RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4671
(104 letters)
>gnl|CDD|240283 PTZ00127, PTZ00127, cytochrome c oxidase assembly protein;
Provisional.
Length = 403
Score = 97.0 bits (242), Expect = 3e-25
Identities = 41/93 (44%), Positives = 52/93 (55%)
Query: 5 KFTENPTTVQFDHRVLGISVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVALGIT 64
F EN VQF+HRVL F Y+ RKL LP L + G +QV LGIT
Sbjct: 310 NFFENTAVVQFNHRVLAYLTFLSSLGLYYKARKLNLPKSVRRLLMALLGALTLQVLLGIT 369
Query: 65 TLLTYVPVSIAALHQSGSLILLSMALWLSHEMK 97
TLL+ VPV +A HQ G+L+LL+ L L H ++
Sbjct: 370 TLLSQVPVHLAVAHQFGALVLLTTLLRLCHVLR 402
>gnl|CDD|217153 pfam02628, COX15-CtaA, Cytochrome oxidase assembly protein. This
is a family of integral membrane proteins. CtaA is
required for cytochrome aa3 oxidase assembly in Bacillus
subtilis. COX15 is required for cytochrome c oxidase
assembly in yeast.
Length = 301
Score = 63.4 bits (155), Expect = 2e-13
Identities = 30/90 (33%), Positives = 44/90 (48%)
Query: 1 MFVNKFTENPTTVQFDHRVLGISVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVA 60
F ENP TVQF HR+ F LL A + + A + + +QVA
Sbjct: 212 PDWRNFFENPATVQFLHRLGAYLTFLLLLALAVAAARRRRRPALRRAALLLLALLLLQVA 271
Query: 61 LGITTLLTYVPVSIAALHQSGSLILLSMAL 90
LGI T+L +P+ +A HQ G+ +LL+ +
Sbjct: 272 LGILTVLLGLPLWLALAHQLGAALLLAALV 301
Score = 25.7 bits (57), Expect = 5.7
Identities = 20/88 (22%), Positives = 34/88 (38%), Gaps = 4/88 (4%)
Query: 18 RVLGISVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVALG-ITTLLTYVPVSIAA 76
R+LG+ + L + R + L L + G+ Q LG T V A
Sbjct: 76 RLLGLLILVPLVWFWRRRRIPRRLKWLLLLLLLLVGL---QGLLGWWTVTSGLVSPYRLA 132
Query: 77 LHQSGSLILLSMALWLSHEMKHVKRLVK 104
H + +LL++ LWL+ ++
Sbjct: 133 AHLLLAFLLLALLLWLALRLREPDPAPA 160
>gnl|CDD|224528 COG1612, CtaA, Uncharacterized protein required for cytochrome
oxidase assembly [Posttranslational modification,
protein turnover, chaperones].
Length = 323
Score = 58.2 bits (141), Expect = 2e-11
Identities = 31/88 (35%), Positives = 46/88 (52%), Gaps = 1/88 (1%)
Query: 6 FTENPTTVQFDHRVLGISVF-SLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVALGIT 64
E+P TVQF HR+ VF + L R+ L A + + +Q ALGI
Sbjct: 222 LGESPETVQFVHRLGAYLVFVAALLLLVAALRRAPLTRAARTRAVVLLALVTLQAALGIL 281
Query: 65 TLLTYVPVSIAALHQSGSLILLSMALWL 92
T+L VP+++A HQ+ +L+LL+ AL
Sbjct: 282 TVLLGVPLALALAHQAAALVLLATALLH 309
Score = 29.7 bits (67), Expect = 0.23
Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 13 VQFDHRVL-GISVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVALGITTLLTYVP 71
+++ HR+L G+ +L R+ ++ LA + +Q +G T+ + +
Sbjct: 77 IEWFHRLLAGLIGLLVLLLAILAWRRRRISRELKLAAILALALLILQGLIGGWTVTSGLL 136
Query: 72 VSIAALHQSGSLILLSMALWL 92
I A H ++ L + + L
Sbjct: 137 PRIVASHLRLAMHLFAALVIL 157
>gnl|CDD|234031 TIGR02840, spore_YtaF, putative sporulation protein YtaF. This
protein family was identified, at the time of the
publication of the Carboxydothermus hydrogenoformans
genome, as having a phylogenetic profile that exactly
matches the subset of the Firmicutes capable of forming
endospores. The species include Bacillus anthracis,
Clostridium tetani, Thermoanaerobacter tengcongensis,
Geobacillus kaustophilus, etc. This protein, previously
named YtaF, is therefore a putative sporulation protein
[Cellular processes, Sporulation and germination].
Length = 206
Score = 28.4 bits (64), Expect = 0.59
Identities = 14/58 (24%), Positives = 36/58 (62%), Gaps = 4/58 (6%)
Query: 36 RKLKLPGRANLALACVTGMAYMQVALGITTLLT-YVPVSIAALHQSGSLILLSMALWL 92
RK+K+P +NL +A ++G+ ++ +++ + L ++P + G+ IL+++ +W+
Sbjct: 24 RKIKIPFLSNLIIAVISGL-FIFISMLLGKFLAKFLPPKVTE--ILGAFILIAIGIWI 78
>gnl|CDD|133201 cd05070, PTKc_Fyn_Yrk, Catalytic domain of the Protein Tyrosine
Kinases, Fyn and Yrk. Protein Tyrosine Kinase (PTK)
family; Fyn and Yrk kinases; catalytic (c) domain. The
PTKc family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
protein serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Fyn and
Yrk are members of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Fyn, together with Lck, plays a
critical role in T-cell signal transduction by
phosphorylating ITAM (immunoreceptor tyr activation
motif) sequences on T-cell receptors, ultimately leading
to the proliferation and differentiation of T-cells. In
addition, Fyn is involved in the myelination of neurons,
and is implicated in Alzheimer's and Parkinson's
diseases. Yrk has been detected only in chickens. It is
primarily found in neuronal and epithelial cells and in
macrophages. It may play a role in inflammation and in
response to injury.
Length = 260
Score = 27.3 bits (60), Expect = 1.2
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 35 GRKLKLPGRANLALACVTGMAYMQ 58
GR LKLP ++A GMAY++
Sbjct: 96 GRALKLPNLVDMAAQVAAGMAYIE 119
>gnl|CDD|151184 pfam10688, Imp-YgjV, Bacterial inner membrane protein. This is a
family of inner membrane proteins. Many of the members
are YgjV protein.
Length = 164
Score = 25.6 bits (57), Expect = 4.0
Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 7/79 (8%)
Query: 20 LGISVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQVALGITTLLTYVPVSIAALHQ 79
+S L + R + LAL+ V +A Q + ++ V + A
Sbjct: 55 ALLSAVRYLLSIRTRSRWVMW---LFLALSLVATLATWQGWSELLPIIGSVLGTWALFML 111
Query: 80 SG----SLILLSMALWLSH 94
SG L+L+ + WL H
Sbjct: 112 SGIRMRLLMLVGTSCWLIH 130
>gnl|CDD|201524 pfam00954, S_locus_glycop, S-locus glycoprotein family. In
Brassicaceae, self-incompatible plants have a
self/non-self recognition system. This is
sporophytically controlled by multiple alleles at a
single locus (S). S-locus glycoproteins, as well as
S-receptor kinases, are in linkage with the S-alleles.
Length = 110
Score = 25.3 bits (56), Expect = 4.2
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 2 FVNKFTENPTTVQFDHRVLGISVFSLLT 29
+V FTEN V + +R+ S++S LT
Sbjct: 23 YVYNFTENNEEVYYTYRMTNNSIYSRLT 50
>gnl|CDD|233155 TIGR00860, LIC, Cation transporter family protein. The
Ligand-gated Ion Channel (LIC) Family of
Neurotransmitter Receptors TC 1.A.9)Members of the LIC
family of ionotropic neurotransmitter receptors are
found only in vertebrate and invertebrate animals. They
exhibit receptor specificity for (1)acetylcholine, (2)
serotonin, (3) glycine, (4) glutamate and (5)
g-aminobutyric acid (GABA). All of these receptor
channels are probably hetero- orhomopentameric. The best
characterized are the nicotinic acetyl-choline receptors
which are pentameric channels of a2bgd subunit
composition. All subunits arehomologous. The three
dimensional structures of the protein complex in both
the open and closed configurations have been solved at
0.9 nm resolution.The channel protein complexes of the
LIC family preferentially transport cations or anions
depending on the channel (e.g., the acetylcholine
receptors are cationselective while glycine receptors
are anion selective) [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 459
Score = 25.8 bits (57), Expect = 5.1
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 59 VALGITTLLTY 69
V+LGITTLLT
Sbjct: 273 VSLGITTLLTM 283
>gnl|CDD|185351 PRK15454, PRK15454, ethanol dehydrogenase EutG; Provisional.
Length = 395
Score = 25.8 bits (56), Expect = 5.9
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 40 LPGRANLALA-CVTGMAYMQVALGITTLLTYVPVSIAALH 78
L R ++ LA C+ GMA+ LG+ + + P AALH
Sbjct: 255 LAARESMLLASCMAGMAFSSAGLGLCHAMAHQPG--AALH 292
>gnl|CDD|178178 PLN02564, PLN02564, 6-phosphofructokinase.
Length = 484
Score = 25.5 bits (56), Expect = 7.4
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 80 SGSLILLSMALWLSHEMK 97
SG+ +LL + LWLS ++K
Sbjct: 335 SGNKLLLDVGLWLSQKIK 352
>gnl|CDD|182595 PRK10624, PRK10624, L-1,2-propanediol oxidoreductase; Provisional.
Length = 382
Score = 25.0 bits (55), Expect = 8.2
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 39 KLPGRANLALA-CVTGMAYMQVALGI 63
+AL + GM + V LG+
Sbjct: 235 DKEAGEGMALGQYIAGMGFSNVGLGL 260
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 25.0 bits (55), Expect = 9.5
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 12/39 (30%)
Query: 71 PVSIAALHQ-------SGSLILLSMALWLSHEMKHVKRL 102
PV++ L G+ I+ S SH M+HV+ L
Sbjct: 163 PVNVELLKDAIFELKEEGATIIFS-----SHRMEHVEEL 196
>gnl|CDD|133202 cd05071, PTKc_Src, Catalytic domain of the Protein Tyrosine Kinase,
Src. Protein Tyrosine Kinase (PTK) family; Src kinase;
catalytic (c) domain. The PTKc family is part of a
larger superfamily that includes the catalytic domains
of other kinases such as protein serine/threonine
kinases, RIO kinases, and phosphoinositide 3-kinase
(PI3K). PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. Src (or c-Src) is a
cytoplasmic (or non-receptor) tyr kinase, containing an
N-terminal SH4 domain with a myristoylation site,
followed by SH3 and SH2 domains, a tyr kinase domain,
and a regulatory C-terminal region with a conserved tyr.
It is activated by autophosphorylation at the tyr kinase
domain, and is negatively regulated by phosphorylation
at the C-terminal tyr by Csk (C-terminal Src Kinase).
c-Src is the vertebrate homolog of the oncogenic protein
(v-Src) from Rous sarcoma virus. Together with other Src
subfamily proteins, it is involved in signaling pathways
that regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Src also play a role in regulating cell
adhesion, invasion, and motility in cancer cells and
tumor vasculature, contributing to cancer progression
and metastasis. Elevated levels of Src kinase activity
have been reported in a variety of human cancers.
Several inhibitors of Src have been developed as
anti-cancer drugs. Src is also implicated in acute
inflammatory responses and osteoclast function.
Length = 262
Score = 25.0 bits (54), Expect = 9.5
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 23 SVFSLLTAQYWMGRKLKLPGRANLALACVTGMAYMQ 58
S+ L + G+ L+LP ++A +GMAY++
Sbjct: 86 SLLDFLKGEM--GKYLRLPQLVDMAAQIASGMAYVE 119
>gnl|CDD|225595 COG3053, CitC, Citrate lyase synthetase [Energy production and
conversion].
Length = 352
Score = 25.1 bits (55), Expect = 9.5
Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 12 TVQFDHRVLGISVFSLLTAQY--WMGRKLKLPGRANLALACV 51
+ HR +G F +TA Y M L+ P + + V
Sbjct: 251 ALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPTISAPPIEVV 292
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
0.327 0.135 0.404
Gapped
Lambda K H
0.267 0.0767 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,176,194
Number of extensions: 424038
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 577
Number of HSP's successfully gapped: 49
Length of query: 104
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 35
Effective length of database: 7,877,176
Effective search space: 275701160
Effective search space used: 275701160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)