RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15388
(217 letters)
>gnl|CDD|222370 pfam13774, Longin, Regulated-SNARE-like domain. Longin is one of
the approximately 26 components required for
transporting proteins from the ER to the plasma
membrane, via the Golgi apparatus. It is necessary for
the steps of the transfer from the ER to the Golgi
complex. Longins are the only R-SNAREs that are common
to all eukaryotes, and they are characterized by a
conserved N-terminal domain with a profilin-like fold
called a longin domain.
Length = 82
Score = 96.8 bits (242), Expect = 2e-26
Identities = 35/82 (42%), Positives = 52/82 (63%), Gaps = 1/82 (1%)
Query: 36 QAKQLFRKLNLNSPAKLSIETGNYFFHYLIDRGVCFLALCEKTFSTKVAYSYLESLSLEF 95
AK + KL NSP + S E GNY FHYL++ G+C+L + +K + ++A+++LE + EF
Sbjct: 1 VAKTILEKLPPNSP-RQSYEEGNYTFHYLVEDGLCYLCIADKEYPRRLAFAFLEEIKDEF 59
Query: 96 HGQYGGQFEQCTRPYAFVEFDS 117
+YGG PYAF EFD+
Sbjct: 60 LKKYGGSQAATASPYAFPEFDT 81
>gnl|CDD|227472 COG5143, SNC1, Synaptobrevin/VAMP-like protein [Intracellular
trafficking and secretion].
Length = 190
Score = 84.0 bits (208), Expect = 3e-20
Identities = 43/159 (27%), Positives = 85/159 (53%), Gaps = 8/159 (5%)
Query: 22 DDEYSERSTLEYQNQAKQLFRKLNLNSPAKLSIETGNYFFHYLI-DRGVCFLALCEKTFS 80
D E + ++++ K++ R L+ S ++ SIE+G+YFFHYL G+ ++ + +K +
Sbjct: 19 DAESLSSFSFFHRSKVKEVLRFLSKTSASRASIESGDYFFHYLKMSSGIVYVPISDKEYP 78
Query: 81 TKVAYSYLESLSLEFHGQYG-GQFEQCTRPYAFVEFDSSIKKLRKSFTDTRVRRNLNTLN 139
K+AY YL S++ EF Q T V D I+ K + D ++ L+ L
Sbjct: 79 NKLAYGYLNSIATEFLKSSALEQLIDDTVGIMRVNIDKVIE---KGYRDPSIQDKLDQLQ 135
Query: 140 TELQDVQRIMVQNIDDI---NATMNLVLGLGNQIDLTGI 175
EL++ +R++ +NI+ + + ++L++ L + + L+
Sbjct: 136 QELEETKRVLNKNIEKVLYRDEKLDLLVDLSSILLLSSK 174
>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin.
Length = 89
Score = 33.3 bits (77), Expect = 0.017
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 133 RNLNTLNTELQDVQRIMVQNIDDI 156
LN + ++ +V+ IM +NID +
Sbjct: 3 DKLNKIQAQVDEVKDIMTENIDKV 26
>gnl|CDD|218170 pfam04607, RelA_SpoT, Region found in RelA / SpoT proteins. This
region of unknown function is found in RelA and SpoT of
Escherichia coli, and their homologues in plants and in
other eubacteria. RelA is a guanosine
3',5'-bis-pyrophosphate (ppGpp) synthetase (EC:2.7.6.5)
while SpoT is thought to be a bifunctional enzyme
catalyzing both ppGpp synthesis and degradation (ppGpp
3'-pyrophosphohydrolase, (EC:3.1.7.2)). This region is
often found in association with HD (pfam01966), a
metal-dependent phosphohydrolase, TGS (pfam02824) which
is a possible nucleotide-binding region, and the ACT
regulatory domain (pfam01842).
Length = 116
Score = 28.7 bits (65), Expect = 0.97
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 114 EFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQ--RIMVQNIDDINATMNLV 163
S +K+R+ + + L E+ D+ RI+VQ +DD + ++
Sbjct: 5 SPYSIYEKMRR-------KGSPEELFEEIYDLIGIRIIVQFVDDCYRVLGII 49
>gnl|CDD|240122 cd04818, PA_subtilisin_1, PA_subtilisin_1: Protease-associated
domain containing subtilisin-like proteases, subgroup
1. A subgroup of PA domain-containing subtilisin-like
proteases. The significance of the PA domain to many of
the proteins in which it is inserted is undetermined.
It may be a protein-protein interaction domain. At
peptidase active sites, the PA domain may participate
in substrate binding and/or promoting conformational
changes, which influence the stability and
accessibility of the site to substrate. Proteins into
which the PA domain is inserted include the following
subtilisin-like proteases: i) melon cucumisin, ii)
Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12,
iv) members of the tomato P69 family, and v) tomato
LeSBT2. However, these proteins belong to other
subtilisin-like subgroups. Relatively little is known
about proteins in this subgroup.
Length = 118
Score = 28.1 bits (63), Expect = 1.7
Identities = 9/20 (45%), Positives = 10/20 (50%), Gaps = 7/20 (35%)
Query: 64 LIDRGVCFLALCEKTFSTKV 83
LIDRG C F+ KV
Sbjct: 45 LIDRGTC-------NFTVKV 57
>gnl|CDD|225655 COG3113, COG3113, Predicted NTP binding protein (contains STAS
domain) [General function prediction only].
Length = 99
Score = 27.3 bits (61), Expect = 2.7
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 5/36 (13%)
Query: 160 MNLVLGLGNQIDLTGIPDQVRLLGLPDKHTLSGIPD 195
+ L GN + LTG+P+Q+R L L + D
Sbjct: 64 IRLAKKQGNAVTLTGVPEQLRTLA-----ELYNLSD 94
>gnl|CDD|227605 COG5280, COG5280, Phage-related minor tail protein [Function
unknown].
Length = 634
Score = 28.6 bits (64), Expect = 2.9
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 113 VEFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQRIMVQNID 154
+E D +K L +F RV+R N+L +EL+D + +NI
Sbjct: 11 IEIDGDLKGLNGAFE--RVKRESNSLGSELKDAGELFKRNIS 50
>gnl|CDD|214934 smart00954, RelA_SpoT, Region found in RelA / SpoT proteins. The
functions of Escherichia coli RelA and SpoT differ
somewhat. RelA produces pppGpp (or ppGpp) from ATP and
GTP (or GDP). SpoT degrades ppGpp, but may also act as a
secondary ppGpp synthetase. The two proteins are
strongly similar. In many species, a single homolog to
SpoT and RelA appears reponsible for both ppGpp
synthesis and ppGpp degradation. (p)ppGpp is a
regulatory metabolite of the stringent response, but
appears also to be involved in antibiotic biosynthesis
in some species.
Length = 111
Score = 27.1 bits (61), Expect = 3.1
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 11/52 (21%)
Query: 114 EFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQ--RIMVQNIDDINATMNLV 163
S KK+R R+ + + E+ D+ RI+V +DD + ++
Sbjct: 5 HLYSIYKKMR--------RKGEISFD-EITDLAGVRIIVDFVDDCYRVLGIL 47
>gnl|CDD|148096 pfam06282, DUF1036, Protein of unknown function (DUF1036). This
family consists of several hypothetical bacterial
proteins of unknown function.
Length = 115
Score = 27.3 bits (61), Expect = 3.7
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 82 KVAYSYLESLSLEFHGQYGGQFEQCTRPYAF 112
K Y YL + + G++GG + C R F
Sbjct: 50 KSRYYYLYAEDADGGGRWGGDIQFCVREDEF 80
>gnl|CDD|214939 smart00960, Robl_LC7, Roadblock/LC7 domain. This family includes
proteins that are about 100 amino acids long and have
been shown to be related. Members of this family of
proteins are associated with both flagellar outer arm
dynein and Drosophila and rat brain cytoplasmic dynein.
It is proposed that roadblock/LC7 family members may
modulate specific dynein functions. This family also
includes Golgi-associated MP1 adapter protein and MglB
from Myxococcus xanthus, a protein involved in gliding
motility. However the family also includes members from
non-motile bacteria such as Streptomyces coelicolor,
suggesting that the protein may play a structural or
regulatory role.
Length = 88
Score = 26.4 bits (59), Expect = 4.8
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 11 RDGLILSASMQDDEYSER-----STLEYQNQAKQLFRKLNLNSPAKLSIETGNYFFHYLI 65
RDGL+L++S D+ +ER + L + A++ R+L +L IE
Sbjct: 22 RDGLLLASSGLSDDDAERLAALAAGL--LSLAERAARELGEGELRQLRIEGEKGEVLITP 79
Query: 66 DRGVCFLAL 74
L
Sbjct: 80 AGDALLAVL 88
>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain. This region
covers both the Brf homology II and III regions. This
region is involved in binding TATA binding protein.
Length = 95
Score = 26.1 bits (58), Expect = 6.1
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 73 ALCEKTFSTKVAYSYLESL 91
L +K FS K+ Y L+SL
Sbjct: 76 MLQKKKFSKKINYDALKSL 94
>gnl|CDD|219170 pfam06775, Seipin, Putative adipose-regulatory protein (Seipin).
Seipin is a protein of approximately 400 residues, in
humans, which is the product of a gene homologous to the
murine guanine nucleotide-binding protein (G protein)
gamma-3 linked gene. This gene is implicated in the
regulation of body fat distribution and insulin
resistance and particularly in the auto-immune disease
Berardinelli-Seip congenital lipodystrophy type 2.
Seipin has no similarity with other known proteins or
consensus motifs that might predict its function, but it
is predicted to contain two transmembrane domains at
residues 28-49 and 237-258, in human, and a third
transmembrane domain might be present at residues
155-173. Seipin may also be implicated in Silver spastic
paraplegia syndrome and distal hereditary motor
neuropathy type V.
Length = 198
Score = 26.8 bits (60), Expect = 8.6
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 85 YSYLESLSLE--FHGQYGGQFEQCTRPYAFVEFDSSIKKLRKSF 126
YSY+ ++SLE H Y C P A V D + + +
Sbjct: 18 YSYVPTVSLERPLHFDYT---TGCEFPTANVSLDDRLLMPGQPY 58
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 26.8 bits (60), Expect = 8.7
Identities = 6/38 (15%), Positives = 16/38 (42%)
Query: 114 EFDSSIKKLRKSFTDTRVRRNLNTLNTELQDVQRIMVQ 151
E +K L + + R +++ L L++++
Sbjct: 4 EISERLKDLDEKLENIRGVLDVDALKERLEELEAEAED 41
>gnl|CDD|200101 TIGR01435, glu_cys_lig_rel, glutamate--cysteine
ligase/gamma-glutamylcysteine synthetase, Streptococcus
agalactiae type. This model represents a bifunctional
protein family for the biosynthesis of glutathione, and
perhaps a range of related gamma-glutamyltripeptides of
the form gamma-Glu-Cys-X(aa). The N-terminal region is
similar to proteobacterial glutamate-cysteine ligase.
The C-terminal region is homologous to cyanophycin
synthetase of cyanobacteria and, more distantly, to
D-alanine-D-alanine ligases. Members of This model
family are found in Listeria and Enterococcus,
Gram-positive lineages in which glutathione is produced
(see PUBMED:8606174), and in Pasteurella multocida, a
Proteobacterium. In Clostridium acetobutylicum, adjacent
genes include separate proteins rather than a fusion
protein [Biosynthesis of cofactors, prosthetic groups,
and carriers, Glutathione and analogs].
Length = 737
Score = 27.2 bits (60), Expect = 9.6
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 76 EKTFSTKVAYSYLESLSLEFHGQYGGQFEQCT--RPYAFVEFD 116
KT + ++ E E Q Q++ R YA FD
Sbjct: 374 SKTVAGRLVRIEQEGSDQELGAQLAQQYKAQAFERFYALSGFD 416
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
0.322 0.138 0.398
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,046,515
Number of extensions: 1025537
Number of successful extensions: 913
Number of sequences better than 10.0: 1
Number of HSP's gapped: 909
Number of HSP's successfully gapped: 23
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.6 bits)