RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2820
(82 letters)
>gnl|CDD|220614 pfam10174, Cast, RIM-binding protein of the cytomatrix active zone.
This is a family of proteins that form part of the CAZ
(cytomatrix at the active zone) complex which is
involved in determining the site of synaptic vesicle
fusion. The C-terminus is a PDZ-binding motif that binds
directly to RIM (a small G protein Rab-3A effector). The
family also contains four coiled-coil domains.
Length = 774
Score = 37.7 bits (87), Expect = 2e-04
Identities = 31/61 (50%), Positives = 43/61 (70%)
Query: 22 QNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQNKGVGL 81
+ Q + E E E+ +LRDT+++L+LR+E +QTL ARDE IKKLLEMLQ+KG+
Sbjct: 113 EGQFSRIQAERERQAMELFLLRDTLEKLQLRMERLQQTLDARDEEIKKLLEMLQSKGLSA 172
Query: 82 K 82
K
Sbjct: 173 K 173
>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding. This family
is found in mammals where it is localised at cell-cell
adherens junctions, and in Sch. pombe and other fungi
where it anchors spindle-pole bodies to spindle
microtubules. It is a coiled-coil structure, and in
pombe, it is required for anchoring the minus end of
spindle microtubules to the centrosome equivalent, the
spindle-pole body. The name ADIP derives from the family
being composed of Afadin- and alpha -Actinin-Binding
Proteins Localised at Cell-Cell Adherens Junctions.
Length = 149
Score = 31.9 bits (73), Expect = 0.015
Identities = 23/76 (30%), Positives = 43/76 (56%)
Query: 1 MLVRQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTL 60
+ R+ EE +L +QN IE L T+ E L RE+ +L+ ++LE +++T +Q L
Sbjct: 49 LEFRESLEETLRKLEAEIERLQNTIERLKTQLEDLERELALLQAKERQLEKKLKTLEQKL 108
Query: 61 QARDESIKKLLEMLQN 76
+ E +++L ++Q
Sbjct: 109 KNEKEEVQRLKNIIQQ 124
>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 = 29.0 bits (65), Expect = 0.17
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 1 MLVRQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQ 56
+L+R EE + P + +IE L L+ I L I E + ++E
Sbjct: 160 VLLRGAEELCDVY---PLPGAREKIETLRDRYNELSESIAELEAEIAEQKRQLEIM 212
>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 28.4 bits (64), Expect = 0.31
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 9/77 (11%)
Query: 2 LVRQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQ 61
+V QLEE R RL + ++E + + L + L+D I +L I +++ +
Sbjct: 76 VVEQLEES-RQRLS----RLVAKLEEMRERDLELNVQ---LKDNIAQLNQEIAEREKAEE 127
Query: 62 ARDESIKKL-LEMLQNK 77
AR E+ ++L E+ + +
Sbjct: 128 ARQEAFEQLKNEIKERE 144
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 28.1 bits (63), Expect = 0.43
Identities = 20/67 (29%), Positives = 29/67 (43%), Gaps = 2/67 (2%)
Query: 18 NLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQ--ARDESIKKLLEMLQ 75
N+E++ QIE L E + L +I L I++ E +E K A + KK L
Sbjct: 90 NIEIEAQIEELKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKKLAKKYDSNLS 149
Query: 76 NKGVGLK 82
GL
Sbjct: 150 EALKGLN 156
>gnl|CDD|226400 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 27.4 bits (61), Expect = 0.70
Identities = 18/58 (31%), Positives = 31/58 (53%)
Query: 21 MQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQNKG 78
+ NQIE + ++ + L +EI + IK+L+ I K+ + R E +KK +Q G
Sbjct: 57 LDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNG 114
Score = 24.3 bits (53), Expect = 9.0
Identities = 14/50 (28%), Positives = 28/50 (56%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKK 69
E+Q++I+ L E + EI L+ I EL+ I +++ L+ R +++
Sbjct: 63 EIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQV 112
>gnl|CDD|114908 pfam06216, RTBV_P46, Rice tungro bacilliform virus P46 protein.
This family consists of several Rice tungro bacilliform
virus P46 proteins. The function of this family is
unknown.
Length = 392
Score = 27.3 bits (60), Expect = 0.73
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 21 MQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQNK 77
+ +IE E E L ++ L+ +EL+ +I K ++ E +KK + Q+K
Sbjct: 69 KEFEIESYKLECEKLNDQVSHLKKQNEELKAQIAEMKDIIEGLREPLKKPIYTTQDK 125
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 27.0 bits (60), Expect = 0.91
Identities = 16/63 (25%), Positives = 27/63 (42%)
Query: 7 EEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDES 66
EE+ +Q QI+ L + E + EI L IK++ + T +Q + +E
Sbjct: 261 EEDRTKEREAELEALQEQIDELESSIEEVLSEIKALASKIKQVNEELTTVRQENEELEEE 320
Query: 67 IKK 69
K
Sbjct: 321 YKI 323
>gnl|CDD|220888 pfam10846, DUF2722, Protein of unknown function (DUF2722). This
eukaryotic family of proteins has no known function.
Length = 373
Score = 26.8 bits (59), Expect = 1.1
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 3/32 (9%)
Query: 46 IKELELRIETQKQTLQA--RDESIKKLLEMLQ 75
IK +EL+IE Q++T Q + E+ K +E+L+
Sbjct: 47 IKAIELKIE-QEKTKQQYYKLENANKSIELLK 77
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 26.6 bits (59), Expect = 1.4
Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 10/68 (14%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELE---------LRIETQKQT-LQARDESIKK 69
+++ +E L EN L RE+ L+ I++LE +R + +K ++ARD I++
Sbjct: 426 KLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIER 485
Query: 70 LLEMLQNK 77
L + L+ K
Sbjct: 486 LEKELEEK 493
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 26.2 bits (58), Expect = 2.2
Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 3 VRQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQA 62
+R LE L L+ E++ Q+ L + E L +I R + EL+ ++E ++ L
Sbjct: 877 LRDLESRLG-DLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSE 935
Query: 63 RDESIKKLLE 72
++ + E
Sbjct: 936 IEDPKGEDEE 945
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 26.1 bits (58), Expect = 2.4
Identities = 8/34 (23%), Positives = 19/34 (55%)
Query: 44 DTIKELELRIETQKQTLQARDESIKKLLEMLQNK 77
D + L+L E ++ + R+E +K+L+ + +
Sbjct: 246 DKLANLKLSPEVLRKVDKTREEEEEKILKAAEEE 279
>gnl|CDD|171679 PRK12717, flgL, flagellar hook-associated protein FlgL;
Provisional.
Length = 523
Score = 25.9 bits (57), Expect = 2.6
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 5/54 (9%)
Query: 22 QNQIEVLYTENEHL----TREIGILRDT-IKELELRIETQKQTLQARDESIKKL 70
N +++ T NE L T +RD+ E R+ Q+ L+A + K+
Sbjct: 461 GNALDIQGTTNESLSLANTTTQSSIRDSDPAEATTRLTLQQTMLEASQLAFVKI 514
>gnl|CDD|220373 pfam09738, DUF2051, Double stranded RNA binding protein (DUF2051).
This is a novel protein identified as interacting with
the leucine-rich repeat domain of human flightless-I,
FliI protein.
Length = 294
Score = 25.7 bits (56), Expect = 2.7
Identities = 14/51 (27%), Positives = 29/51 (56%)
Query: 19 LEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKK 69
E++ + L E E TR++ L+ I L+ +++ K+ L+ RD+ I++
Sbjct: 121 EELEESLAELQREFEEKTRDLEALKRAIDILQHQLKELKEQLRQRDQLIEE 171
>gnl|CDD|183123 PRK11411, fecB, iron-dicitrate transporter substrate-binding
subunit; Provisional.
Length = 303
Score = 25.8 bits (57), Expect = 2.8
Identities = 11/41 (26%), Positives = 18/41 (43%)
Query: 29 YTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKK 69
Y EN IG + +E++ RIE K+ + + K
Sbjct: 135 YQENLQSAAIIGEVLGKKREMQARIEQHKERMAQFASQLPK 175
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 25.8 bits (57), Expect = 2.9
Identities = 21/72 (29%), Positives = 34/72 (47%)
Query: 5 QLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARD 64
+ EE +L E++ +IE L E E+ I+ELE +IE K+ L+A
Sbjct: 743 EQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALR 802
Query: 65 ESIKKLLEMLQN 76
E++ +L L
Sbjct: 803 EALDELRAELTL 814
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 25.1 bits (56), Expect = 4.0
Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 4 RQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELR---IETQKQTL 60
+ E+ELR R E+Q + L + E+L R++ +L +ELE + +E ++Q L
Sbjct: 71 NEFEKELRER----RNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQEL 126
Query: 61 QARDESIKKLLEMLQNK 77
+ ++E +++L+E +
Sbjct: 127 EKKEEELEELIEEQLQE 143
>gnl|CDD|179188 PRK00967, PRK00967, hypothetical protein; Provisional.
Length = 105
Score = 25.0 bits (55), Expect = 4.2
Identities = 14/50 (28%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 30 TENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQNKGV 79
T+++++ R+IG + E++ T+ T +ARD +I ++ E + KG
Sbjct: 26 TQSKNIVRDIGAGLKNVVGGEIKGYTEMLT-EARDIAIDRMKEEAKQKGA 74
>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase. This model represents the
seryl-tRNA synthetase found in most organisms. This
protein is a class II tRNA synthetase, and is recognized
by the pfam model tRNA-synt_2b. The seryl-tRNA
synthetases of two archaeal species, Methanococcus
jannaschii and Methanobacterium thermoautotrophicum,
differ considerably and are included in a different
model [Protein synthesis, tRNA aminoacylation].
Length = 418
Score = 25.0 bits (55), Expect = 4.6
Identities = 16/62 (25%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 20 EMQNQIEVLYTENEHLTREIGIL----RDTIKELELRIETQKQTLQARDESIKKLLEMLQ 75
++ ++IE L + L+++IG +D I+E++ ++ K+ L ++K L LQ
Sbjct: 41 KLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALEAELQ 100
Query: 76 NK 77
+K
Sbjct: 101 DK 102
>gnl|CDD|204260 pfam09518, RE_HindIII, HindIII restriction endonuclease. This
family includes the HindIII (recognises and cleaves
A^AGCTT) restriction endonuclease.
Length = 290
Score = 25.2 bits (55), Expect = 4.9
Identities = 9/56 (16%), Positives = 26/56 (46%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQ 75
E+ E + E+ +EI +++ +E +R + + + E+I ++ ++
Sbjct: 231 EINFLEERSLIKKEYWKKEINRIKNFSREEAIRALLKDYKISSEIETIDSFIKGIK 286
>gnl|CDD|163699 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC36, a subunit of
BRCA1-A complex. BRCC36 (BRCA1-A complex subunit
BRCC36; BRCA1/BRCA2-containing complex subunit 36;
BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC
complex subunit BRCC36; BRCC36 isopeptidase complex;
Lys-63-specific deubiquitinase BRCC36) and BRCC36-like
domains are members of JAMM/MPN+ deubiquitinases (DUBs),
possibly with Zn2+-dependent ubiquitin isopeptidase
activity. BRCC36 is part of the
BRCA1/BRCA2/BARD1-containing nuclear complex that
displays an E3 ubiquitin ligase activity. It is targeted
to DNA damage foci after irradiation; RAP80 recruits the
Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand
breaks (DSBs) for DNA repair through specific
recognition of Lys 63-linked polyubiquitinated proteins
by its tandem ubiquitin-interacting motifs. A new
protein, MERIT40 (mediator of RAP80 interactions and
targeting 40 kDa), also named NBA1 (new component of the
BRCA1 A complex), exists in the same BRCA1-containing
complex and is essential for the integrity of the
complex. There are studies suggesting that MERIT40/NBA1
ties BRCA1 complex integrity, DSB recognition, and
ubiquitin chain activities to the DNA damage response.
It has also been shown that BRCA1-containing complex
resembles the lid complex of the 26S proteasome.
Length = 244
Score = 25.0 bits (55), Expect = 5.0
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 47 KELELRIETQKQTLQARDESIKKLLEMLQ 75
E+ L I +A ES+ +L E+L
Sbjct: 161 IEVPLEIVPTSTISEACLESLVELPEILY 189
>gnl|CDD|218806 pfam05911, DUF869, Plant protein of unknown function (DUF869).
This family consists of a number of sequences found in
Arabidopsis thaliana, Oryza sativa and Lycopersicon
esculentum (Tomato). The function of this family is
unknown.
Length = 767
Score = 24.9 bits (54), Expect = 5.6
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 5 QLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTI----KELELRIETQKQTL 60
Q + ++ M L +++IE L E +E L+ + KELE+R E + +L
Sbjct: 116 QEKSKMIMELSEEKSRAESEIEDLKARLESAEKENSSLKYEVHVLSKELEIRNEERNMSL 175
Query: 61 QARDESIKKLLE 72
Q+ D + K+ LE
Sbjct: 176 QSADAASKQHLE 187
>gnl|CDD|226512 COG4025, COG4025, Predicted membrane protein [Function unknown].
Length = 284
Score = 24.8 bits (54), Expect = 6.5
Identities = 6/38 (15%), Positives = 20/38 (52%)
Query: 39 IGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQN 76
+ +L++ K ++ E +T+ ++K++E ++
Sbjct: 29 VKLLKEGPKRSAMKTEQLLRTIGESASKVEKVMEKVRE 66
>gnl|CDD|185268 PRK15370, PRK15370, E3 ubiquitin-protein ligase SlrP; Provisional.
Length = 754
Score = 24.7 bits (53), Expect = 7.3
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 21 MQNQIEVLYTENEHLTREIGILRDTIKELELRI 53
+Q I+ LY + LT L DTI+E+EL I
Sbjct: 218 LQGNIKTLYANSNQLTSIPATLPDTIQEMELSI 250
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 24.6 bits (53), Expect = 7.5
Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 2 LVRQLEEELRMRLRGPNLEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQ 61
++ +EL +LR + + Q E++ E E LTRE+ + +L ++++K Q
Sbjct: 348 ALQSNIDELHKQLRKQGISTE-QFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQ 406
Query: 62 ARDESIKKLL 71
+S++K L
Sbjct: 407 GIFKSLEKTL 416
>gnl|CDD|215073 PLN00142, PLN00142, sucrose synthase.
Length = 815
Score = 24.6 bits (54), Expect = 8.2
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 3 VRQLEEELRMRLRGPNLEMQNQIEVL 28
VR LE E+ +R++ L+++ QI ++
Sbjct: 313 VRALENEMLLRIKQQGLDIKPQILIV 338
>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain.
Transcription of the anti-viral guanylate-binding
protein (GBP) is induced by interferon-gamma during
macrophage induction. This family contains GBP1 and
GPB2, both GTPases capable of binding GTP, GDP and GMP.
Length = 297
Score = 24.6 bits (54), Expect = 8.4
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQ 75
+ IE + E E +LR+ KE E +E Q+++ Q E +K+L+E ++
Sbjct: 201 AKEKAIEAERAKAEAAEAEQELLREKQKEEEQMMEAQERSYQ---EHVKQLIEKME 253
>gnl|CDD|203307 pfam05693, Glycogen_syn, Glycogen synthase. This family consists
of the eukaryotic glycogen synthase proteins GYS1, GYS2
and GYS3. Glycogen synthase (GS) is the enzyme
responsible for the synthesis of -1,4-linked glucose
chains in glycogen. It is the rate limiting enzyme in
the synthesis of the polysaccharide, and its activity
is highly regulated through phosphorylation at multiple
sites and also by allosteric effectors, mainly glucose
6-phosphate (G6P).
Length = 633
Score = 24.3 bits (53), Expect = 8.5
Identities = 7/31 (22%), Positives = 17/31 (54%)
Query: 50 ELRIETQKQTLQARDESIKKLLEMLQNKGVG 80
E T+ + L+ + S+K L+ ++++G
Sbjct: 40 EHTARTEVEELEPENPSLKATLDSMRSRGFK 70
>gnl|CDD|215360 PLN02672, PLN02672, methionine S-methyltransferase.
Length = 1082
Score = 24.3 bits (53), Expect = 8.5
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 53 IETQKQTLQARDESIKKLLE 72
+ QK+ L++R E +K+ LE
Sbjct: 968 VAEQKKILKSRAERLKETLE 987
>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 = 8.7
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 25 IEVLYTENEHLTREIGILRDTIKELELRIETQKQTL 60
E LY ENE L EI L + ++E + ET ++TL
Sbjct: 34 YEALYKENEELKEEIERLEEKLEEYKELEETLQKTL 69
>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 = 24.1 bits (53), Expect = 9.1
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQAR 63
E++ +I+ L E E L + + L ++ +E R E ++Q + R
Sbjct: 124 ELEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEERQIEEKR 167
>gnl|CDD|235469 PRK05443, PRK05443, polyphosphate kinase; Provisional.
Length = 691
Score = 24.3 bits (54), Expect = 9.2
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 2 LVRQLEEELRMRLRGP 17
L+ LE+EL+ R G
Sbjct: 246 LLEALEKELKRRRFGE 261
>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 = 24.3 bits (53), Expect = 9.2
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 20 EMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEML 74
+ L ENE L + L+ +ELE +E +Q L +E + L++++
Sbjct: 94 TTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIM 148
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 24.1 bits (53), Expect = 10.0
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 19 LEMQNQIEVLYTENEHLTREIGILRDTIKELELRIETQKQTLQARDESIKKLLEMLQNK 77
LE + ++ L E E RE+ R+ ++ LE R+ +++TL + ES+ K E L+ K
Sbjct: 54 LEAKEEVHKLRAELE---RELKERRNELQRLERRLLQREETLDRKMESLDKKEENLEKK 109
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
0.316 0.135 0.345
Gapped
Lambda K H
0.267 0.0868 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,155,951
Number of extensions: 353410
Number of successful extensions: 1133
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1062
Number of HSP's successfully gapped: 296
Length of query: 82
Length of database: 10,937,602
Length adjustment: 51
Effective length of query: 31
Effective length of database: 8,675,548
Effective search space: 268941988
Effective search space used: 268941988
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 (21.6 bits)
S2: 53 (23.9 bits)