RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy623
(69 letters)
>gnl|CDD|227410 COG5078, COG5078, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 153
Score = 71.5 bits (176), Expect = 7e-18
Identities = 29/56 (51%), Positives = 36/56 (64%)
Query: 5 PTSSALRALSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYFKV 60
+ SAL+ L E K LQ++P G V+DDNLF WE I GPPDT Y+GG FK+
Sbjct: 2 SSPSALKRLLKELKKLQKDPPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKL 57
>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 = 67.2 bits (165), Expect = 2e-16
Identities = 25/48 (52%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 13 LSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYFKV 60
L E K L ++P G V DDNLFEWEV I GP T Y+GG FK+
Sbjct: 2 LQKELKELLKDPPPGISAFPV-DDNLFEWEVTIIGPEGTPYEGGVFKL 48
>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 = 67.2 bits (165), Expect = 2e-16
Identities = 22/50 (44%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 11 RALSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYFKV 60
+ L E K L+++P G + V ++NL EW I GPPDT Y+GG FK+
Sbjct: 2 KRLQKELKDLKKDPPSGISAEPV-EENLLEWHGTIRGPPDTPYEGGIFKL 50
>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 = 62.7 bits (153), Expect = 2e-14
Identities = 23/50 (46%), Positives = 31/50 (62%)
Query: 13 LSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYFKVCV 62
L E K L+++P GF V+D+NL EW I GPP T Y+GG FK+ +
Sbjct: 2 LLKELKELRKDPPPGFTAYPVDDENLLEWTGTIVGPPGTPYEGGVFKLTI 51
>gnl|CDD|177768 PLN00172, PLN00172, ubiquitin conjugating enzyme; Provisional.
Length = 147
Score = 36.3 bits (83), Expect = 3e-04
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 9 ALRALSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYF 58
A + + E+K L ++P ++ NLF W +I GP D+ Y GG F
Sbjct: 2 ATKRIQKEHKDLLKDPPSNCSAGPSDE-NLFRWTASIIGPSDSPYAGGVF 50
>gnl|CDD|236422 PRK09234, fbiC, FO synthase; Reviewed.
Length = 843
Score = 28.0 bits (63), Expect = 0.28
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 9 ALRALSMEYKSLQEEPVEGFRVK 31
A+R L EY +QE V+ FR K
Sbjct: 255 AIRKLHREYGHIQEVIVQNFRAK 277
>gnl|CDD|240397 PTZ00390, PTZ00390, ubiquitin-conjugating enzyme; Provisional.
Length = 152
Score = 27.8 bits (62), Expect = 0.30
Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 8 SALRALSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGGYFKV 60
S + + E ++L +P G + + + N +++ + GP T Y+GGY+K+
Sbjct: 2 SISKRIEKETQNLANDPPPGIKAEP-DPGNYRHFKILMEGPDGTPYEGGYYKL 53
>gnl|CDD|237766 PRK14609, PRK14609, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 269
Score = 27.3 bits (61), Expect = 0.49
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 18 KSLQE---EPVEGFRVKLVND--DNLFEWEVAIFGPPDTLYQGG 56
SL+E +PVE ++ KLVND D++F I + LY+ G
Sbjct: 190 TSLKEIIRQPVEEWKNKLVNDFEDSVFPKYPEIAEIKEKLYRSG 233
>gnl|CDD|235625 PRK05852, PRK05852, acyl-CoA synthetase; Validated.
Length = 534
Score = 26.8 bits (59), Expect = 0.80
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 5/31 (16%)
Query: 23 EPVEGFRVKLVNDDNLFEWEVAIFGPPDTLY 53
E VEG L + N+ E A+FG PD LY
Sbjct: 444 ERVEGV---LASHPNVME--AAVFGVPDQLY 469
>gnl|CDD|226957 COG4591, LolE, ABC-type transport system, involved in lipoprotein
release, permease component [Cell envelope biogenesis,
outer membrane].
Length = 408
Score = 25.3 bits (56), Expect = 3.0
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 19 SLQEEPVEGFRVKLVNDDNLFEW--EVAIFGPPDTLY 53
+L + V G R+KL + N E ++ I P L
Sbjct: 214 NLPKGVVTGIRLKLKDPFNAEELKRKLEIELLPQGLK 250
>gnl|CDD|223200 COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA
glycosylase [DNA replication, recombination, and
repair].
Length = 285
Score = 25.1 bits (55), Expect = 3.1
Identities = 12/64 (18%), Positives = 19/64 (29%), Gaps = 8/64 (12%)
Query: 13 LSMEYKSLQEEPVEGFRVKLVNDDNLFEWEVAIFGPPDTLYQGG-------YFKVCVVWY 65
+S + + E+ R D +L A+ P G F +V
Sbjct: 54 VSASREPVAEDIEAALRRLFDLDPDLAPIIDALGPLPLLRAPGLRLPLAPDPF-EALVRA 112
Query: 66 KCSQ 69
SQ
Sbjct: 113 ILSQ 116
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 24.7 bits (55), Expect = 4.4
Identities = 10/17 (58%), Positives = 13/17 (76%), Gaps = 3/17 (17%)
Query: 18 KSLQEEPVEGFRVKLVN 34
K+L+EE G+RV LVN
Sbjct: 35 KALREE---GYRVVLVN 48
>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain
(CALCOCO1) like. Proteins found in this family are
similar to the coiled-coil transcriptional coactivator
protein coexpressed by Mus musculus (CoCoA/CALCOCO1).
This protein binds to a highly conserved N-terminal
domain of p160 coactivators, such as GRIP1, and thus
enhances transcriptional activation by a number of
nuclear receptors. CALCOCO1 has a central coiled-coil
region with three leucine zipper motifs, which is
required for its interaction with GRIP1 and may regulate
the autonomous transcriptional activation activity of
the C-terminal region.
Length = 546
Score = 24.6 bits (53), Expect = 4.9
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 8 SALRALSMEYKSLQEEPVE 26
SALR L E + LQEE E
Sbjct: 424 SALRVLQKEKEQLQEEKQE 442
>gnl|CDD|237010 PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase]
synthetase/biotin operon repressor; Provisional.
Length = 319
Score = 24.4 bits (54), Expect = 5.0
Identities = 7/35 (20%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 1 MAQVPTSSALRALSMEYKSLQEEPVEGFRVKLVND 35
AQ S + +++ ++L+ +K ND
Sbjct: 142 PAQAMGLSLVVGIAI-AEALRRLGAIDVGLKWPND 175
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
0.320 0.136 0.429
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: 3,464,462
Number of extensions: 244857
Number of successful extensions: 200
Number of sequences better than 10.0: 1
Number of HSP's gapped: 198
Number of HSP's successfully gapped: 14
Length of query: 69
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 30
Effective length of database: 9,207,796
Effective search space: 276233880
Effective search space used: 276233880
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 (21.8 bits)
S2: 53 (24.2 bits)