RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9168
(96 letters)
>gnl|CDD|220123 pfam09138, Urm1, Urm1 (Ubiquitin related modifier). Urm1 is a
ubiquitin related protein that modifies proteins in the
yeast ubiquitin-like pathway urmylation. Structural
comparisons and phylogenetic analysis of the ubiquitin
superfamily has indicated that Urm1 has the most
conserved structural and sequence features of the
common ancestor of the entire superfamily.
Length = 96
Score = 113 bits (284), Expect = 2e-34
Identities = 40/65 (61%), Positives = 52/65 (80%)
Query: 32 TIKGLIEWLKLNKLTERPELFVQGDSVRPGILVLINEADWELYGELTYELKENDTIMFIS 91
+ LI+++K N + ERPE+F++GD+VRPGILVLIN+ DWEL GEL Y L++ D I FIS
Sbjct: 32 NMGDLIDYIKKNLIKERPEVFLEGDTVRPGILVLINDCDWELLGELDYVLEDGDKITFIS 91
Query: 92 TLHGG 96
TLHGG
Sbjct: 92 TLHGG 96
>gnl|CDD|176360 cd01764, Urm1, Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related
Modifier1) The Urm1 fold, like those of two closely
related proteins MoaD (molybdopterin synthase) and ThiS
(sulfur carrier protein), is similar to that of
ubiquitin although there is little or no sequence
similarity. The C-terminal glycines of Urm1 are
conjugated to an E1-like protein Uba4 as part of a
novel conjugation system in yeast. The Urm1 fold is
found only in eukaryotes.
Length = 94
Score = 97.7 bits (244), Expect = 2e-28
Identities = 37/65 (56%), Positives = 51/65 (78%)
Query: 32 TIKGLIEWLKLNKLTERPELFVQGDSVRPGILVLINEADWELYGELTYELKENDTIMFIS 91
T+ L++++ N L ERP+LF++G SVRPGI+VLIN+ DWEL GE Y L++ D ++FIS
Sbjct: 30 TVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFIS 89
Query: 92 TLHGG 96
TLHGG
Sbjct: 90 TLHGG 94
>gnl|CDD|227460 COG5131, URM1, Ubiquitin-like protein [Posttranslational
modification, protein turnover, chaperones].
Length = 96
Score = 66.4 bits (162), Expect = 6e-16
Identities = 28/66 (42%), Positives = 42/66 (63%), Gaps = 1/66 (1%)
Query: 32 TIKGLIEWLKLNKLTE-RPELFVQGDSVRPGILVLINEADWELYGELTYELKENDTIMFI 90
++ LI+ L+ R +F++ +RPGI+ LIN+ DWEL + Y L++ D I+FI
Sbjct: 31 SVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFI 90
Query: 91 STLHGG 96
STLHGG
Sbjct: 91 STLHGG 96
>gnl|CDD|176354 cd00754, MoaD, Ubiquitin domain of MoaD-like proteins. MoaD
family. Members of this family are involved in
biosynthesis of the molybdenum cofactor (Moco), an
essential cofactor of a diverse group of redox enzymes.
Moco biosynthesis is an evolutionarily conserved
pathway present in eubacteria, archaea and eukaryotes.
Moco contains a tricyclic pyranopterin, termed
molybdopterin (MPT), that contains the cis-dithiolene
group responsible for molybdenum ligation. This
dithiolene group is generated by MPT synthase, the
second major step in Moco biosynthesis. MPT synthase
consists of a large (MoeE) and small (MoaD) subunit.
The small subunit is inserted into the lare subunit to
form the active site. The small subunit, which is
structurally similar to ubiquitin, contains a
C-terminal thiocarboxylated glycine residue that serves
as a sulfur donor for the synthesis of the MPT
dithiolene group.
Length = 80
Score = 31.4 bits (72), Expect = 0.015
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 11/65 (16%)
Query: 32 TIKGLIEWLKLNKLTERPELFVQGDSVRPGILVLINEADWELYGELTYELKENDTIMFIS 91
T+ L++ L+ P L + + + + +N Y L LK+ D + I
Sbjct: 27 TVGELLDALE----ARYPGLLEE---LLARVRIAVNGE----YVRLDTPLKDGDEVAIIP 75
Query: 92 TLHGG 96
+ GG
Sbjct: 76 PVSGG 80
>gnl|CDD|233531 TIGR01687, moaD_arch, MoaD family protein, archaeal. Members of
this family appear to be archaeal versions of MoaD,
subunit 1 of molybdopterin converting factor. This
model has been split from the bacterial/eukaryotic
equivalog model TIGR01682 because the presence of two
members of this family in a substantial number of
archaeal species suggests that roles might not be
interchangeable [Biosynthesis of cofactors, prosthetic
groups, and carriers, Molybdopterin].
Length = 88
Score = 30.5 bits (69), Expect = 0.042
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 32 TIKGLIEWLKLNKLTERPELFVQGDSVRPGILVLIN--EADWELYGELTYELKENDTIMF 89
T+ L+ L E ELF +G + P +++L+N DW L ELK+ D +
Sbjct: 26 TVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDW----GLGTELKDGDVVAI 81
Query: 90 ISTLHGG 96
+ GG
Sbjct: 82 FPPVSGG 88
>gnl|CDD|224888 COG1977, MoaD, Molybdopterin converting factor, small subunit
[Coenzyme metabolism].
Length = 84
Score = 30.4 bits (69), Expect = 0.044
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 9/65 (13%)
Query: 32 TIKGLIEWLKLNKLTERPELFVQGDSVRPGILVLINEADWELYGELTYELKENDTIMFIS 91
T+ L E L K ER L ++ + +++N A+ E L LK+ D + F
Sbjct: 29 TVGELEELLP--KEGERWLLALEDN-------IVVNAANNEFLVGLDTPLKDGDEVAFFP 79
Query: 92 TLHGG 96
+ GG
Sbjct: 80 PVSGG 84
>gnl|CDD|233849 TIGR02401, trehalose_TreY, malto-oligosyltrehalose synthase. This
enzyme, formally named (1->4)-alpha-D-glucan
1-alpha-D-glucosylmutase, is the TreY enzyme of the
TreYZ pathway of trehalose biosynthesis, an alternative
to the OtsAB pathway. Trehalose may be incorporated into
more complex compounds but is best known as compatible
solute. It is one of the most effective osmoprotectants,
and unlike the various betaines does not require
nitrogen for its synthesis [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 825
Score = 26.6 bits (59), Expect = 2.2
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 24 LFSSYLTGTIKGLIEWLKLNKLTERPELFVQGD 56
L L G +K + L E PELF QGD
Sbjct: 703 LELWLLDGLVKLAVTAAALQLRREHPELFGQGD 735
>gnl|CDD|148973 pfam07663, EIIBC-GUT_C, Sorbitol phosphotransferase enzyme II
C-terminus.
Length = 93
Score = 25.8 bits (57), Expect = 2.7
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 21 PTVLFSSYLTGTIKGLIEWL 40
P VL+S +LTG LI WL
Sbjct: 68 PAVLYSRFLTGPPAVLIAWL 87
>gnl|CDD|233147 TIGR00840, b_cpa1, sodium/hydrogen exchanger 3. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36)The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals.Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in(1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles.This model is specific for the
eukaryotic members members of this family [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 559
Score = 25.9 bits (57), Expect = 3.7
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 7 LEKNHTPYFDSFPKPT---VLFSSYLTG-TIKGLIEWLKLNKLTERPE 50
L++ PY F T V F+ G TIK L+E LK+ K
Sbjct: 378 LDEKIFPYKFLFVTTTLVVVFFTVIFQGGTIKPLVEVLKVKKGCISKT 425
>gnl|CDD|168927 PRK07374, dnaE, DNA polymerase III subunit alpha; Validated.
Length = 1170
Score = 25.5 bits (56), Expect = 5.2
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 13/49 (26%)
Query: 5 FPLEKNHTPYFDSFPKPTVLFSSYLTG-TIKGLIEWLKLNKLTERPELF 52
FP+ + HT SYLT T +GL++ LKLN L E E +
Sbjct: 293 FPIPEGHTAV------------SYLTEVTEQGLLKRLKLNSLDEIDENY 329
>gnl|CDD|220661 pfam10263, SprT-like, SprT-like family. This family represents a
domain found in eukaryotes and prokaryotes. The domain
contains a characteristic motif of the zinc
metallopeptidases. This family includes the bacterial
SprT protein.
Length = 153
Score = 25.0 bits (55), Expect = 5.3
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 14 YFDSFPKPTVLFSSYLTGTI-----KGLIEWLKLNK--LTERPELFV 53
+F F +P V++S L T K ++LN L E E +
Sbjct: 12 FFHGFLRPKVVWSKRLRTTAGRARLKRNSAEIRLNPKLLAENSEEEL 58
>gnl|CDD|236548 PRK09525, lacZ, beta-D-galactosidase; Reviewed.
Length = 1027
Score = 24.9 bits (55), Expect = 8.0
Identities = 9/17 (52%), Positives = 9/17 (52%), Gaps = 2/17 (11%)
Query: 3 WTFPLEKNHTPYFDSFP 19
W PL HTPY FP
Sbjct: 922 WDLPLSDMHTPYI--FP 936
>gnl|CDD|233097 TIGR00705, SppA_67K, signal peptide peptidase SppA, 67K type. This
model represents the signal peptide peptidase A (SppA,
protease IV) as found in E. coli, Treponema pallidum,
Mycobacterium leprae, and several other species, in
which it has a molecular mass around 67 kDa and a
duplication such that the N-terminal half shares
extensive homology with the C-terminal half. This enzyme
was shown in E. coli to form homotetramers. E. coli
SohB, which is most closely homologous to the C-terminal
duplication of SppA, is predicted to perform a similar
function of small peptide degradation, but in the
periplasm. Many prokaryotes have a single SppA/SohB
homolog that may perform the function of either or both
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 584
Score = 24.8 bits (54), Expect = 9.1
Identities = 5/23 (21%), Positives = 7/23 (30%)
Query: 18 FPKPTVLFSSYLTGTIKGLIEWL 40
+ L S L GL +
Sbjct: 533 YKDSATLGSELLQNLWDGLQKRS 555
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
0.319 0.140 0.437
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,015,056
Number of extensions: 410856
Number of successful extensions: 388
Number of sequences better than 10.0: 1
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 22
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
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 (21.7 bits)
S2: 53 (24.2 bits)