RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15661
(217 letters)
>gnl|CDD|201057 pfam00173, Cyt-b5, Cytochrome b5-like Heme/Steroid binding
domain. This family includes heme binding domains from
a diverse range of proteins. This family also includes
proteins that bind to steroids. The family includes
progesterone receptors. Many members of this subfamily
are membrane anchored by an N-terminal transmembrane
alpha helix. This family also includes a domain in some
chitin synthases. There is no known ligand for this
domain in the chitin synthases.
Length = 74
Score = 53.0 bits (128), Expect = 1e-09
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 2 FSKEEIAKYVTEDKLYLVILGHVFDVTKGKNYYKKGET-YHCFVGRDGTRAF 52
F+ EE+ K+ + ++VI G V+DVT+ + GE G+D T AF
Sbjct: 1 FTLEEVKKHNKDGDCWIVINGKVYDVTRFLKDHPGGEDVILSAAGKDATEAF 52
>gnl|CDD|227599 COG5274, CYB5, Cytochrome b involved in lipid metabolism [Energy
production and conversion / Lipid metabolism].
Length = 164
Score = 32.1 bits (73), Expect = 0.11
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 2 FSKEEIAKYVTEDKLYLVILGHVFDVTKGKNYYKKGETYHCFV-GRDGTRAFVSG--NFT 58
+ EE+AK+ + ++VI G V+DV++ + + GE G+D T+AF +
Sbjct: 52 ITAEEVAKHNKSEDCWIVINGKVYDVSQFLDEHPGGEDIIKDTAGKDATKAFNFLHHSHQ 111
Query: 59 DEGLTED--IDDISGTEA 74
L +D +D + E
Sbjct: 112 IGNLLKDVYVDQVHRPEE 129
>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
Length = 888
Score = 32.7 bits (75), Expect = 0.12
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 1 MFSKEEIAKYVTEDKLYLVILGHVFDVTK 29
++ E+ K+ +ED ++V+ GHV+D T+
Sbjct: 519 QYTMSEVRKHNSEDSCWIVVHGHVYDCTR 547
>gnl|CDD|176793 cd08815, Death_TNFRSF25_DR3, Death domain of Tumor Necrosis Factor
Receptor superfamily 25. Death Domain (DD) found in
Tumor Necrosis Factor (TNF) receptor superfamily 25
(TNFRSF25), also known as TRAMP (TNF receptor-related
apoptosis-mediating protein), LARD, APO-3, WSL-1, or DR3
(Death Receptor-3). TNFRSF25 is primarily expressed in T
cells, is activated by binding to its ligand TL1A, and
plays an important role in T-cell function. DDs are
protein-protein interaction domains found in a variety
of domain architectures. Their common feature is that
they form homodimers by self-association or heterodimers
by associating with other members of the DD superfamily
including CARD (Caspase activation and recruitment
domain), DED (Death Effector Domain), and PYRIN. They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 77
Score = 29.6 bits (66), Expect = 0.29
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 105 PTRHWHEF--QLKLKEAEADSEEVLQEKLKYPPCNVVWSQDEGTRVWCSTKSGGIERDWT 162
P R W EF L L+EAE ++ E+ + + Q E + W + G++ +
Sbjct: 10 PARRWKEFVRTLGLREAEIEAVELEIGRFRD-------QQYEMLKRWRQQQPAGLDAVYA 62
Query: 163 GVPRKLYQAGAESFR 177
+ R AE R
Sbjct: 63 ALERMGLAGCAEDLR 77
>gnl|CDD|178739 PLN03198, PLN03198, delta6-acyl-lipid desaturase; Provisional.
Length = 526
Score = 30.4 bits (68), Expect = 0.65
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 6 EIAKYVTEDKLYLVILGHVFDVTKGKNYYKKGETYHCFVGRDGTRAFVS 54
E+A + + ++VI V+DV+ + G + GRDGT AF S
Sbjct: 110 EVAAHNKPNDCWIVIKNKVYDVSDFAAEHPGGSVISTYFGRDGTDAFSS 158
>gnl|CDD|183446 PRK12331, PRK12331, oxaloacetate decarboxylase; Provisional.
Length = 448
Score = 29.3 bits (66), Expect = 1.4
Identities = 18/41 (43%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 113 QLKLKEAEADSEEVLQE------KLKYPPCNVVWSQDEGTR 147
QLK + AE EEVL+E L YPP SQ GT+
Sbjct: 310 QLKEQGAEDKYEEVLKEVPKVRADLGYPPLVTPLSQMVGTQ 350
>gnl|CDD|221732 pfam12719, Cnd3, Nuclear condensing complex subunits, C-term
domain. The Cnd1-3 proteins are the three non-SMC
(structural maintenance of chromosomes) proteins that go
to make up the mitotic condensation complex along with
the two SMC protein families, XCAP-C and XCAP-E, (or in
the case of fission yeast, Cut3 and Cut14). The
five-member complex seems to be conserved from yeasts to
vertebrates. This domain is the C-terminal,
cysteine-rich domain of Cnd3. The complex shuttles
between the nucleus, during mitosis, and the cytoplasm
during the rest of the cycle. Thus this family is made
up of the C-termini of XCAP-Gs, Ycg1 and Ycs5 members.
Length = 302
Score = 29.2 bits (66), Expect = 1.7
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 160 DWTGVPRKLYQAGAESFRCACVNLDLSVG 188
DWT PRKL E A V+LDL+V
Sbjct: 233 DWT-DPRKLVNETNEEIAKAPVHLDLAVD 260
>gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 29.1 bits (66), Expect = 1.8
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 11 VTEDKLYLVI---LGHVFDVTKGKNYY 34
VT D+ L I GHV+D+T YY
Sbjct: 637 VTGDR-ILTITASKGHVYDLTTEIGYY 662
>gnl|CDD|148056 pfam06223, Phage_tail_T, Minor tail protein T. Minor tail protein
T is located at the distal end and is involved in the
assembly of the initiator complex for tail
polymerisation.
Length = 103
Score = 27.5 bits (61), Expect = 2.0
Identities = 16/64 (25%), Positives = 23/64 (35%), Gaps = 9/64 (14%)
Query: 69 ISGTEAIELNNWLDFYRTNYVYEGHLIGRFFN--------TNGSPTRHWHEFQLKLKEAE 120
++ A EL W D + T+ + L F G P +F L L E
Sbjct: 15 LAEMSATELGEWADHFVTHSFSDVLLDAEFATLKALVLGLVTGDPEDAPLDFSL-LNRRE 73
Query: 121 ADSE 124
+D E
Sbjct: 74 SDPE 77
>gnl|CDD|130776 TIGR01715, phage_lam_T, phage tail assembly protein T. This
model represents a translation of the T gene in phage
lambda and related phage. A translational frameshift
from the upstream gene G into the frame of T produces a
minor protein gpG-T, essential in tail assembly but not
found in the mature virion [Mobile and extrachromosomal
element functions, Prophage functions].
Length = 100
Score = 27.6 bits (61), Expect = 2.4
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 69 ISGTEAIELNNWLDFYRTNYVYEGHLIGRF 98
++G + E +W FYRTNY + L F
Sbjct: 10 LAGMSSTEYGDWARFYRTNYFSDAQLDAHF 39
>gnl|CDD|153428 cd08001, WGR_PARP1_like, WGR domain of poly(ADP-ribose)
polymerase 1 and similar proteins. The WGR domain is
found in a variety of eukaryotic poly(ADP-ribose)
polymerases (PARPs). It has been called WGR after the
most conserved central motif of the domain. The domain
typically occurs together with a catalytic PARP domain,
and is between 70 and 80 residues in length. It has
been proposed to function as a nucleic acid binding
domain. PARPs catalyze the NAD(+)-dependent synthesis
of ADP-ribose polymers and their addition to various
nuclear proteins. Higher eukaryotes contain several
PARPs and and there may be up to 17 human PARP-like
proteins, with three of them (PARP-1, PARP-2, and
PARP-3) containing a WGR domain. The synthesis of
poly-ADP-ribose requires multiple enzymatic activities
for initiation, trans-ADP-ribosylation, elongation,
branching, and release of the polymer from the enzyme.
This subfamily is composed of vertebrate PARP-1 and
similar proteins, including Arabidopsis thaliana PARP-1
and PARP-3. PARP-1 is the best-studied among the PARPs.
It is a widely expressed nuclear chromatin-associated
enzyme that possesses auto-mono-ADP-ribosylation
(initiation), elongation, and branching activities.
PARP-1 is implicated in DNA damage and cell death
pathways and is important in maintaining genomic
stability and regulating cell proliferation,
differentiation, neuronal function, inflammation, and
aging.
Length = 104
Score = 27.2 bits (61), Expect = 2.6
Identities = 19/52 (36%), Positives = 21/52 (40%), Gaps = 11/52 (21%)
Query: 9 KYVTEDKLYLVILGHVFDVTKGKN-YYK-------KGETYHCFV--GRDGTR 50
LY +LG V D+ G N YYK KG Y F GR GT
Sbjct: 3 VLEEGGNLYSAVLGLV-DIQTGTNSYYKLQLLEHDKGNRYWVFRSWGRVGTT 53
>gnl|CDD|213283 cd05915, ttLC_FACS_like, Fatty acyl-CoA synthetases similar to
LC-FACS from Thermus thermophiles. This family includes
fatty acyl-CoA synthetases that can activate
medium-chain to long-chain fatty acids. They catalyze
the ATP-dependent acylation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. Fatty
acyl-CoA synthetases are responsible for fatty acid
degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid, while another
member in this family, the AlkK protein identified in
Pseudomonas oleovorans, targets medium chain fatty
acids. This family also includes an uncharacterized
subgroup of FACS.
Length = 509
Score = 28.6 bits (63), Expect = 3.3
Identities = 6/67 (8%), Positives = 17/67 (25%), Gaps = 10/67 (14%)
Query: 83 FYRTNYVYEGHLIGRFFNTNGSPTRHWHEFQLKLKEAEADSEEVLQ------EKLKYPPC 136
V E ++ + + + EE+ + P
Sbjct: 431 LMGHPKVKEAAVVAIPHPKWQERPLAV----VVPRGEKPTPEELNEHLLKAGFAKWQLPD 486
Query: 137 NVVWSQD 143
V++++
Sbjct: 487 AYVFAEE 493
>gnl|CDD|184003 PRK13364, PRK13364, protocatechuate 4,5-dioxygenase subunit beta;
Provisional.
Length = 278
Score = 27.7 bits (62), Expect = 4.1
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 15/50 (30%)
Query: 47 DGTRA-FVSGNF---------TD-EGLT----EDIDDISGTEAIELNNWL 81
DG RA F++ +F +D E LT ++ +++GT+ +EL NWL
Sbjct: 195 DGERAGFINKDFDLQCMDSLVSDPEWLTQYSNHELVELAGTQGVELLNWL 244
>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms [Protein synthesis, tRNA
aminoacylation].
Length = 496
Score = 27.3 bits (61), Expect = 6.9
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 89 VYEGHLIGRFFNTNGSPTRHWHEF-QLKLKEAEADSEE--VLQEKL 131
VYE IGR F G T H EF ++ +A AD E+ L E L
Sbjct: 243 VYE---IGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTENL 285
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.137 0.434
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,127,761
Number of extensions: 1029280
Number of successful extensions: 836
Number of sequences better than 10.0: 1
Number of HSP's gapped: 835
Number of HSP's successfully gapped: 21
Length of query: 217
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 124
Effective length of database: 6,812,680
Effective search space: 844772320
Effective search space used: 844772320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.7 bits)