RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16154
(105 letters)
>gnl|CDD|203967 pfam08518, GIT_SHD, Spa2 homology domain (SHD) of GIT. GIT
proteins are signaling integrators with
GTPase-activating function which may be involved in the
organisation of the cytoskeletal matrix assembled at
active zones (CAZ). The function of the CAZ might be to
define sites of neurotransmitter release. Mutations in
the Spa2 homology domain (SHD) domain of GIT1 described
here interfere with the association of GIT1 with
Piccolo, beta-PIX, and focal adhesion kinase.
Length = 31
Score = 33.3 bits (77), Expect = 0.001
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 49 GRQKLGRLNEEDFNTLVTDIIYIAVQR 75
RQKL RL+++ F L TD +Y +R
Sbjct: 1 ARQKLARLSQQQFAELSTD-VYDEAKR 26
Score = 28.7 bits (65), Expect = 0.071
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 1 MDVYDELDRREVES 14
DVYDE RRE ++
Sbjct: 18 TDVYDEAKRREQDA 31
>gnl|CDD|128828 smart00555, GIT, Helical motif in the GIT family of
ADP-ribosylation factor GTPase-activating proteins.
Helical motif in the GIT family of ADP-ribosylation
factor GTPase-activating proteins, and in yeast Spa2p
and Sph1p (CPP; unpublished results). In p95-APP1 the
N-terminal GIT motif might be involved in binding PIX.
Length = 31
Score = 27.9 bits (63), Expect = 0.18
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 49 GRQKLGRLNEEDFNTLVTDIIYIAVQRGSH 78
RQKL RL++E F L+TD+ +R +
Sbjct: 1 ARQKLARLSDEQFQKLLTDLNDELKRRENE 30
Score = 24.8 bits (55), Expect = 2.2
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 1 MDVYDELDRREVES 14
D+ DEL RRE E+
Sbjct: 18 TDLNDELKRRENEA 31
>gnl|CDD|217835 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 26.7 bits (59), Expect = 2.6
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 30 PLGVPFLPVNRSLSSMRNQGRQKLGRLNE 58
PLGV L + L S+R Q ++ + E
Sbjct: 81 PLGVWLLKLRDQLESLRKQKAERRAEIKE 109
>gnl|CDD|164773 PHA00006, D, external scaffolding protein.
Length = 151
Score = 26.1 bits (57), Expect = 3.3
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 9/37 (24%)
Query: 56 LNEEDFNTLVTDIIYIAVQRGS---------HGELDF 83
L E+DF+ L D ++IA R +G LDF
Sbjct: 28 LTEDDFDFLTGDKVWIATDRSRARRCVEACVYGTLDF 64
>gnl|CDD|214926 smart00942, PriCT_1, Primase C terminal 1 (PriCT-1). This alpha
helical domain is found at the C terminal of primases.
Length = 66
Score = 25.0 bits (55), Expect = 4.2
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 7 LDRREVESIWQSVCQ 21
L RE+E +S +
Sbjct: 48 LPERELEKTAESAYR 62
>gnl|CDD|86186 pfam02925, gpD, Bacteriophage scaffolding protein D.
Length = 141
Score = 25.4 bits (55), Expect = 5.5
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 41 SLSSMRNQGRQKLGRLNEEDFNTLVTDIIYIAVQRGS---------HGELDF 83
+L+S++ + L E+DF+ L ++ ++IA R +G LDF
Sbjct: 12 ALASIKLIQASAVLDLTEDDFDFLTSNKVWIATDRSRARRCVEACVYGTLDF 63
>gnl|CDD|179005 PRK00400, hisE, phosphoribosyl-ATP pyrophosphatase; Validated.
Length = 105
Score = 24.7 bits (55), Expect = 6.7
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 2 DVYDELDRRE 11
DV EL+RRE
Sbjct: 83 DVLAELERRE 92
>gnl|CDD|239548 cd03465, URO-D_like, The URO-D _like protein superfamily includes
bacterial and eukaryotic uroporphyrinogen decarboxylases
(URO-D), coenzyme M methyltransferases and other
putative bacterial methyltransferases. Uroporphyrinogen
decarboxylase (URO-D) decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, an important branching point of
the tetrapyrrole biosynthetic pathway. The
methyltransferases represented here are important for
ability of methanogenic organisms to use other compounds
than carbon dioxide for reduction to methane.
Length = 330
Score = 25.4 bits (56), Expect = 7.6
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 8/39 (20%)
Query: 67 DIIYIAVQRGSHGELDFDFSTIFLSGHARDYSWPFIKDI 105
D IYI+ S S+I +++S P++K +
Sbjct: 183 DGIYISDPWAS--------SSILSPEDFKEFSLPYLKKV 213
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site, and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 25.1 bits (56), Expect = 7.8
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 58 EEDFNTLVTD--IIYIAVQRGSHGELDF 83
+ L D ++ I + G+ ELD
Sbjct: 222 ARNLRALAPDGRLVLIGLLGGAKAELDL 249
>gnl|CDD|221047 pfam11255, DUF3054, Protein of unknown function (DUF3054). Some
members in this family of proteins are annotated as
membrane proteins however this cannot be confirmed.
Currently no function is known.
Length = 111
Score = 24.6 bits (54), Expect = 8.0
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 11/43 (25%)
Query: 64 LVTDI----IYIAVQRGSHGELDFDFSTIFLSGHARDYSWPFI 102
LV D+ ++ A+ R SHGE G +WPF+
Sbjct: 2 LVGDVVAVLVFAAIGRLSHGEGLSP-------GGVAATAWPFL 37
>gnl|CDD|225680 COG3138, AstA, Arginine/ornithine N-succinyltransferase beta
subunit [Amino acid transport and metabolism].
Length = 336
Score = 25.0 bits (55), Expect = 8.1
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 2 DVYD-----ELDRREVESIWQSVCQPPVGYELAPLGVPFLPVNRSLSSMR 46
D++D E ++ +I +S +P E P P+L N + R
Sbjct: 251 DIFDGGPTLECRIDDIRAIRESRRRPVEVAEGTPSDGPYLVANGNYHHFR 300
>gnl|CDD|237739 PRK14510, PRK14510, putative bifunctional
4-alpha-glucanotransferase/glycogen debranching enzyme;
Provisional.
Length = 1221
Score = 25.2 bits (55), Expect = 8.4
Identities = 12/54 (22%), Positives = 22/54 (40%)
Query: 11 EVESIWQSVCQPPVGYELAPLGVPFLPVNRSLSSMRNQGRQKLGRLNEEDFNTL 64
+ + + P L LGV + +N +S+ +LG N +NT+
Sbjct: 179 NLRGTFAKLAAPEAISYLKKLGVSIVELNPIFASVDEHHLPQLGLSNYWGYNTV 232
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 0.141 0.432
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,508,351
Number of extensions: 455288
Number of successful extensions: 346
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 20
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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: 53 (24.2 bits)