RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1973
(252 letters)
>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues. Ubiquitin-mediated
proteolysis is involved in the regulated turnover of
proteins required for controlling cell cycle
progression.
Length = 72
Score = 59.6 bits (145), Expect = 5e-12
Identities = 25/73 (34%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
++++VK L G+ I L+V ++ ELK KI E IP Q+L+ G+ L D + L
Sbjct: 1 IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDD-RTLADY 59
Query: 61 QIKEGTKLNLVVK 73
I++G+ ++LV++
Sbjct: 60 GIQDGSTIHLVLR 72
Score = 46.5 bits (111), Expect = 3e-07
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 116 FIKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
++V ++ ELK KI E IP Q+L+ G+ L D + L I++G+ ++LV++
Sbjct: 14 TLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDD-RTLADYGIQDGSTIHLVLR 72
>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL. UBLs function by
remodeling the surface of their target proteins,
changing their target's half-life, enzymatic activity,
protein-protein interactions, subcellular localization
or other properties. At least 10 different
ubiquitin-like modifications exist in mammals, and
attachment of different ubls to a target leads to
different biological consequences. Ubl-conjugation
cascades are initiated by activating enzymes, which
also coordinate the ubls with their downstream
pathways.
Length = 69
Score = 56.9 bits (138), Expect = 4e-11
Identities = 25/69 (36%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 5 VKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKE 64
VK L G+ L+V+ + ++ ELK KI +P Q+L+ G+ L D K + DY I++
Sbjct: 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYG-IQD 60
Query: 65 GTKLNLVVK 73
G+ L+LV++
Sbjct: 61 GSTLHLVLR 69
Score = 47.6 bits (114), Expect = 9e-08
Identities = 20/60 (33%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 116 FIKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
++V+ + ++ ELK KI +P Q+L+ G+ L D K + DY I++G+ L+LV++
Sbjct: 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYG-IQDGSTLHLVLR 69
>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family. This family contains a
number of ubiquitin-like proteins: SUMO (smt3
homologue), Nedd8, Elongin B, Rub1, and Parkin. A
number of them are thought to carry a distinctive
five-residue motif termed the proteasome-interacting
motif (PIM), which may have a biologically significant
role in protein delivery to proteasomes and recruitment
of proteasomes to transcription sites.
Length = 69
Score = 56.1 bits (136), Expect = 8e-11
Identities = 25/68 (36%), Positives = 43/68 (63%), Gaps = 1/68 (1%)
Query: 6 KVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEG 65
K L G+ I L+V+ ++ ELK KI + IPV Q+L+ +G+ L D + +Y I++G
Sbjct: 1 KTLDGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEY-GIQDG 59
Query: 66 TKLNLVVK 73
+ L+LV++
Sbjct: 60 STLHLVLR 67
Score = 46.8 bits (112), Expect = 2e-07
Identities = 20/60 (33%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 116 FIKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
++V+ ++ ELK KI + IPV Q+L+ +G+ L D + +Y I++G+ L+LV++
Sbjct: 9 TLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEY-GIQDGSTLHLVLR 67
>gnl|CDD|176402 cd01807, GDX_N, ubiquitin-like domain of GDX. GDX contains an
N-terminal ubiquitin-like domain as well as an
uncharacterized c-terminal domain. The function of GDX
is unknown.
Length = 74
Score = 51.1 bits (122), Expect = 7e-09
Identities = 31/73 (42%), Positives = 46/73 (63%), Gaps = 1/73 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
M ++VK+LQG+E L V+ + S+ LK ++E L +P Q+LL G+ L D K++ DY
Sbjct: 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDY- 59
Query: 61 QIKEGTKLNLVVK 73
I KLNLVV+
Sbjct: 60 SIGPNAKLNLVVR 72
Score = 39.5 bits (92), Expect = 9e-05
Identities = 23/59 (38%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 117 IKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
++V+ + S+ LK ++E L +P Q+LL G+ L D K++ DY I KLNLVV+
Sbjct: 15 LQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDY-SIGPNAKLNLVVR 72
>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein.
Scythe protein (also known as Bat3) is an apoptotic
regulator that is highly conserved in eukaryotes and
contains a ubiquitin-like domain near its N-terminus.
Scythe binds reaper, a potent apoptotic inducer, and
Scythe/Reaper are thought to signal apoptosis, in part
through regulating the folding and activity of
apoptotic signaling molecules.
Length = 72
Score = 47.6 bits (114), Expect = 9e-08
Identities = 26/71 (36%), Positives = 45/71 (63%), Gaps = 1/71 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
++I VK L Q V E+++L+LK KI E + IPV Q+L+ +GR L D + + +Y
Sbjct: 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEY- 59
Query: 61 QIKEGTKLNLV 71
++++G ++LV
Sbjct: 60 KVEDGHTIHLV 70
Score = 41.1 bits (97), Expect = 2e-05
Identities = 21/55 (38%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 119 VNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLV 173
V E+++L+LK KI E + IPV Q+L+ +GR L D + + +Y ++++G ++LV
Sbjct: 17 VEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEY-KVEDGHTIHLV 70
>gnl|CDD|176401 cd01806, Nedd8, Nebb8-like ubiquitin protein. Nedd8 (also known
as Rub1) has a single conserved ubiquitin-like domain
that is part of a protein modification pathway similar
to that of ubiquitin. Nedd8 modifies a family of
molecular scaffold proteins called cullins that are
responsible for assembling the ROC1/Rbx1 RING-based E3
ubiquitin ligases, of which several play a direct role
in tumorigenesis.
Length = 76
Score = 45.9 bits (109), Expect = 5e-07
Identities = 24/72 (33%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
M I VK L G+EI +D+ + +K ++ E IP Q+L+ +G+ + D K DY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADY- 59
Query: 61 QIKEGTKLNLVV 72
+++ G+ L+LV+
Sbjct: 60 KLEGGSVLHLVL 71
Score = 30.9 bits (70), Expect = 0.12
Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 128 LKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVV 174
+K ++ E IP Q+L+ +G+ + D K DY +++ G+ L+LV+
Sbjct: 26 IKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADY-KLEGGSVLHLVL 71
>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin. Ubiquitin (includes Ubq/RPL40e
and Ubq/RPS27a fusions as well as homopolymeric
multiubiquitin protein chains).
Length = 76
Score = 44.5 bits (105), Expect = 2e-06
Identities = 28/73 (38%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
M+I VK L G+ I L+V +I +K KI + IP Q+L+ G+ L D + + DY
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 QIKEGTKLNLVVK 73
KE T L+LV++
Sbjct: 61 IQKEST-LHLVLR 72
Score = 31.0 bits (70), Expect = 0.10
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 117 IKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
++V +I +K KI + IP Q+L+ G+ L D + + DY KE T L+LV++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST-LHLVLR 72
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC
protein. This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 378
Score = 46.4 bits (110), Expect = 6e-06
Identities = 30/88 (34%), Positives = 51/88 (57%), Gaps = 7/88 (7%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALK----IPVSDQKLLATGRPLLDTKQI 56
M ++ K LQ Q+ +D+ + ++ ELK KI EA + PV+ QKL+ +G+ L D K +
Sbjct: 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKI-EAEQGKDAYPVAQQKLIYSGKILSDDKTV 59
Query: 57 LDYPQIKEGTKLNLVVKRALKESSQSVA 84
+Y +IKE + ++V + K + VA
Sbjct: 60 KEY-KIKEKDFVVVMVSKP-KTGTGKVA 85
Score = 32.9 bits (75), Expect = 0.12
Identities = 25/74 (33%), Positives = 42/74 (56%), Gaps = 7/74 (9%)
Query: 117 IKVNSEMSILELKNKINEALK----IPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNL 172
I + + ++ ELK KI EA + PV+ QKL+ +G+ L D K + +Y +IKE + +
Sbjct: 15 IDMEPDETVKELKEKI-EAEQGKDAYPVAQQKLIYSGKILSDDKTVKEY-KIKEKDFVVV 72
Query: 173 VVKRALKESSQSVA 186
+V + K + VA
Sbjct: 73 MVSKP-KTGTGKVA 85
>gnl|CDD|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23. RAD23 belongs
to a family of adaptor molecules having affinity for
both the proteasome and ubiquitinylated proteins and
thought to shuttle these ubiquitinylated proteins to
the proteasome for destruction. RAD23 interacts with
ubiquitin through its C-terminal ubiquitin-associated
domains (UBA) and with the proteasome through its
N-terminal ubiquitin-like domain (UBL).
Length = 77
Score = 42.7 bits (101), Expect = 7e-06
Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 3/76 (3%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEA--LKIPVSDQKLLATGRPLLDTKQILD 58
MKI+ K L+ Q ++V+ + ++ ELK KI E P QKL+ +G+ L D + +
Sbjct: 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEE 60
Query: 59 YPQIKEGTKLNLVVKR 74
Y +I E + ++V +
Sbjct: 61 Y-KIDEKDFVVVMVSK 75
Score = 28.4 bits (64), Expect = 0.96
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 116 FIKVNSEMSILELKNKINEA--LKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLV 173
I+V+ + ++ ELK KI E P QKL+ +G+ L D + +Y +I E + ++
Sbjct: 14 PIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEY-KIDEKDFVVVM 72
Query: 174 VKR 176
V +
Sbjct: 73 VSK 75
>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins. Ubiquitin homologs;
Includes ubiquitin and ubiquitin-like proteins.
Ubiquitin-mediated proteolysis is part of the regulated
turnover of proteins required for controlling cell
cycle progression. Other family members are protein
modifiers that perform a wide range of functions.
Ubiquitination usually results in a covalent bond
between the C-terminus of ubiquitin and the
epsilon-amino group of a substrate lysine. The
three-step mechanism requires an activating enzyme (E1)
that forms a thiol ester with the C-terminal carboxy
group, a conjugating enzyme (E2) that transiently
carries the activated ubiquitin molecule as a thiol
ester, and a ligase (E3) that transfers the activated
ubiquitin from the E2 to the substrate lysine residue.
In poly-ubiquitination, ubiquitin itself is the
substrate.
Length = 69
Score = 39.0 bits (91), Expect = 1e-04
Identities = 23/69 (33%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 5 VKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKE 64
VK+ G+ + L V S ++ +LK K+ + L +P Q+LL G+ L D+ + DY +++
Sbjct: 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYG-LQD 60
Query: 65 GTKLNLVVK 73
G +L LV +
Sbjct: 61 GDELVLVPR 69
Score = 33.7 bits (77), Expect = 0.011
Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 110 NKIADEFIKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTK 169
N + V S ++ +LK K+ + L +P Q+LL G+ L D+ + DY +++G +
Sbjct: 5 NDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYG-LQDGDE 63
Query: 170 LNLVVK 175
L LV +
Sbjct: 64 LVLVPR 69
>gnl|CDD|192903 pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-like. The
small ubiquitin-related modifier SUMO-1 is a Ub/Ubl
family member, and although SUMO-1 shares structural
similarity to Ub, SUMO's cellular functions remain
distinct insomuch as SUMO modification alters protein
function through changes in activity, cellular
localisation, or by protecting substrates from
ubiquitination. Rad60 family members contain
functionally enigmatic, integral SUMO-like domains
(SLDs). Despite their divergence from SUMO, each Rad60
SLD interacts with a subset of SUMO pathway enzymes:
SLD2 specifically binds the SUMO E2 conjugating enzyme
(Ubc9)), whereas SLD1 binds the SUMO E1 (Fub2, also
called Uba2) activating and E3 (Pli1, also called Siz1
and Siz2) specificity enzymes. Structural analysis of
PDB:2uyz reveals a mechanistic basis for the
near-synonymous roles of Rad60 and SUMO in survival of
genotoxic stress and suggest unprecedented
DNA-damage-response functions for SLDs in regulating
SUMOylation. The Rad60 branch of this family is also
known as RENi (Rad60-Esc2-Nip45), and biologically it
should be two distinct families SUMO and RENi
(Rad60-Esc2-Nip45).
Length = 72
Score = 37.9 bits (89), Expect = 3e-04
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQ-KLLATGRPLLDTKQILDY 59
++I +K G+E+F+ V ++ +L N + IP Q +L+ G L + DY
Sbjct: 1 IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY 60
Query: 60 PQIKEGTKLNLVV 72
I++G +++V+
Sbjct: 61 -DIEDGDTIDVVI 72
Score = 28.3 bits (64), Expect = 0.75
Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 116 FIKVNSEMSILELKNKINEALKIPVSDQ-KLLATGRPLLDTKQILDYPQIKEGTKLNLVV 174
FIKV ++ +L N + IP Q +L+ G L + DY I++G +++V+
Sbjct: 14 FIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY-DIEDGDTIDVVI 72
>gnl|CDD|176387 cd01792, ISG15_repeat1, ISG15 ubiquitin-like protein, first
repeat of 2. ISG15 is a ubiquitin-like protein
containing two ubiquitin homology domains that becomes
conjugated to a variety of proteins when cells are
treated with type I interferon or lipopolysaccharide.
Although ISG15 has properties similar to those of other
ubiquitin-like molecules, it is a unique member of the
ubiquitin-like superfamily, whose expression and
conjugation to target proteins are tightly regulated by
specific signaling pathways, indicating it may have
specialized functions in the immune system.
Length = 80
Score = 34.9 bits (80), Expect = 0.004
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 3 ISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKL-LATGRPLLDTKQILDYPQ 61
+ VK+L G E + + M++ ELK +I + + +P Q+L R +L L
Sbjct: 5 LKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQG 64
Query: 62 IKEGTKLNLVVKR 74
+ G+ + LVV+
Sbjct: 65 LGPGSTVLLVVQN 77
>gnl|CDD|185411 PTZ00044, PTZ00044, ubiquitin; Provisional.
Length = 76
Score = 34.4 bits (79), Expect = 0.006
Identities = 16/73 (21%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
M+I +K L G++ + + ++ ++K + E I V +L+ +G+ + D ++ DY
Sbjct: 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDY- 59
Query: 61 QIKEGTKLNLVVK 73
++ G+ +++V++
Sbjct: 60 KVVPGSTIHMVLQ 72
>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1. BAG1_N
N-terminal ubiquitin-like (Ubl) domain of the BAG1
protein. This domain occurs together with the BAG
domain and is closely related to the Ubl domain of a
family of deubiquitinases that includes Rpn11, UBP6
(USP14), USP7 (HAUSP).
Length = 71
Score = 33.1 bits (76), Expect = 0.015
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 3 ISVKVLQGQE-IFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQ 61
I V+V G E L ++S+ + +LK + + DQKL+ G+ D + LD
Sbjct: 1 IRVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAET-LDMSG 59
Query: 62 IKEGTKLNLVVK 73
+K+G+K+ L+
Sbjct: 60 VKDGSKVMLLED 71
Score = 30.0 bits (68), Expect = 0.21
Identities = 15/59 (25%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 117 IKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
+ ++S+ + +LK + + DQKL+ G+ D + LD +K+G+K+ L+
Sbjct: 14 LSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAET-LDMSGVKDGSKVMLLED 71
>gnl|CDD|176397 cd01802, AN1_N, ubiquitin-like domain of AN1. AN1 (also known as
ANUBL1 and RSD-7) is ubiquitin-like protein with a
testis-specific expression in rats that has an
N-terminal ubiquitin-like domain and a C-terminal
zinc-binding domain. Unlike ubiquitin polyproteins and
most ubiquitin fusion proteins, the N-terminal
ubiquitin-like domain of An1 does not undergo
proteolytic processing. The function of AN1 is
unknown.
Length = 103
Score = 31.4 bits (71), Expect = 0.11
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 1 MKISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYP 60
M++ ++ L G L V+ +++ +K KI IPV+ Q L+ L D + DY
Sbjct: 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDY- 86
Query: 61 QIKEGTKLNLVV 72
I EG L LV+
Sbjct: 87 NISEGCTLKLVL 98
Score = 28.3 bits (63), Expect = 1.3
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 117 IKVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVV 174
++V+ +++ +K KI IPV+ Q L+ L D + DY I EG L LV+
Sbjct: 42 LRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDY-NISEGCTLKLVL 98
>gnl|CDD|217527 pfam03387, Herpes_UL46, Herpesvirus UL46 protein.
Length = 443
Score = 30.8 bits (70), Expect = 0.73
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 9/70 (12%)
Query: 34 LKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVKRALKESSQSVAGGSNVTILR 93
+P S T P + +L YP + K K + A + V LR
Sbjct: 121 ADVPDSP----ETDGPTQVSVVLLFYPTFGP----KPLSKAPFKSKKDNAAYLAAVAELR 172
Query: 94 DASYKFLRKY 103
DA ++ ++KY
Sbjct: 173 DA-FEAIQKY 181
Score = 30.8 bits (70), Expect = 0.73
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 9/70 (12%)
Query: 136 LKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVKRALKESSQSVAGGSNVTILR 195
+P S T P + +L YP + K K + A + V LR
Sbjct: 121 ADVPDSP----ETDGPTQVSVVLLFYPTFGP----KPLSKAPFKSKKDNAAYLAAVAELR 172
Query: 196 DASYKFLRKY 205
DA ++ ++KY
Sbjct: 173 DA-FEAIQKY 181
>gnl|CDD|176391 cd01796, DDI1_N, DNA damage inducible protein 1 ubiquitin-like
domain. DDI1_N DDI1 (DNA damage inducible protein 1)
has an amino-terminal ubiquitin-like domain, an
retroviral protease-like (RVP-like) domain, and a UBA
(ubiquitin-associated) domain. This CD represents the
amino-terminal ubiquitin-like domain of DDI1.
Length = 71
Score = 28.5 bits (64), Expect = 0.75
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 3 ISVKVLQGQEIF-LDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQIL 57
I+V + + F LDV+ ++ + K IP S Q+L+ GR L+D K++L
Sbjct: 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLL 56
>gnl|CDD|176393 cd01798, parkin_N, amino-terminal ubiquitin-like of parkin
protein. parkin_N parkin protein is a RING-type E3
ubiquitin ligase with an amino-terminal ubiquitin-like
(Ubl) domain and an RBR signature consisting of two
RING finger domains separated by an IBR/DRIL domain.
Naturally occurring mutations in parkin are thought to
cause the disease AR_JP (autosomal-recessive juvenile
parkinsonism). Parkin binds the Rpn10 subunit of 26S
proteasomes through its Ubl domain.
Length = 70
Score = 28.2 bits (63), Expect = 0.80
Identities = 11/54 (20%), Positives = 26/54 (48%)
Query: 3 ISVKVLQGQEIFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQI 56
+ V+ G ++V+ + I +LK + + +P +++ G+ L +T I
Sbjct: 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTI 54
>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 = 30.0 bits (68), Expect = 1.6
Identities = 31/139 (22%), Positives = 60/139 (43%), Gaps = 26/139 (18%)
Query: 14 FLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQ------------ 61
+D+ E + EL+ K+ A KI + ++L P+ I D+ +
Sbjct: 291 MMDIEDEEDLRELRKKV--ADKIGIDVEELEKIIAPVERIYAIADHTRCLAFMLGDGIVP 348
Query: 62 --IKEGTKLNLVVKRALKESSQSVAGGSNVTILRDASYKFLRKYFTETQSNKIADEFIKV 119
+KEG LV++R L+ + ++ + + L+K + E + NK ++I
Sbjct: 349 SNVKEGYLARLVIRRTLRLMRELGLDIPLSDLV-EMQLEELKKIYPELKENK---DYI-- 402
Query: 120 NSEMSILEL-KNKINEALK 137
+ IL+L + K E L+
Sbjct: 403 ---LDILDLEEEKYRETLE 418
>gnl|CDD|176395 cd01800, SF3a120_C, Ubiquitin-like domain of Mammalian splicing
factor SF3a_120. SF3a120_C Mammalian splicing factor
SF3a consists of three subunits of 60, 66, and 120 kDa
and functions early during pre-mRNA splicing by
converting the U2 snRNP to its active form. The 120kDa
subunit (SF3a120) has a carboxy-terminal ubiquitin-like
domain and two SWAP (suppressor-of-white-apricot)
domains, referred to collectively as the SURP module,
at its amino-terminus.
Length = 76
Score = 26.6 bits (59), Expect = 3.1
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 25 ELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 73
LK KI+E +P QKL G + D+ L Y + GT ++L +K
Sbjct: 22 VLKVKIHEETGMPAGKQKLQYEGIFIKDSNS-LAYYNLANGTIIHLQLK 69
Score = 26.6 bits (59), Expect = 3.1
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 127 ELKNKINEALKIPVSDQKLLATGRPLLDTKQILDYPQIKEGTKLNLVVK 175
LK KI+E +P QKL G + D+ L Y + GT ++L +K
Sbjct: 22 VLKVKIHEETGMPAGKQKLQYEGIFIKDSNS-LAYYNLANGTIIHLQLK 69
>gnl|CDD|222504 pfam14027, DUF4243, Protein of unknown function (DUF4243). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and eukaryotes.
Proteins in this family are typically between 348 and
477 amino acids in length.
Length = 322
Score = 28.5 bits (64), Expect = 3.4
Identities = 18/68 (26%), Positives = 23/68 (33%), Gaps = 7/68 (10%)
Query: 17 VNSEMSILELKNKINEALKIPVSDQKLLAT-------GRPLLDTKQILDYPQIKEGTKLN 69
V S ++ L + K + A GRP LD +I DY G
Sbjct: 238 VTSSHALRVLLPYLPPEDKARLLRWWWRADLALYAARGRPELDLDEITDYKPDPGGPDWE 297
Query: 70 LVVKRALK 77
V RAL
Sbjct: 298 EVFARALA 305
Score = 28.5 bits (64), Expect = 3.4
Identities = 18/68 (26%), Positives = 23/68 (33%), Gaps = 7/68 (10%)
Query: 119 VNSEMSILELKNKINEALKIPVSDQKLLAT-------GRPLLDTKQILDYPQIKEGTKLN 171
V S ++ L + K + A GRP LD +I DY G
Sbjct: 238 VTSSHALRVLLPYLPPEDKARLLRWWWRADLALYAARGRPELDLDEITDYKPDPGGPDWE 297
Query: 172 LVVKRALK 179
V RAL
Sbjct: 298 EVFARALA 305
>gnl|CDD|240618 cd12219, UBL_TBK1_like, Ubiquitin-Like Domain Of Human Tbk1 and
similar proteins. This family contains ubiquitin-like
domain (UBL) found in TANK-binding kinase 1 (TBK1) and
similar proteins. TBK1 regulates factors such as IRF3
and IRF7, promoting antiviral activity in the interferon
signaling pathways. In addition to the central UBL,
these proteins have an N-terminal kinase domain and a
C-terminal elongated helical domain. The ubiquitin-like
domain acts as a protein-protein interaction domain, and
has been implicated in regulating kinase activity, which
modulates interactions in the IFN pathway.
Length = 89
Score = 26.4 bits (59), Expect = 4.7
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 12/66 (18%)
Query: 102 KYFTETQ---SNKIADEF-------IKV--NSEMSILELKNKINEALKIPVSDQKLLATG 149
++F E S K+ F KV + E +++ + + E ++P S+Q+LL G
Sbjct: 1 RFFAEVTDILSRKVVHIFSVNQATSHKVYIHPEETLVNFQELVFEQTEVPPSNQELLYEG 60
Query: 150 RPLLDT 155
L+
Sbjct: 61 EHLVLE 66
>gnl|CDD|214828 smart00811, Alpha_kinase, Alpha-kinase family. This family is a
novel family of eukaryotic protein kinase catalytic
domains, which have no detectable similarity to
conventional kinases. The family contains myosin heavy
chain kinases and Elongation Factor-2 kinase and a
bifunctional ion channel. This family is known as the
alpha-kinase family. The structure of the kinase domain
revealed unexpected similarity to eukaryotic protein
kinases in the catalytic core as well as to metabolic
enzymes with ATP-grasp domains.
Length = 198
Score = 27.3 bits (61), Expect = 6.6
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 194 LRDASYKFLRKYFTETQSNKIADEFIKEFNK 224
++ +YF + + +A +F +EFN+
Sbjct: 48 KKEYKNTVEDRYFEDVEMQMVAKKFAEEFNQ 78
>gnl|CDD|176383 cd01788, ElonginB, Ubiquitin-like domain of Elongin B. Elongin B
is part of an E3 ubiquitin ligase complex called VEC
that activates ubiquitylation by the E2
ubiquitin-conjugating enzyme Ubc5. VEC is composed of
von Hippel-Lindau tumor suppressor protein (pVHL),
elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds
elonginC to form the elonginBC complex which is a
positive regulator of RNA polymerase II elongation
factor Elongin A. The BC complex then binds VHL (von
Hippel-Lindau) tumour suppressor protein to form a VCB
ternary complex. Elongin B has a ubiquitin-llike
domain.
Length = 119
Score = 26.6 bits (58), Expect = 7.5
Identities = 16/46 (34%), Positives = 22/46 (47%)
Query: 13 IFLDVNSEMSILELKNKINEALKIPVSDQKLLATGRPLLDTKQILD 58
IF D ++ ELK + LK P DQ+L + L D K + D
Sbjct: 14 IFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGD 59
>gnl|CDD|234570 PRK00009, PRK00009, phosphoenolpyruvate carboxylase; Reviewed.
Length = 911
Score = 27.4 bits (62), Expect = 9.0
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 8/40 (20%)
Query: 210 QSNKIADEFIKEFNKSISTLSL--------DDLEALASSY 241
Q D ++KE + S LS+ +L ALA +
Sbjct: 275 QRWVALDLYLKELHALGSELSMSTRLVEVSPELRALAGAS 314
>gnl|CDD|217938 pfam04168, Alpha-E, A predicted alpha-helical domain with a
conserved ER motif. An uncharacterized alpha helical
domain containing a highly conserved ER motif and
typically found as a tandem duplication. Contextual
analysis suggests that it functions in a distinct
peptide synthesis/modification system comprising of a
transglutaminase, a peptidase of the NTN-hydrolase
superfamily, an active and inactive circularly permuted
ATP-grasp domains and a transglutaminase fused
N-terminal to a circularly permuted COOH-NH2 ligase
domain.
Length = 312
Score = 27.2 bits (61), Expect = 9.4
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 76 LKESSQSVAGGSNVTILRDASYKFLR 101
+K G ++ T+LRD ++FLR
Sbjct: 138 VKRRLALFRGLTHGTMLRDEGWRFLR 163
Score = 27.2 bits (61), Expect = 9.4
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 178 LKESSQSVAGGSNVTILRDASYKFLR 203
+K G ++ T+LRD ++FLR
Sbjct: 138 VKRRLALFRGLTHGTMLRDEGWRFLR 163
>gnl|CDD|183089 PRK11337, PRK11337, DNA-binding transcriptional repressor RpiR;
Provisional.
Length = 292
Score = 27.0 bits (60), Expect = 9.6
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 84 AGGSNVTILRDASYKFLR 101
AGGS I RD +KFLR
Sbjct: 148 AGGSA-AIARDVQHKFLR 164
Score = 27.0 bits (60), Expect = 9.6
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 186 AGGSNVTILRDASYKFLR 203
AGGS I RD +KFLR
Sbjct: 148 AGGSA-AIARDVQHKFLR 164
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
0.313 0.130 0.336
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,272,751
Number of extensions: 1151486
Number of successful extensions: 1181
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1176
Number of HSP's successfully gapped: 84
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
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: 58 (26.2 bits)