RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17239
(115 letters)
>gnl|CDD|177954 PLN02320, PLN02320, seryl-tRNA synthetase.
Length = 502
Score = 34.5 bits (79), Expect = 0.006
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 57 NLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSDLEVCQLKQEIE 115
LQKE+ER R E+ NA + K+K + E QAL + +LK + ++ +L E++
Sbjct: 104 ALQKEVERLRAER-NAVANKMKGKLEPSERQALVEEGKNLKEGLVTLEEDLVKLTDELQ 161
>gnl|CDD|233547 TIGR01730, RND_mfp, RND family efflux transporter, MFP subunit.
This model represents the MFP (membrane fusion protein)
component of the RND family of transporters. RND refers
to Resistance, Nodulation, and cell Division. It is, in
part, a subfamily of pfam00529 (Pfam release 7.5) but
hits substantial numbers of proteins missed by that
model. The related HlyD secretion protein, for which
pfam00529 is named, is outside the scope of this model.
Attributed functions imply outward transport. These
functions include nodulation, acriflavin resistance,
heavy metal efflux, and multidrug resistance proteins.
Most members of this family are found in Gram-negative
bacteria. The proposed function of MFP proteins is to
bring the inner and outer membranes together and enable
transport to the outside of the outer membrane. Note,
however, that a few members of this family are found in
Gram-positive bacteria, where there is no outer membrane
[Transport and binding proteins, Unknown substrate].
Length = 322
Score = 33.1 bits (76), Expect = 0.021
Identities = 16/54 (29%), Positives = 23/54 (42%)
Query: 48 LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSA 101
L AE L Q+ ERA + + A + L+ +A Q D K+S A
Sbjct: 73 LAAAEAQLELAQRSFERAERLVKRNAVSQADLDDAKAAVEAAQADLEAAKASLA 126
>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 = 32.3 bits (74), Expect = 0.040
Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 4/88 (4%)
Query: 29 RQKESSQQHLRRMMKDMEG-LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQ 87
+ SS RR ++++E ++ E +A L+K L R+E E E +L + L+E
Sbjct: 666 AKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEE-- 723
Query: 88 ALQGDASDLKSSSAFSDLEVCQLKQEIE 115
L S L+ A + EV QL++ I
Sbjct: 724 -LSRQISALRKDLARLEAEVEQLEERIA 750
Score = 27.7 bits (62), Expect = 1.6
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 32 ESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQE----HQ 87
++ ++ + E L E L L++ELE E E +E +LE RL+E +
Sbjct: 323 AQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLE 382
Query: 88 ALQGDASDLKSSSAFSDLEVCQLKQEIE 115
L+ + L+ A + E+ +L+ +E
Sbjct: 383 TLRSKVAQLELQIASLNNEIERLEARLE 410
>gnl|CDD|172976 PRK14505, PRK14505, bifunctional photosynthetic reaction center
subunit L/M; Provisional.
Length = 643
Score = 30.8 bits (69), Expect = 0.11
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 11 YILGTLILIALTICWYVYRQKESSQQHLRRMMKDMEGLQRAEL 53
++LG+ +L+A+ V K S+ MM + G QRA+L
Sbjct: 531 FLLGSTLLLAMHGATIVATSKWKSEMEFTEMMAEGPGTQRAQL 573
>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 = 30.7 bits (70), Expect = 0.12
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 27/93 (29%)
Query: 32 ESSQQHLRRMMKDMEGLQRAELDL--------------ANLQKELERARQEQENA----- 72
E+S++ L + K++ L+ DL +++E+E+ R E E A
Sbjct: 430 EASKERLEDLEKELAELEEEYADLEEQWKAEKAAIQGIQQIKEEIEQVRLELEQAEREGD 489
Query: 73 ---ASE----KI-KLERRLQEHQALQGDASDLK 97
A+E K+ +LE+RLQ +A G+ + +
Sbjct: 490 LAKAAELQYGKLPELEKRLQAAEAKLGEETKPR 522
>gnl|CDD|222613 pfam14235, DUF4337, Domain of unknown function (DUF4337). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 187 and 201 amino
acids in length. There is a single completely conserved
residue Q that may be functionally important.
Length = 158
Score = 30.2 bits (69), Expect = 0.15
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 28 YRQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQE 85
+ Q +S +QHL + D+ L+ A A LQ ++ R ++E+ SE +LE + +E
Sbjct: 43 FYQAKSIKQHLAELAADLLELEAA-APRAELQAKIARYKKEKARYRSEAKELEAKAKE 99
>gnl|CDD|218896 pfam06098, Radial_spoke_3, Radial spoke protein 3. This family
consists of several radial spoke protein 3 (RSP3)
sequences. Eukaryotic cilia and flagella present in
diverse types of cells perform motile, sensory, and
developmental functions in organisms from protists to
humans. They are centred by precisely organised,
microtubule-based structures, the axonemes. The axoneme
consists of two central singlet microtubules, called the
central pair, and nine outer doublet microtubules. These
structures are well-conserved during evolution. The
outer doublet microtubules, each composed of A and B
sub-fibres, are connected to each other by nexin links,
while the central pair is held at the centre of the
axoneme by radial spokes. The radial spokes are T-shaped
structures extending from the A-tubule of each outer
doublet microtubule to the centre of the axoneme. Radial
spoke protein 3 (RSP3), is present at the proximal end
of the spoke stalk and helps in anchoring the radial
spoke to the outer doublet. It is thought that radial
spokes regulate the activity of inner arm dynein through
protein phosphorylation and dephosphorylation.
Length = 288
Score = 30.0 bits (68), Expect = 0.19
Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 3/78 (3%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQA 88
RQ++ + R ++ QR E ++E ER +++ + + + ++
Sbjct: 158 RQQQRQFEQRRNA--ELAETQRLEEAERRRREEKERRKKQDKERKQREKETAEKIAARAF 215
Query: 89 LQGDASDLKSSSAFSDLE 106
QG SDL + FS LE
Sbjct: 216 AQGYLSDLV-PNVFSSLE 232
>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 = 30.0 bits (68), Expect = 0.26
Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 5/92 (5%)
Query: 29 RQKESSQQHLRRMMKDMEG-LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQ 87
E S R ++D E L + E ++ L E+E +E E + KL E +
Sbjct: 304 ASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELK 363
Query: 88 A----LQGDASDLKSSSAFSDLEVCQLKQEIE 115
L+ + ++ A + E+ ++++E
Sbjct: 364 EELEDLRAELEEVDKEFAETRDELKDYREKLE 395
Score = 26.6 bits (59), Expect = 3.6
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 7/82 (8%)
Query: 38 LRRMMKDMEGLQRAELDLANLQKELERARQEQENAASE----KIKLERRLQEHQALQGDA 93
L+R+ + +EGL+R +L++LQ EL R + + E K+ +E + L+ +
Sbjct: 676 LQRLRERLEGLKR---ELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEE 732
Query: 94 SDLKSSSAFSDLEVCQLKQEIE 115
LK + ++ L+QEIE
Sbjct: 733 EKLKERLEELEEDLSSLEQEIE 754
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 29.5 bits (67), Expect = 0.30
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 9/65 (13%)
Query: 34 SQQHLRRMMKDMEGLQRAELDLANLQKELER-------ARQEQENAASEKIKLERRLQEH 86
++H R+ KD E Q D+A + E ++ A +E+EN + +L RL E
Sbjct: 566 LKKHNARIAKDPE-FQYINEDIARYKAEKDKNIVSLNYAEREKENDEDDAKRLA-RLNER 623
Query: 87 QALQG 91
+G
Sbjct: 624 FKREG 628
>gnl|CDD|220723 pfam10377, ATG11, Autophagy-related protein 11. The function of
this family is conflicting. In the fission yeast,
Schizosaccharomyces pombe, this protein has been shown
to interact with the telomere cap complex. However, in
budding yeast, Saccharomyces cerevisiae, this protein
is called ATG11 and is shown to be involved in
autophagy.
Length = 128
Score = 28.8 bits (65), Expect = 0.41
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 38 LRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEH 86
+ + KD+E L + LQKE + RQ+ EKI R +
Sbjct: 5 VIKRFKDVEQLAK------KLQKENKSKRQKLHKLQKEKIAF-RNFKVG 46
>gnl|CDD|220546 pfam10060, DUF2298, Uncharacterized membrane protein (DUF2298).
This domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 413
Score = 29.3 bits (66), Expect = 0.42
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 1 MINSTSHVKDYILGTLILIALTICWYVYRQKESSQQHL 38
+ H + L+L AL + +YR+KE ++ L
Sbjct: 182 FLLGDLHAHMLAIPFLLL-ALALALAIYRRKEEKRRIL 218
>gnl|CDD|235668 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
Length = 542
Score = 29.1 bits (66), Expect = 0.47
Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 12 ILGTLILIALTICWYVYR---QKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQE 68
L L+ L + ++V R + ++ L E E + A L+ EL +
Sbjct: 442 KLAAGALLILILIFFVLRPRLRPLLPEEELAEEEAAAEEAALEEDEEAALEVELSDDEEL 501
Query: 69 QENAASEKIKLERRLQE 85
+E A E++K E L+
Sbjct: 502 EEEKAEEELKYEDLLKR 518
>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 = 28.4 bits (64), Expect = 0.58
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 30 QKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLE---RRLQEH 86
+ + + L R+ K++ +++ + L +E R+E E LE RLQE+
Sbjct: 102 ELSTLEAELERLQKELARIKQLSANAIELDEENRELREELAELKQENEALEAENERLQEN 161
Query: 87 QALQ 90
+ +
Sbjct: 162 EQRR 165
Score = 28.4 bits (64), Expect = 0.70
Identities = 26/88 (29%), Positives = 46/88 (52%), Gaps = 4/88 (4%)
Query: 32 ESSQQHLRRMMKDMEGLQ--RAEL--DLANLQKELERARQEQENAASEKIKLERRLQEHQ 87
S+++ L + +++ LQ AEL LA LQ+E + +QE +E +L++ L +
Sbjct: 62 PSARERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIK 121
Query: 88 ALQGDASDLKSSSAFSDLEVCQLKQEIE 115
L +A +L + E+ +LKQE E
Sbjct: 122 QLSANAIELDEENRELREELAELKQENE 149
Score = 25.7 bits (57), Expect = 5.9
Identities = 15/52 (28%), Positives = 23/52 (44%)
Query: 48 LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSS 99
L E +L LQKEL R +Q NA + +E L+ + L++
Sbjct: 103 LSTLEAELERLQKELARIKQLSANAIELDEENRELREELAELKQENEALEAE 154
>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 = 28.7 bits (64), Expect = 0.62
Identities = 21/92 (22%), Positives = 45/92 (48%), Gaps = 4/92 (4%)
Query: 28 YRQKESSQQHLRRMMKDMEGLQ----RAELDLANLQKELERARQEQENAASEKIKLERRL 83
Q + +++ + R+ D+ +Q A+ +L L+ ELE R++ E E + E++L
Sbjct: 156 EDQLKEAKESISRIKNDLSEMQCRAQNADTELKLLESELEELREQLEECQKELAEAEKKL 215
Query: 84 QEHQALQGDASDLKSSSAFSDLEVCQLKQEIE 115
Q + Q ++D + E+ + +Q+ E
Sbjct: 216 QSLTSEQASSADNSVKIKHLEEELKRYEQDAE 247
>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria
with the myosin-like domain [Function unknown].
Length = 499
Score = 28.8 bits (64), Expect = 0.65
Identities = 23/88 (26%), Positives = 44/88 (50%), Gaps = 7/88 (7%)
Query: 30 QKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQ----E 85
++E+ +Q L ++ L +A+ +LA L K+ + + + A ++ +LE + Q
Sbjct: 117 EREAVRQELAAARQN---LAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQAS 173
Query: 86 HQALQGDASDLKSSSAFSDLEVCQLKQE 113
+ LQ A+ LKS L Q++QE
Sbjct: 174 QKQLQASATQLKSQVLDLKLRSAQIEQE 201
Score = 26.5 bits (58), Expect = 4.0
Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 1/88 (1%)
Query: 28 YRQKESSQQHLRRMMKDMEG-LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEH 86
RQ E+ Q L+ K ++ + + + +L+ + QE +N A+ + R +E
Sbjct: 160 RRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIEQEAQNLATRANAAQARTEEL 219
Query: 87 QALQGDASDLKSSSAFSDLEVCQLKQEI 114
A + D ++ Q Q+I
Sbjct: 220 ARRAAAAQQTAQAIQQRDAQISQKAQQI 247
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 28.5 bits (64), Expect = 0.65
Identities = 8/46 (17%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 44 DMEGLQRAELDLANLQKELERARQEQENAASEKIKLER-RLQEHQA 88
D E ++ + + QKE A++ + +K++ ++ + + Q
Sbjct: 70 DQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMDDQR 115
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 27.7 bits (63), Expect = 1.1
Identities = 22/78 (28%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 39 RRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKI-KLERRLQEHQALQGDASDLK 97
R D++ L + + LQ ELE + E+ NA S++I + +R+ ++ +AL + +LK
Sbjct: 21 RGFPLDVDELLELDEERRELQTELEELQAER-NALSKEIGQAKRKGEDAEALIAEVKELK 79
Query: 98 SSSAFSDLEVCQLKQEIE 115
+ E+ +L+ E+E
Sbjct: 80 EEIKALEAELDELEAELE 97
>gnl|CDD|221489 pfam12252, SidE, Dot/Icm substrate protein. This family of proteins
is found in bacteria. Proteins in this family are
typically between 397 and 1543 amino acids in length.
This family is the SidE protein in the Dot/Icm pathway of
Legionella pneumophila bacteria. There is little
literature describing the family.
Length = 1443
Score = 27.9 bits (62), Expect = 1.2
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 8/71 (11%)
Query: 44 DMEGLQRAELDLANLQKELERARQEQ--ENAASEKI------KLERRLQEHQALQGDASD 95
+++ +++A +L NLQ+E+ R E+ + ++K+ KLE++LQ DA
Sbjct: 1126 NLDVVKKAISNLNNLQQEVTLLRNEKIRMHTGTDKVDFSDIEKLEKQLQVIDTKLADAYL 1185
Query: 96 LKSSSAFSDLE 106
L+ + S LE
Sbjct: 1186 LEVTKQISALE 1196
>gnl|CDD|153342 cd07658, F-BAR_NOSTRIN, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase
TRaffic INducer (NOSTRIN). F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Nitric Oxide Synthase TRaffic
INducer (NOSTRIN) is expressed in endothelial and
epithelial cells and is involved in the regulation,
trafficking and targeting of endothelial NOS (eNOS).
NOSTRIN facilitates the endocytosis of eNOS by
coordinating the functions of dynamin and the
Wiskott-Aldrich syndrome protein (WASP). Increased
expression of NOSTRIN may be correlated to preeclampsia.
NOSTRIN contains an N-terminal F-BAR domain and a
C-terminal SH3 domain. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
The F-BAR domain of NOSTRIN is necessary and sufficient
for its membrane association and is responsible for its
subcellular localization.
Length = 239
Score = 27.7 bits (62), Expect = 1.2
Identities = 12/47 (25%), Positives = 20/47 (42%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASE 75
Q + ++ + K E +AE + LER R E E+A +
Sbjct: 168 VQDKEDEKLEAKRKKGEESRLKAENEYYTCCVRLERLRLEWESALRK 214
>gnl|CDD|216295 pfam01093, Clusterin, Clusterin.
Length = 434
Score = 27.8 bits (62), Expect = 1.2
Identities = 17/64 (26%), Positives = 35/64 (54%), Gaps = 3/64 (4%)
Query: 26 YVYRQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQE 85
YV + +++ +++M ME R E + NL LE+ ++E+E A ++E +L+E
Sbjct: 13 YVDEEVKNALIGVKQMKTLME---RTEEEHKNLMSTLEKTKKEKEEALKLANEVEEKLEE 69
Query: 86 HQAL 89
+ +
Sbjct: 70 EEEV 73
>gnl|CDD|222629 pfam14257, DUF4349, Domain of unknown function (DUF4349). This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 282 and
353 amino acids in length. There is a single completely
conserved residue D that may be functionally important.
Length = 262
Score = 27.6 bits (62), Expect = 1.3
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 6/59 (10%)
Query: 55 LANLQKELERARQEQENAAS--EKIKLERRLQEHQ----ALQGDASDLKSSSAFSDLEV 107
L L+ ER E A + + +++ER L Q +L+ L A+S + V
Sbjct: 141 LKALRASEERLLALLERAGTVEDLLEVERELSRVQAEIESLEAQLRYLDDRVAYSTITV 199
>gnl|CDD|148846 pfam07471, Phage_Nu1, Phage DNA packaging protein Nu1. Terminase,
the DNA packaging enzyme of bacteriophage lambda, is a
heteromultimer composed of subunits Nu1 and A. The
smaller Nu1 terminase subunit has a low-affinity ATPase
stimulated by non-specific DNA.
Length = 164
Score = 27.6 bits (61), Expect = 1.4
Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 20 ALTICWYVYRQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKL 79
A I WY R E + LR+ ++++ +E DL + ER R + A ++++K
Sbjct: 44 AAVIRWYAERDAEIENEKLRKEVEELR--AASESDLQPGTIDYERHRLTRAQADAQELKN 101
Query: 80 ERRLQE 85
R E
Sbjct: 102 ARDSAE 107
>gnl|CDD|173248 PRK14787, PRK14787, lipoprotein signal peptidase; Provisional.
Length = 159
Score = 27.3 bits (61), Expect = 1.6
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 12 ILGTLILIALTICWYVYRQK 31
+L I+ + WYV R K
Sbjct: 62 LLLLTGAISAGVLWYVLRSK 81
>gnl|CDD|236283 PRK08540, PRK08540, adenylosuccinate lyase; Reviewed.
Length = 449
Score = 27.2 bits (61), Expect = 1.8
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 38 LRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLER 81
L++M+ L RAE +L + +E A + A+++ +KLER
Sbjct: 25 LQKMLDVEAALARAEAELGLIPEE--AAEEINRKASTKYVKLER 66
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 27.4 bits (62), Expect = 1.9
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 7/48 (14%)
Query: 48 LQRAELDLANLQKELERAR----QEQ--ENAASEKIKLER-RLQEHQA 88
L R E +LA L+KE+ER E A E ++ ER +L E++
Sbjct: 813 LARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEE 860
Score = 25.5 bits (57), Expect = 9.7
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 54 DLANLQKELERARQEQENAASEKIKLERRL 83
L +++ EL R +E E ++E++L
Sbjct: 805 GLIDVEAELARLEKELAKLEKEIERVEKKL 834
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 27.2 bits (61), Expect = 1.9
Identities = 13/54 (24%), Positives = 27/54 (50%)
Query: 35 QQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQA 88
QQ ++ + + + +L N + LE + +++ A E + LE++L QA
Sbjct: 417 QQAVQALERAKQLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQA 470
Score = 26.5 bits (59), Expect = 4.2
Identities = 13/59 (22%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 32 ESSQQHLRRMMKDM---EGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQ 87
+++ HL + + E ++R + DL L++ LE + E A ++ + E R + +
Sbjct: 331 QAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAE 389
>gnl|CDD|114015 pfam05266, DUF724, Protein of unknown function (DUF724). This
family contains several uncharacterized proteins found
in Arabidopsis thaliana and other plants. This region is
often found associated with Agenet domains and may
contain coiled-coil.
Length = 190
Score = 27.0 bits (60), Expect = 1.9
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 54 DLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSDLEVCQLKQE 113
+ L+KE+ ++ SE +LER++ E Q + K + D E+ +LK E
Sbjct: 111 ERKGLEKEIAEKEISRQELDSEIAELERKILELQRQAALLKEKKEA---EDKEIARLKSE 167
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 27.2 bits (61), Expect = 2.1
Identities = 11/64 (17%), Positives = 27/64 (42%), Gaps = 4/64 (6%)
Query: 29 RQKESSQQHLRRMMKDMEGL----QRAELDLANLQKELERARQEQENAASEKIKLERRLQ 84
R+K SQ +++ L E L+ +LE+ +++ + E+ + + +
Sbjct: 163 REKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAETSQERKQKRKEIT 222
Query: 85 EHQA 88
+ A
Sbjct: 223 DQAA 226
Score = 25.7 bits (57), Expect = 8.1
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 55 LANLQKELERARQEQENAASEK----IKLERRLQEHQALQGDASDLKSSSAFSDLEVCQL 110
L LQ+E+ +Q+ E A EK E + QE AL+G A++L+ + ++ QL
Sbjct: 144 LHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQL 203
Query: 111 KQE 113
+++
Sbjct: 204 QEK 206
>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 193
Score = 26.9 bits (60), Expect = 2.1
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 46 EGLQRAELDLANLQKELERARQEQENAASEKIKLE 80
+ RA+ + NL+K ER R+E + A EK +
Sbjct: 57 DKYLRAQAEFENLRKRTEREREEAKKYAIEKFAKD 91
>gnl|CDD|184281 PRK13729, PRK13729, conjugal transfer pilus assembly protein TraB;
Provisional.
Length = 475
Score = 27.1 bits (60), Expect = 2.3
Identities = 11/50 (22%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 56 ANLQKELERARQEQENAASEK----IKLERRLQEHQALQGDASDLKSSSA 101
A +QK+ E R+E + ++ ++E+ Q++ AL L ++
Sbjct: 79 AQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGANPV 128
>gnl|CDD|237560 PRK13922, PRK13922, rod shape-determining protein MreC;
Provisional.
Length = 276
Score = 26.9 bits (60), Expect = 2.6
Identities = 18/105 (17%), Positives = 43/105 (40%), Gaps = 24/105 (22%)
Query: 16 LILIALTICWYVYRQKESSQQHLRRMMKDM----------------EGLQRAELDLANLQ 59
++L+ L + + ++ S +R+++ D+ + L +L+
Sbjct: 17 ILLLLLALALLLADRRLGSLSPVRQVVGDVVSPVQRVVNAPREFVSGVFESLA-SLFDLR 75
Query: 60 KELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSD 104
+E E ++E +LE RLQE + L+ + + L+ +
Sbjct: 76 EENEELKKELL-------ELESRLQELEQLEAENARLRELLNLKE 113
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 27.0 bits (61), Expect = 2.8
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 54 DLANLQKELERARQEQENAASEKIK 78
+L L+KELE+ + + AA+ +
Sbjct: 727 ELKELEKELEQLKAKLAAAAAGDLL 751
>gnl|CDD|213395 cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits with a stoichiometry of 3:3:1:1:1.
Alpha and beta subunit form the globular catalytic
moiety, a hexameric ring of alternating subunits. Gamma,
delta and epsilon subunits form a stalk, connecting F1
to F0, the integral membrane proton translocating
domain. In bacteria, which is lacking a eukaryotic
epsilon subunit homolog, this subunit is called the
epsilon subunit.
Length = 123
Score = 26.3 bits (59), Expect = 2.8
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 51 AELDLANLQKELERARQEQENAASEK------IKLERRLQ 84
++D+ ++ LERA + A E+ LER L
Sbjct: 84 EDIDVERAEEALERAEERLAQAKDEREKARAEAALERALA 123
>gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 26.8 bits (60), Expect = 2.9
Identities = 13/52 (25%), Positives = 27/52 (51%)
Query: 32 ESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRL 83
ES ++ LR ++ ++E +E+DL L +E++ R+ K ++ L
Sbjct: 553 ESLKKKLRWLLPEIEFKPLSEVDLEELLREIDEDRERIRRVERSKDLIKTTL 604
>gnl|CDD|220368 pfam09730, BicD, Microtubule-associated protein Bicaudal-D. BicD
proteins consist of three coiled-coiled domains and are
involved in dynein-mediated minus end-directed transport
from the Golgi apparatus to the endoplasmic reticulum
(ER). For full functioning they bind with GSK-3beta
pfam05350 to maintain the anchoring of microtubules to
the centromere. It appears that amino-acid residues
437-617 of BicD and the kinase activity of GSK-3 are
necessary for the formation of a complex between BicD
and GSK-3beta in intact cells.
Length = 711
Score = 26.7 bits (59), Expect = 2.9
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 10/60 (16%)
Query: 55 LANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSDLEVCQLKQEI 114
+ LQ EL++ R E N +E ER Q +LK + +L+ +L+ EI
Sbjct: 36 ILELQAELKQLRAELSNVQAE---NERLSSLSQ-------ELKEENEMLELQRGRLRDEI 85
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175).
Length = 820
Score = 26.8 bits (60), Expect = 2.9
Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 12/76 (15%)
Query: 30 QKESSQQHLRRMMKDMEGLQR------AELDLANLQKELE-----RARQEQENAASEKI- 77
E +QQ L+RMM +E L A+ L LQ+ +E + Q ++ + +
Sbjct: 532 SMELTQQDLQRMMDRIEELMESGRRAEAQQLLEQLQQMMENLQVTQGGQGGQSEMQQAME 591
Query: 78 KLERRLQEHQALQGDA 93
L L+E Q L +
Sbjct: 592 GLGETLREQQGLSDET 607
>gnl|CDD|233594 TIGR01844, type_I_sec_TolC, type I secretion outer membrane
protein, TolC family. Members of This model are outer
membrane proteins from the TolC subfamily within the RND
(Resistance-Nodulation-cell Division) efflux systems.
These proteins, unlike the NodT subfamily, appear not to
be lipoproteins. All are believed to participate in type
I protein secretion, an ABC transporter system for
protein secretion without cleavage of a signal sequence,
although they may, like TolC, participate also in the
efflux of smaller molecules as well. This family
includes the well-documented examples TolC (E. coli),
PrtF (Erwinia), and AprF (Pseudomonas aeruginosa)
[Protein fate, Protein and peptide secretion and
trafficking, Transport and binding proteins, Porins].
Length = 415
Score = 26.6 bits (59), Expect = 3.2
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENA 72
+Q S+Q+ L ++ + R LD+ N ++EL +ARQE NA
Sbjct: 340 QQVASAQKALDAYRQEYQVGTRTLLDVLNAEQELYQARQELANA 383
>gnl|CDD|227285 COG4949, COG4949, Uncharacterized membrane-anchored protein
conserved in bacteria [Function unknown].
Length = 424
Score = 26.8 bits (59), Expect = 3.3
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 15/62 (24%)
Query: 39 RRMMKDMEGLQRAELDLANLQKELERA-------------RQEQE--NAASEKIKLERRL 83
RR+ M Q E ANL ++L RA RQ QE N+ + +L+ RL
Sbjct: 298 RRLAPAMRTCQSVEERQANLSRKLARATALLRTWIDVELERQNQELLNSMDARAQLQLRL 357
Query: 84 QE 85
Q+
Sbjct: 358 QQ 359
>gnl|CDD|217838 pfam04004, Leo1, Leo1-like protein. Members of this family are
part of the Paf1/RNA polymerase II complex. The Paf1
complex probably functions during the elongation phase
of transcription. The Leo1 subunit of the yeast
Paf1-complex binds RNA and contributes to complex
recruitment. The subunit acts by co-ordinating
co-transcriptional chromain modifications and helping
recruitment of mRNA 3prime-end processing factors.
Length = 312
Score = 26.4 bits (58), Expect = 3.4
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQA 88
RQ++S + + KD E +R +KE ++ R + EK+K + +
Sbjct: 219 RQRKSGGVKITIVGKDPEHEKRE-----REKKEEQKLRARRRRQNREKMKNKPPNRPGHG 273
Query: 89 LQGDASDLKSSSAFSDLE 106
D++ K+++ +S+ E
Sbjct: 274 SGSDSNVAKAATTYSEDE 291
>gnl|CDD|216275 pfam01063, Aminotran_4, Aminotransferase class IV. The D-amino
acid transferases (D-AAT) are required by bacteria to
catalyze the synthesis of D-glutamic acid and
D-alanine, which are essential constituents of
bacterial cell wall and are the building block for
other D-amino acids. Despite the difference in the
structure of the substrates, D-AATs and L-ATTs have
strong similarity.
Length = 231
Score = 26.3 bits (58), Expect = 3.4
Identities = 9/45 (20%), Positives = 23/45 (51%)
Query: 35 QQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKL 79
+HL R+ + + L L + +L+K ++ + A S ++++
Sbjct: 4 DEHLERLRRSAKALIGLPLSIEDLRKIIQELLEANGPAGSGRLRI 48
>gnl|CDD|192987 pfam12325, TMF_TATA_bd, TATA element modulatory factor 1 TATA
binding. This is the C-terminal conserved coiled coil
region of a family of TATA element modulatory factor 1
proteins conserved in eukaryotes. The proteins bind to
the TATA element of some RNA polymerase II promoters
and repress their activity. by competing with the
binding of TATA binding protein. TMF1_TATA_bd is the
most conserved part of the TMFs. TMFs are
evolutionarily conserved golgins that bind Rab6, a
ubiquitous ras-like GTP-binding Golgi protein, and
contribute to Golgi organisation in animal and plant
cells. The Rab6-binding domain appears to be the same
region as this C-terminal family.
Length = 121
Score = 26.0 bits (58), Expect = 3.6
Identities = 10/44 (22%), Positives = 25/44 (56%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENA 72
+++ ++Q + ++ ++ E L+ + ++ L+KELE Q E
Sbjct: 45 AERDEARQEIVKLTEENEELRELKKEIEELEKELEDLEQRYETT 88
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 26.3 bits (58), Expect = 4.1
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 28 YRQKESSQQHLRRMMKDMEG-LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEH 86
R + L +K +E L++ E L L+ ELE +E+ A + + L+E
Sbjct: 310 LRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEER 369
>gnl|CDD|215212 PLN02372, PLN02372, violaxanthin de-epoxidase.
Length = 455
Score = 26.3 bits (58), Expect = 4.5
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 45 MEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLK 97
EGL+ E D N KEL + +E KL+ E + L G A ++
Sbjct: 409 EEGLKELEQDEENFLKELSKEEKELLE------KLKMEASEVEKLFGRALPVR 455
>gnl|CDD|203115 pfam04896, AmoC, Ammonia monooxygenase/methane monooxygenase,
subunit C. Ammonia monooxygenase plays a key role in
the nitrogen cycle and degrades a wide range of
hydrocarbons and halogenated hydrocarbons. This family
represents the AmoC subunit. It also includes the
particulate methane monooxygenase subunit PmoC from
methanotrophic bacteria.
Length = 241
Score = 26.2 bits (58), Expect = 4.7
Identities = 6/22 (27%), Positives = 8/22 (36%)
Query: 9 KDYILGTLILIALTICWYVYRQ 30
K Y G ++ I Y Q
Sbjct: 8 KPYKFGLAAILVFYIGVRWYEQ 29
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 26.0 bits (58), Expect = 4.7
Identities = 10/40 (25%), Positives = 23/40 (57%)
Query: 36 QHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASE 75
++L ++ +++ L +E L L+KE+++ + E AA
Sbjct: 325 EYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLEAAEA 364
>gnl|CDD|131425 TIGR02372, 4_coum_CoA_lig, 4-coumarate--CoA ligase, photoactive
yellow protein activation family. This model represents
the 4-coumarate--CoA ligase associated with biosynthesis
of the 4-hydroxy cinnamyl (also called 4-coumaroyl)
chromophore covalently linked to a Cys residue in
photoactive yellow protein of Rhodobacter spp. and
Ectothiorhodospira halophila. This enzyme is designated
6.2.1.12 and therefore joins a number of plant enzymes
linked to lignin biosynthesis and given similar names.
Length = 386
Score = 26.0 bits (57), Expect = 4.7
Identities = 11/60 (18%), Positives = 20/60 (33%)
Query: 44 DMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFS 103
D E L L +L + + + + + RR+ E L S + F+
Sbjct: 43 DEETLGLDSLLRLSLVTAVAGFFHLSDTGTEDYLLVRRRIGEWVDLIAHHSTPTARFTFA 102
>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
Length = 613
Score = 26.2 bits (59), Expect = 5.0
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 49 QRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSDLEVC 108
R +LDL +E + +E+E A E L RL+E AL D++ S +D C
Sbjct: 470 ARGDLDLGKEDEEEK---EEKEEAEEEFKPLLERLKE--ALGDKVKDVRLSHRLTDSPAC 524
>gnl|CDD|140267 PTZ00240, PTZ00240, 60S ribosomal protein P0; Provisional.
Length = 323
Score = 26.1 bits (57), Expect = 5.3
Identities = 13/73 (17%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 33 SSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGD 92
S Q H R + + G + LQ ++ R + + A++E + +E L G+
Sbjct: 35 SQQVHDVR--RALRGKAEFVMGKKTLQAKIVEKRAQAKKASAEAKLFNDQCEEKNLLSGN 92
Query: 93 ASDLKSSSAFSDL 105
+ +++ ++
Sbjct: 93 TGLIFTNNEVQEI 105
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 25.9 bits (57), Expect = 5.4
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 1/88 (1%)
Query: 29 RQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQA 88
+ E ++ +RR K++E + L+L K+ E Q E A E + RRL+E A
Sbjct: 12 ERMEQMEEDMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELEEENRRLEEEAA 71
Query: 89 LQ-GDASDLKSSSAFSDLEVCQLKQEIE 115
+ L++ + EV +L++E E
Sbjct: 72 ASEEERERLEAEVDEATAEVAKLEEERE 99
>gnl|CDD|227543 COG5218, YCG1, Chromosome condensation complex Condensin, subunit G
[Chromatin structure and dynamics / Cell division and
chromosome partitioning].
Length = 885
Score = 26.1 bits (57), Expect = 5.9
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 38 LRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLK 97
+RR+M+ +G R++ +L +++K+LE Q+ + K E + K
Sbjct: 820 IRRLMEQDDGDPRSQEELCDVKKDLENM-SIQDTSTVAKNVSFVLPDEKSDAMSIDEEDK 878
Query: 98 SSSAFS 103
S +FS
Sbjct: 879 DSESFS 884
>gnl|CDD|149865 pfam08930, DUF1912, Domain of unknown function (DUF1912). This
domain has no known function. It is found in various
Streptococcal proteins.
Length = 84
Score = 24.8 bits (54), Expect = 6.3
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 42 MKDMEG-----LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDL 96
+KD E +Q ++ +A QK E E+ A I+ E +L ++ LQG +
Sbjct: 8 LKDFEEWVKTQIQINQMAMAASQKVAEEDGDER--AKDAYIRYESKLDAYEFLQGKFENY 65
Query: 97 KSSSAFSDL 105
K+ F DL
Sbjct: 66 KNGKGFHDL 74
>gnl|CDD|224739 COG1826, TatA, Sec-independent protein secretion pathway
components [Intracellular trafficking and secretion].
Length = 94
Score = 25.0 bits (55), Expect = 6.7
Identities = 12/62 (19%), Positives = 22/62 (35%), Gaps = 6/62 (9%)
Query: 38 LRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLK 97
++ D++ ELD +EL+ ++E A + E Q L+ D
Sbjct: 39 FKKAASDVK----NELDEELKLEELDDKKKELT--AELQATKEELDQLASELKEDLKKKA 92
Query: 98 SS 99
Sbjct: 93 KP 94
>gnl|CDD|221200 pfam11743, DUF3301, Protein of unknown function (DUF3301). This
family is conserved in Proteobacteria, but the function
is not known.
Length = 97
Score = 24.8 bits (55), Expect = 6.9
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 16 LILIALTICWYVY---RQKESSQQHLRRMMKDMEGLQ 49
L+L+ + + +Q+E + Q RR K + LQ
Sbjct: 4 LLLLLAFVAALWWQQRKQRERALQAARRYCKKL-DLQ 39
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 25.8 bits (57), Expect = 7.0
Identities = 10/68 (14%), Positives = 26/68 (38%)
Query: 32 ESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQG 91
+S + + A+L +K+ E + ++ S +ER+ QE +
Sbjct: 58 DSELRKFQTREAAKVKDAEAQLLKDPAEKKREERKAAKKIERSTPSLIERKTQEVKDSGE 117
Query: 92 DASDLKSS 99
+ +++
Sbjct: 118 EIAEMMRD 125
>gnl|CDD|153358 cd07674, F-BAR_FCHO1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH domain Only 1
protein. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
FCH domain Only 1 (FCHO1) may be involved in
clathrin-coated vesicle formation. It contains an
N-terminal F-BAR domain and a C-terminal domain of
unknown function named SAFF which is also present in
FCHO2 and endophilin interacting protein 1. F-BAR
domains form banana-shaped dimers with a
positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 261
Score = 25.7 bits (56), Expect = 7.1
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 11/106 (10%)
Query: 9 KDYILGTLILIALTICWYVYRQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQE 68
K+ +GTL + + QK H + + + E L+R QKELE+A +
Sbjct: 105 KEEAIGTLEAVQSLQVQSQHLQKSRENYHSKCV--EQERLRRE----GVPQKELEKAELK 158
Query: 69 QENAASEKIKLERRLQEHQALQGDASD--LKSSSAFSDLEVCQLKQ 112
+ AA L ++++ +GD L+S+ F D+E L+
Sbjct: 159 TKKAAES---LRGSVEKYNRARGDFEQKMLESAQKFQDIEETHLRH 201
>gnl|CDD|233228 TIGR00998, 8a0101, efflux pump membrane protein (multidrug
resistance protein A). [Transport and binding proteins,
Other].
Length = 334
Score = 25.5 bits (56), Expect = 7.2
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 46 EGLQRAELDLANLQKELERARQEQENAASEKI---KLERRLQEHQA 88
E L A L + + L A QEQ NA + L+++ +A
Sbjct: 146 EELDHARKALLSAKAALNAAIQEQLNANQALVRGTPLKKQPAVQEA 191
>gnl|CDD|148617 pfam07111, HCR, Alpha helical coiled-coil rod protein (HCR). This
family consists of several mammalian alpha helical
coiled-coil rod HCR proteins. The function of HCR is
unknown but it has been implicated in psoriasis in
humans and is thought to affect keratinocyte
proliferation.
Length = 739
Score = 25.8 bits (56), Expect = 7.3
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 30 QKESSQQHLRRMMKDME-GLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQA 88
Q E +Q L + + +E LQ ++ LA+ +LE AR Q+ + E L + L + Q
Sbjct: 511 QGEEERQRLAEVAQQLERELQESQESLASAGAQLEAARAGQQESTEEAASLRQELTQQQE 570
Query: 89 LQGDA 93
+ G A
Sbjct: 571 VYGQA 575
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 25.7 bits (56), Expect = 7.5
Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 34 SQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQAL 89
SQ+ +R + E L + ++D Q++ + A Q+NA ++ ++ ++ QE + L
Sbjct: 208 SQEDAKRAQQLKEELDKKQIDADKAQQKADFA---QDNADKQRDEVRQKQQEAKNL 260
Score = 25.3 bits (55), Expect = 8.2
Identities = 12/61 (19%), Positives = 27/61 (44%), Gaps = 4/61 (6%)
Query: 31 KESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQEN----AASEKIKLERRLQEH 86
KE + K + A+ + + E+ + +QE +N A + K ++++ E+
Sbjct: 219 KEELDKKQIDADKAQQKADFAQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAEN 278
Query: 87 Q 87
Q
Sbjct: 279 Q 279
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 25.6 bits (57), Expect = 7.8
Identities = 16/86 (18%), Positives = 39/86 (45%), Gaps = 11/86 (12%)
Query: 30 QKESSQQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQAL 89
+ + QQ L + + ++ + R + + L+++L +A + A + L +AL
Sbjct: 57 EDKLVQQDLEQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQA-------QAEL---EAL 106
Query: 90 QGDASDLKSSSAFSDLEVCQLKQEIE 115
+ D + ++ S L + QL+ +
Sbjct: 107 KDDNDE-ETRETLSTLSLRQLESRLA 131
>gnl|CDD|130728 TIGR01667, YCCS_YHJK, integral membrane protein, YccS/YhfK family.
This model represents two clades of putative
transmembrane proteins including the E. coli YccS and
YhfK proteins. The YccS hypothetical equivalog
(TIGR01666) is found in beta and gamma proteobacteria,
while the smaller YhfK group is only found in E. coli,
Salmonella and Yersinia. TMHMM on the 19 hits to this
model shows a consensus of 11 transmembrane helices
separated into two clusters, an N-terminal cluster of 6
and a central cluster of 5. This would indicate two
non-membrane domains one on each side of the membrane.
Length = 701
Score = 25.6 bits (56), Expect = 8.3
Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 2/60 (3%)
Query: 39 RRMMKDMEGLQRAELDLANLQKELER--ARQEQENAASEKIKLERRLQEHQALQGDASDL 96
R + + E + K ++R AR E + A QE Q + A L
Sbjct: 620 RERLLNPELAAELLQACEIVAKAIQRCQARLEYDEEALAGDANIMEAQEMQPHEDAAGTL 679
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 25.5 bits (56), Expect = 8.3
Identities = 8/60 (13%), Positives = 22/60 (36%), Gaps = 7/60 (11%)
Query: 35 QQHLRRMMKDMEGLQRAELDLANLQKELERARQEQENA----ASEKIKLERRLQEHQALQ 90
+ ++ + LA ++ E+ + E +++ KL + L+E +
Sbjct: 156 NPARAERIDALKATLK---QLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTL 212
>gnl|CDD|227132 COG4795, PulJ, Type II secretory pathway, component PulJ
[Intracellular trafficking and secretion].
Length = 194
Score = 25.1 bits (55), Expect = 8.5
Identities = 20/86 (23%), Positives = 32/86 (37%), Gaps = 12/86 (13%)
Query: 15 TLI--LIALTI-------CWYVYRQKESSQQHLRRMMKDMEGLQRAELDLANLQKELERA 65
TL+ L+AL I + + S Q ++ LQRA +A L+++L RA
Sbjct: 10 TLLEVLVALAIFALLLLLAFRFLDSAQRSNQASEARLQREAELQRA---MALLERDLRRA 66
Query: 66 RQEQENAASEKIKLERRLQEHQALQG 91
+ + E E Q
Sbjct: 67 GFRRGRCTGPRSNEELFEGEGQGDPC 92
>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 25.3 bits (56), Expect = 8.6
Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 20/93 (21%)
Query: 25 WYVY------RQKESSQQHLRRMMKDMEGLQRAELDLANLQ------------KELERAR 66
W VY Q E S+Q L R++ +E ++ +L+L N+Q E E+A
Sbjct: 68 WAVYFLSVVVEQLEESRQRLSRLVAKLEEMRERDLEL-NVQLKDNIAQLNQEIAEREKAE 126
Query: 67 QEQENAASE-KIKLERRLQEHQALQGDASDLKS 98
+ ++ A + K +++ R + L+ +S L+S
Sbjct: 127 EARQEAFEQLKNEIKEREETQIELEQQSSLLRS 159
>gnl|CDD|220400 pfam09785, Prp31_C, Prp31 C terminal domain. This is the C
terminal domain of the pre-mRNA processing factor Prp31.
Prp31 is required for U4/U6.U5 tri-snRNP formation. In
humans this protein has been linked to autosomal
dominant retinitis pigmentosa.
Length = 124
Score = 25.0 bits (55), Expect = 8.6
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 78 KLERRLQEHQALQGDASDLKSSSAFSDLE 106
K+++RLQ A G S SS AF+ L+
Sbjct: 89 KMKKRLQSSGATNGGVSGTASSLAFTPLQ 117
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 25.4 bits (56), Expect = 9.3
Identities = 15/53 (28%), Positives = 30/53 (56%)
Query: 46 EGLQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKS 98
E L E +LA L +E+ER +++E A + + + L+EH+ + + L++
Sbjct: 206 ERLNGLESELAELDEEIERYEEQREQARETRDEADEVLEEHEERREELETLEA 258
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 25.2 bits (56), Expect = 9.7
Identities = 11/48 (22%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 55 LANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAF 102
+ L++++ + + + +E KLER L+ L+ + LKS
Sbjct: 10 NSELEEQIRQLELKLRDLEAENEKLERELER---LKSELEKLKSPPLI 54
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
0.315 0.127 0.340
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,531,768
Number of extensions: 472921
Number of successful extensions: 1998
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1796
Number of HSP's successfully gapped: 533
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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 (24.0 bits)