, Cell shape-determining protein [Cell envelope
biogenesis, outer membrane].
Length = 284
Score = 24.6 bits (54), Expect = 6.1
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 16 GLSDLVKSHLMFAVREEVEVLKEKIAEL---MERINQLEMENSILK 58
G+ + +KS + E E LK+++AEL +E + LE EN LK
Sbjct: 60 GVLEFLKSL--KDLALENEELKKELAELEQLLEEVESLEEENKRLK 103
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 24.5 bits (53), Expect = 6.2
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 20 LVKSHLMFAVREEVEVLKEKIAELMERINQLEMENSIL 57
+ L+ V+E L+ KI L ++L E S+L
Sbjct: 492 VSNERLLSFVKEATNALRLKIETLERERDRLRQEKSLL 529
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 24.7 bits (54), Expect = 6.3
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKA 59
R E+ V +++I +L E + +LE ENS LK
Sbjct: 414 RREITVYEKRIKKLEETVERLEEENSELKR 443
>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
Length = 381
Score = 24.3 bits (53), Expect = 6.4
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 27 FAVREEVEVLKEKIAELMER 46
F++ EE E+L I EL+ R
Sbjct: 3 FSLTEEQELLLASIRELITR 22
>gnl|CDD|203738 pfam07716, bZIP_2, Basic region leucine zipper.
Length = 54
Score = 23.3 bits (51), Expect = 6.5
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 37 KEKIAELMERINQLEMENSILKA 59
K++ EL ER+ +LE EN+ L+
Sbjct: 24 KQREEELEERVKELEEENAQLRQ 46
>gnl|CDD|218434 pfam05103, DivIVA, DivIVA protein. The Bacillus subtilis divIVA1
mutation causes misplacement of the septum during cell
division, resulting in the formation of small,
circular, anucleate mini-cells. Inactivation of divIVA
produces a mini-cell phenotype, whereas overproduction
of DivIVA results in a filamentation phenotype. These
proteins appear to contain coiled-coils.
Length = 131
Score = 24.2 bits (53), Expect = 6.7
Identities = 11/30 (36%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 31 EEVEVLKEKIAELMERINQL-EMENSILKA 59
+E E LKE+I L E++ + E+E ++ K
Sbjct: 39 KENEELKEEIERLEEKLEEYKELEETLQKT 68
>gnl|CDD|220879 pfam10805, DUF2730, Protein of unknown function (DUF2730). This
family of proteins with unknown function appears to be
restricted to Gammaproteobacteria.
Length = 106
Score = 23.9 bits (52), Expect = 7.2
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 27 FAVREEVEVLKEKIAELMERINQLEME 53
+A RE+VE L + IA +R+ ++E +
Sbjct: 31 YAKREDVEKLIDIIASNDKRLTEMETK 57
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 24.3 bits (53), Expect = 8.0
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKANATQ 63
EE+E L+EK+ EL E + +LE E LK +
Sbjct: 834 EEEIEELEEKLDELEEELEELEKELEELKEELEE 867
>gnl|CDD|146707 pfam04212, MIT, MIT (microtubule interacting and transport)
domain. The MIT domain forms an asymmetric three-helix
bundle and binds ESCRT-III (endosomal sorting complexes
required for transport) substrates.
Length = 69
Score = 23.3 bits (51), Expect = 8.2
Identities = 11/33 (33%), Positives = 21/33 (63%), Gaps = 5/33 (15%)
Query: 24 HLMFAVREEV-----EVLKEKIAELMERINQLE 51
+L+ A++ E E L++KIAE ++R +L+
Sbjct: 34 YLLQALKYEPDPKRREALRQKIAEYLDRAEELK 66
>gnl|CDD|203371 pfam06005, DUF904, Protein of unknown function (DUF904). This
family consists of several bacterial and archaeal
hypothetical proteins of unknown function.
Length = 72
Score = 23.4 bits (51), Expect = 8.6
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 30 REEVEVLKEKIAELMERINQLEMENSILKAN 60
+ E+E LKE+ +L E +LE EN LK
Sbjct: 24 QMEIEELKEENEQLSEENEELEEENKKLKEE 54
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 24.1 bits (53), Expect = 8.7
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 13/55 (23%)
Query: 28 AVREEVEVLKE-------------KIAELMERINQLEMENSILKANATQETLGQL 69
++E+ ++LKE K+ L+E + +LE E LK L L
Sbjct: 709 YLQEQEDLLKEIASLLKVPPELLPKVERLLEELKELEKELERLKKKLAAAELADL 763
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 24.1 bits (53), Expect = 9.1
Identities = 7/24 (29%), Positives = 18/24 (75%)
Query: 28 AVREEVEVLKEKIAELMERINQLE 51
++EE++ L+E++ EL E + +++
Sbjct: 331 ELKEELKELEEELKELEEELEKIK 354
>gnl|CDD|114855 pfam06160, EzrA, Septation ring formation regulator, EzrA. During
the bacterial cell cycle, the tubulin-like cell-division
protein FtsZ polymerises into a ring structure that
establishes the location of the nascent division site.
EzrA modulates the frequency and position of FtsZ ring
formation.
Length = 559
Score = 24.1 bits (53), Expect = 9.1
Identities = 11/50 (22%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 10 DRLADL--GLSDLVKSHLMF---AVREEVEVLKEKIAELMERINQLEMEN 54
D+L +L G ++ + F + +E++ LKE+I + + + +L+++
Sbjct: 226 DQLEELKAGYREMTEEGYHFDHLDIEKELQDLKEQIDQNLALLEELDLDE 275
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 24.1 bits (53), Expect = 9.2
Identities = 7/34 (20%), Positives = 19/34 (55%)
Query: 31 EEVEVLKEKIAELMERINQLEMENSILKANATQE 64
E+EVL +++ +L + + QL+ + + ++
Sbjct: 369 TELEVLLQRVEQLEQELKQLKAQPVGVAPEQKEK 402
>gnl|CDD|217343 pfam03059, NAS, Nicotianamine synthase protein. Nicotianamine
synthase EC:2.5.1.43 catalyzes the trimerisation of
S-adenosylmethionine to yield one molecule of
nicotianamine. Nicotianamine has an important role in
plant iron uptake mechanisms. Plants adopt two
strategies (termed I and II) of iron acquisition.
Strategy I is adopted by all higher plants except
graminaceous plants, which adopt strategy II. In
strategy I plants, the role of nicotianamine is not
fully determined: possible roles include the formation
of more stable complexes with ferrous than with ferric
ion, which might serve as a sensor of the physiological
status of iron within a plant, or which might be
involved in the transport of iron. In strategy II
(graminaceous) plants, nicotianamine is the key
intermediate (and nicotianamine synthase the key
enzyme) in the synthesis of the mugineic family (the
only known family in plants) of phytosiderophores.
Phytosiderophores are iron chelators whose secretion by
the roots is greatly increased in instances of iron
deficiency. The 3D structures of five example NAS from
Methanothermobacter thermautotrophicus reveal the
monomer to consist of a five-helical bundle N-terminal
domain on top of a classic Rossmann fold C-terminal
domain. The N-terminal domain is unique to the NAS
family, whereas the C-terminal domain is homologous to
the class I family of SAM-dependent methyltransferases.
An active site is created at the interface of the two
domains, at the rim of a large cavity that corresponds
to the nucleotide binding site such as is found in
other proteins adopting a Rossmann fold.
Length = 277
Score = 23.9 bits (52), Expect = 9.4
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 31 EEVEVLKEKIAELMERINQLEMENS 55
E L EKI +L I++L +
Sbjct: 4 LLSEALVEKILDLYAAISKLPSLSP 28
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
0.312 0.126 0.334
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,698,472
Number of extensions: 286635
Number of successful extensions: 1052
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1032
Number of HSP's successfully gapped: 210
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)