RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9626
(145 letters)
>gnl|CDD|219498 pfam07651, ANTH, ANTH domain. AP180 is an endocytotic accessory
proteins that has been implicated in the formation of
clathrin-coated pits. The domain is involved in
phosphatidylinositol 4,5-bisphosphate binding and is a
universal adaptor for nucleation of clathrin coats.
Length = 278
Score = 113 bits (285), Expect = 1e-31
Identities = 49/148 (33%), Positives = 73/148 (49%), Gaps = 11/148 (7%)
Query: 3 AILGTFHD--KSSTIFWQCASRLPLMENVIVAWKFCHVLHKILREGHPHVIKESIKQAQV 60
IL K + +FW + RLPL N +VA K ++HK+LREGHP V++E ++ +
Sbjct: 26 EILVGTSSPAKVAALFWALSRRLPLTRNWVVALKALILVHKLLREGHPSVLQELLRARRR 85
Query: 61 ITNVGKMW-----FHLKDGYGKLIYQYTRLLLGKLDFHRRNPGFPGNLILSQSELDRIGE 115
I+++ ++ L YG I Y + L +LDFHR+ P P + R
Sbjct: 86 ISSLLRISSFDDSMSLTWDYGAFIRAYAKYLDERLDFHRKLPRDP-TFERVEYGSLRAV- 143
Query: 116 NDINNYFQMSVEMFDYLDEILALQAAVF 143
D N+ + MS M D LD I LQ +
Sbjct: 144 GDPNSRYTMS--MEDLLDIIPKLQKLLD 169
>gnl|CDD|214594 smart00273, ENTH, Epsin N-terminal homology (ENTH) domain.
Length = 127
Score = 84.6 bits (210), Expect = 5e-22
Identities = 30/101 (29%), Positives = 43/101 (42%), Gaps = 4/101 (3%)
Query: 4 ILGTFHDKSSTIFWQCASRLPLME--NVIVAWKFCHVLHKILREGHPHVIKESIKQAQVI 61
I GT ++KSS L + N V +K +LH +LR G P VI E+++ I
Sbjct: 27 IQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEALRNRNRI 86
Query: 62 TNVGKMWFHLKDG--YGKLIYQYTRLLLGKLDFHRRNPGFP 100
N+ G G I Y + LL +L+ RR
Sbjct: 87 LNLSDFQDIDSRGKDQGANIRTYAKYLLERLEDDRRLKEER 127
>gnl|CDD|239622 cd03564, ANTH_AP180_CALM, ANTH domain family; composed of adaptor
protein 180 (AP180), clathrin assembly lymphoid myeloid
leukemia protein (CALM) and similar proteins. A set of
proteins previously designated as harboring an ENTH
domain in fact contains a highly similar, yet unique
module referred to as an AP180 N-terminal homology
(ANTH) domain. AP180 and CALM play important roles in
clathrin-mediated endocytosis. AP180 is a brain-specific
clathrin-binding protein which stimulates clathrin
assembly during the recycling of synaptic vesicles. The
ANTH domain is structurally similar to the VHS domain
and is composed of a superhelix of eight alpha helices.
ANTH domains bind both inositol phospholipids and
proteins, and contribute to the nucleation and formation
of clathrin coats on membranes. ANTH-bearing proteins
have recently been shown to function with adaptor
protein-1 and GGA adaptors at the trans-Golgi network,
which suggests that the ANTH domain is a universal
component of the machinery for clathrin-mediated
membrane budding.
Length = 117
Score = 69.2 bits (170), Expect = 4e-16
Identities = 30/93 (32%), Positives = 42/93 (45%), Gaps = 3/93 (3%)
Query: 4 ILGTFHDKSST-IFWQCASRLPLMENVIVAWKFCHVLHKILREGHPHVIKESIKQAQVIT 62
I GT +S F SR L N +V K +LH++LREGHP ++E + + +
Sbjct: 25 IAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELLSRRGWLN 84
Query: 63 NVGKMW--FHLKDGYGKLIYQYTRLLLGKLDFH 93
+ L GY I Y R L +L FH
Sbjct: 85 LSNFLDKSSSLGYGYSAFIRAYARYLDERLSFH 117
>gnl|CDD|216488 pfam01417, ENTH, ENTH domain. The ENTH (Epsin N-terminal homology)
domain is found in proteins involved in endocytosis and
cytoskeletal machinery. The function of the ENTH domain
is unknown.
Length = 124
Score = 32.5 bits (75), Expect = 0.026
Identities = 20/102 (19%), Positives = 37/102 (36%), Gaps = 9/102 (8%)
Query: 1 MNAIL-GTFHDKSSTIFWQCA-SRL-PLMENVIVAWKFCHVLHKILREGHPHVIKESIKQ 57
M I T+ + RL +N +K +L +L+ G V+ + +
Sbjct: 24 MAEIARLTYDYVEFFEIMEVLWKRLNDSGKNWRHVYKALTLLEYLLKNGSERVVDDLREH 83
Query: 58 AQVITNVGKMWFHLKDGYGK----LIYQYTRLLLGKLDFHRR 95
+I + FH D GK + + + +L L+ R
Sbjct: 84 IYIIRTLRD--FHYIDEDGKDQGINVRKKAKQILNLLEDDER 123
>gnl|CDD|183723 PRK12753, PRK12753, transketolase; Reviewed.
Length = 663
Score = 28.9 bits (65), Expect = 1.2
Identities = 13/28 (46%), Positives = 20/28 (71%), Gaps = 3/28 (10%)
Query: 37 HVLHKILREGH-PHVIKESIKQAQVITN 63
HV+H+I +GH P IKE+I +AQ + +
Sbjct: 211 HVIHEI--DGHDPQAIKEAILEAQSVKD 236
>gnl|CDD|206775 cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryotic exosome. The
RRP41 subunit of eukaryotic exosome is a member of the
RNase_PH family, named after the bacterial Ribonuclease
PH, a 3'-5' exoribonuclease. Structurally all members of
this family form hexameric rings (trimers of
Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The
eukaryotic exosome core is composed of six individually
encoded RNase PH-like subunits and three additional
proteins (Rrp4, Csl4 and Rrp40) that form a stable cap
and contain RNA-binding domains. The RNase PH-like
subunits are no longer phosphorolytic enzymes, the
exosome directly associates with Rrp44 and Rrp6,
hydrolytic exoribonucleases related to bacterial RNase
II/R and RNase D. The exosome plays an important role in
RNA turnover. It plays a crucial role in the maturation
of stable RNA species such as rRNA, snRNA and snoRNA,
quality control of mRNA, and the degradation of RNA
processing by-products and non-coding transcripts.
Length = 226
Score = 27.9 bits (63), Expect = 1.7
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 6/46 (13%)
Query: 3 AILGTFHDKSSTIFWQCASRLPL--MENVI-VAWKFCHVLHKILRE 45
A+L DK + Q SRL L +E V+ +A + C V+ +I+ E
Sbjct: 177 AVLP-KSDK--VVLLQMESRLHLDRLEKVLELAIEGCKVIREIMDE 219
>gnl|CDD|145780 pfam02805, Ada_Zn_binding, Metal binding domain of Ada. The
Escherichia coli Ada protein repairs O6-methylguanine
residues and methyl phosphotriesters in DNA by direct
transfer of the methyl group to a cysteine residue.
This domain contains four conserved cysteines that form
a zinc binding site. One of these cysteines is a methyl
group acceptor. The methylated domain can then
specifically bind to the ada box on a DNA duplex.
Length = 66
Score = 25.9 bits (58), Expect = 2.9
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 19 CASRLPLMENV 29
C +RLP ENV
Sbjct: 33 CPARLPKRENV 43
>gnl|CDD|237953 PRK15378, PRK15378, inositol phosphate phosphatase SopB;
Provisional.
Length = 564
Score = 27.2 bits (60), Expect = 3.4
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 71 LKDGYGKLIYQYTRLLLGKLDFHRRNPGFPGNLI--------LSQSELDRIGENDI 118
L + I+Q L G L+ + N G GN + L+ S RIG+ +I
Sbjct: 496 LPSSGEQKIFQKILLNSGNLEIQKINTGGAGNKVMKNLSLEVLNLSYQKRIGDENI 551
>gnl|CDD|149592 pfam08593, MUG2_C, Meiotically up-regulated glycoproteins
C-terminal. This is the C-terminal part of some
meiotically up-regulated gene products from fission
yeast. The actual function is not yet known but the
proteins are likely to be cell-surface glycoproteins.
Length = 94
Score = 26.2 bits (58), Expect = 3.6
Identities = 15/51 (29%), Positives = 17/51 (33%), Gaps = 10/51 (19%)
Query: 85 LLLGKLDFHRRNPG-------FPGNLILSQSELDRIGE-NDINN--YFQMS 125
LL + RR G FP Q L IG DI+ Q S
Sbjct: 3 LLSKLENMTRRKNGYPATPVPFPNGEEPEQPLLPPIGSIQDIDILSKEQCS 53
>gnl|CDD|169269 PRK08192, PRK08192, aspartate carbamoyltransferase; Provisional.
Length = 338
Score = 27.0 bits (60), Expect = 4.0
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 99 FPGNLILSQSELDRIGENDINNYFQMSVEMFDY 131
F G+ ILS ++LDR + I F ++ M Y
Sbjct: 3 FQGSHILSVNQLDR---DAIQRIFNVADRMEPY 32
>gnl|CDD|99966 cd03792, GT1_Trehalose_phosphorylase, Trehalose phosphorylase (TP)
reversibly catalyzes trehalose synthesis and degradation
from alpha-glucose-1-phosphate (alpha-Glc-1-P) and
glucose. The catalyzing activity includes the
phosphorolysis of trehalose, which produce alpha-Glc-1-P
and glucose, and the subsequent synthesis of trehalose.
This family is most closely related to the GT1 family of
glycosyltransferases.
Length = 372
Score = 26.4 bits (59), Expect = 6.2
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 38 VLHKILREGHPHVIKESI-KQAQVI-TNVGKMWFHLKDGYG 76
VL K +REG + E++ K VI VG + ++DG
Sbjct: 277 VLQKSIREGFGLTVTEALWKGKPVIAGPVGGIPLQIEDGET 317
>gnl|CDD|237539 PRK13878, PRK13878, conjugal transfer relaxase TraI; Provisional.
Length = 746
Score = 26.6 bits (59), Expect = 6.5
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 87 LGKLDFHRRNPGFPGNLILSQSELDRIGENDINNYFQMSVEMFDYLDEILALQAA 141
L K DF G + QS+ +R+G + N +V+ D + E+LA Q
Sbjct: 11 LKKSDF----AGLVKYITDEQSKDERLGHVQVTNCEAGTVQ--DAITEVLATQHT 59
>gnl|CDD|223344 COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication,
recombination, and repair].
Length = 273
Score = 26.1 bits (58), Expect = 7.9
Identities = 9/29 (31%), Positives = 9/29 (31%), Gaps = 7/29 (24%)
Query: 56 KQAQVITNVGKMWFHLKDGYGKLIYQYTR 84
K V F L DG L Y R
Sbjct: 91 KHDHVD-------FVLSDGKDVLRYNDPR 112
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 26.1 bits (58), Expect = 8.1
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 90 LDFHRRNPGFPGNLIL 105
LDF RR G P LIL
Sbjct: 64 LDFPRRKSGPPRILIL 79
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
0.326 0.141 0.441
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,572,867
Number of extensions: 682618
Number of successful extensions: 698
Number of sequences better than 10.0: 1
Number of HSP's gapped: 694
Number of HSP's successfully gapped: 28
Length of query: 145
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 57
Effective length of database: 7,034,450
Effective search space: 400963650
Effective search space used: 400963650
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.5 bits)