RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10015
(90 letters)
>gnl|CDD|227410 COG5078, COG5078, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 153
Score = 55.7 bits (135), Expect = 2e-11
Identities = 24/43 (55%), Positives = 32/43 (74%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
+ SAL+RL+ E K+L +PP GI AGPV+++N F WEA ITG
Sbjct: 2 SSPSALKRLLKELKKLQKDPPPGISAGPVDDDNLFHWEATITG 44
>gnl|CDD|238117 cd00195, UBCc, Ubiquitin-conjugating enzyme E2, catalytic (UBCc)
domain. This is part of the ubiquitin-mediated protein
degradation pathway in which a thiol-ester linkage
forms between a conserved cysteine and the C-terminus
of ubiquitin and complexes with ubiquitin protein
ligase enzymes, E3. This pathway regulates many
fundamental cellular processes. There are also other
E2s which form thiol-ester linkages without the use of
E3s as well as several UBC homologs (TSG101, Mms2,
Croc-1 and similar proteins) which lack the active site
cysteine essential for ubiquitination and appear to
function in DNA repair pathways which were omitted from
the scope of this CD.
Length = 141
Score = 46.8 bits (112), Expect = 4e-08
Identities = 19/37 (51%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 7 RRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
+RL E K L +PP GI A PV EEN EW I G
Sbjct: 2 KRLQKELKDLKKDPPSGISAEPV-EENLLEWHGTIRG 37
>gnl|CDD|215772 pfam00179, UQ_con, Ubiquitin-conjugating enzyme. Proteins
destined for proteasome-mediated degradation may be
ubiquitinated. Ubiquitination follows conjugation of
ubiquitin to a conserved cysteine residue of UBC
homologues. TSG101 is one of several UBC homologues
that lacks this active site cysteine.
Length = 139
Score = 44.5 bits (106), Expect = 3e-07
Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 8 RLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNK--LYE 48
RL E K+L +PP GI A PV ++N FEWE I G + YE
Sbjct: 1 RLQKELKELLKDPPPGISAFPV-DDNLFEWEVTIIGPEGTPYE 42
>gnl|CDD|214562 smart00212, UBCc, Ubiquitin-conjugating enzyme E2, catalytic
domain homologues. Proteins destined for
proteasome-mediated degradation may be ubiquitinated.
Ubiquitination follows conjugation of ubiquitin to a
conserved cysteine residue of UBC homologues. This
pathway functions in regulating many fundamental
processes required for cell viability.TSG101 is one of
several UBC homologues that lacks this active site
cysteine.
Length = 145
Score = 44.6 bits (106), Expect = 3e-07
Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 8 RLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNK--LYE 48
RL+ E K+L +PP G A PV++EN EW I G YE
Sbjct: 1 RLLKELKELRKDPPPGFTAYPVDDENLLEWTGTIVGPPGTPYE 43
>gnl|CDD|177768 PLN00172, PLN00172, ubiquitin conjugating enzyme; Provisional.
Length = 147
Score = 33.2 bits (75), Expect = 0.007
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
A +R+ E+K L +PP AGP + EN F W A I G
Sbjct: 2 ATKRIQKEHKDLLKDPPSNCSAGPSD-ENLFRWTASIIG 39
>gnl|CDD|239421 cd03171, SORL_Dfx_classI, Superoxide reductase-like (SORL)
domain, class I; SORL-domains are present in a family
of mononuclear non-heme iron proteins that includes
superoxide reductase and desulfoferrodoxin. Superoxide
reductase-like proteins scavenge superoxide anion
radicals as a defense mechanism against reactive oxygen
species and are found in anaerobic bacteria and
archeae, and microaerophilic Treponema pallidum.
Desulfoferrodoxin (class I) is a homodimeric protein,
with each protomer comprised of two domains, the
N-terminal desulforedoxin (DSRD) domain and C-terminal
SORL domain. Each domain has a distinct iron center:
the DSRD iron center I, Fe(S-Cys)4; and the SORL iron
center II, Fe[His4Cys(Glu)].
Length = 78
Score = 27.0 bits (60), Expect = 0.68
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 23 GIIAGPVNEENFFEWEALITGNKLY 47
G +A P+ E+++ EW L+ K+Y
Sbjct: 20 GSVAHPMEEKHYIEWIELLADGKVY 44
>gnl|CDD|236914 PRK11466, PRK11466, hybrid sensory histidine kinase TorS;
Provisional.
Length = 914
Score = 27.6 bits (61), Expect = 1.0
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 6 LRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNKLYEWM 50
L +L+A Y QL +N P++ E AL+ K++EW+
Sbjct: 790 LGQLLAHYLQLQVN-----NDQPLDVSQLNEDAALMGTEKIHEWL 829
>gnl|CDD|237356 PRK13347, PRK13347, coproporphyrinogen III oxidase; Provisional.
Length = 453
Score = 26.9 bits (60), Expect = 1.6
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 17 TINPPEGIIAGPVNEENFFEWEALITGNK---LYEWMPFALNLCYF 59
T P + E+ + EW I + LY +PF +LC+F
Sbjct: 21 TSYPTAPEFSPAFGEDTYREWLRQIGPEEPVSLYLHVPFCRSLCWF 66
>gnl|CDD|193560 cd08012, M20_ArgE-related, M20 Peptidases with simlarity to
acetylornithine deacetylases. Peptidase M20 family,
acetylornithine deacetylase (ArgE, Acetylornithinase,
AO, N2-acetyl-L-ornithine amidohydrolase, EC
3.5.1.16)-related subfamily. Proteins in this subfamily
have not yet been characterized, but have been
predicted to have deacetylase activity. ArgE catalyzes
the conversion of N-acetylornithine to ornithine, which
can then be incorporated into the urea cycle for the
final stage of arginine synthesis. The substrate
specificity of ArgE is quite broad; several
alpha-N-acyl-L-amino acids can be hydrolyzed, including
alpha-N-acetylmethionine and alpha-N-formylmethionine.
ArgE shares significant sequence homology and
biochemical features, and possibly a common origin,
with glutamate carboxypeptidase (CPG2) and
succinyl-diaminopimelate desuccinylase (DapE), and
aminoacylase I (ACY1), having all metal ligand binding
residues conserved.
Length = 423
Score = 25.5 bits (56), Expect = 5.0
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 6 LRRLMAEYKQLTINPPEGI 24
LR+L+ E K L NPP +
Sbjct: 10 LRKLIGESKTLQNNPPALV 28
>gnl|CDD|165201 PHA02867, PHA02867, C-type lectin protein; Provisional.
Length = 167
Score = 25.0 bits (54), Expect = 6.1
Identities = 6/21 (28%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 48 EWMPFALNLCYFFSKGNSGWY 68
EW+ + + CY+F+ + W
Sbjct: 52 EWIGYN-SKCYYFTINETNWN 71
>gnl|CDD|226857 COG4449, COG4449, Predicted protease of the Abi (CAAX) family
[General function prediction only].
Length = 827
Score = 25.3 bits (55), Expect = 6.3
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 12 EYKQLTINPPEGIIAGPVNEENF 34
Y Q+ + P+GIIAG EN+
Sbjct: 410 PYYQVYAHNPQGIIAGSQTWENY 432
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 24.8 bits (55), Expect = 6.5
Identities = 12/29 (41%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 2 AGSALRRLMAEYKQ-----LTINPPEGII 25
A ALRR M Y Q L+ N II
Sbjct: 118 AQQALRRTMEMYSQNTRFILSCNYSSKII 146
>gnl|CDD|185040 PRK15082, PRK15082, glutathione ABC transporter permease GsiD;
Provisional.
Length = 301
Score = 25.1 bits (55), Expect = 6.9
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 28 PVNEENFFEWEALITGNKLYEWM 50
P + EN+F+++AL G L W
Sbjct: 60 PYDAENYFDYDALNAGPSLQHWF 82
>gnl|CDD|215273 PLN02495, PLN02495, oxidoreductase, acting on the CH-CH group of
donors.
Length = 385
Score = 24.8 bits (54), Expect = 7.2
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 9 LMAEYKQLTINPPEGIIAGPVNEE-NFFEWEALI 41
++AE+KQL P+ I+ + EE N WE +I
Sbjct: 100 MLAEFKQLKEEYPDRILIASIMEEYNKDAWEEII 133
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 0.139 0.448
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,675,714
Number of extensions: 376191
Number of successful extensions: 288
Number of sequences better than 10.0: 1
Number of HSP's gapped: 286
Number of HSP's successfully gapped: 18
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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)