RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1634
(132 letters)
>gnl|CDD|220155 pfam09258, Glyco_transf_64, Glycosyl transferase family 64 domain.
Members of this family catalyze the transfer reaction of
N-acetylglucosamine and N-acetylgalactosamine from the
respective UDP-sugars to the non-reducing end of
[glucuronic acid]beta 1-3[galactose]beta
1-O-naphthalenemethanol, an acceptor substrate analog of
the natural common linker of various
glycosylaminoglycans. They are also required for the
biosynthesis of heparan-sulphate.
Length = 244
Score = 152 bits (387), Expect = 1e-47
Identities = 58/115 (50%), Positives = 75/115 (65%), Gaps = 6/115 (5%)
Query: 1 MLFLGAAFYHKYWNYMYTAHMPAPIRTYVDSHMNCEDIAMNFLVAHITAKAPIKVTPRKK 60
M+ GAAFYH+Y+ Y+YT +P IR VD NCEDI MNFLVA++T K PIKVT RK+
Sbjct: 136 MVLTGAAFYHRYYLYLYTHSLPKSIRDLVDETRNCEDILMNFLVANVTGKPPIKVTSRKQ 195
Query: 61 FKCPQCKNSELLSSDTKHMIERSKCVSLFAEIYGEGGIKGSPLRSVEFRADPVLF 115
+K + LSSD H ++RSKC++ F++I+G PL RADPVLF
Sbjct: 196 YKEGRN-GKVGLSSDPGHFLQRSKCINKFSKIFG-----YMPLVYSYIRADPVLF 244
>gnl|CDD|221123 pfam11495, Regulator_TrmB, Archaeal transcriptional regulator TrmB.
TrmB is an alpha-glucoside sensing transcriptional
regulator. The protein is the transcriptional repressor
for gene cluster encoding trehalose/maltose ABC
transporter in T.litoralis and P.furiosus. TrmB has lost
its DNA binding domain but retained its sugar
recognition site. A nonreducing glucosyl residue is
shared by all substrates bound to TrmB which suggests
that its a common recognition motif.
Length = 228
Score = 29.5 bits (67), Expect = 0.38
Identities = 11/52 (21%), Positives = 14/52 (26%), Gaps = 8/52 (15%)
Query: 8 FYHKYW---NYMYTAHMPAPIRTYVDSHMNCEDIAMNFLVAHITAKAPIKVT 56
F W +Y RT+ EDI + A I T
Sbjct: 124 FLTNLWKTSEEIYVDEPVPFPRTFTSIRHAVEDIK-----LLLRAGLRIYAT 170
>gnl|CDD|240606 cd12870, MqsA, antitoxin MqsA for MqsR toxin. This family
includes domains similar to the antitoxin MqsA that
binds motility quorum-sensing regulator MqsR, a toxin
that is highly upregulated in persisters (dormant cells
found in biofilms that are a source of antibiotic
resistance), thus forming a unique toxin:antitoxin (TA)
pair. MqsA neutralizes MsqR toxicity. It binds its own
promoter as well as those of genes important for E.
coli physiology, such as mcbR and spy. It also binds
zinc and has been shown to coordinate DNA via its
C-terminal domain. This family also includes the B.
subtilis YokU protein, which is functionally
uncharacterized.
Length = 66
Score = 27.3 bits (61), Expect = 0.87
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 62 KCPQCKNSELLSSDTKHMIERSKCV 86
KCP C EL+ T + R +
Sbjct: 1 KCPICGGGELVGGTTTWTLPRGGRL 25
>gnl|CDD|213778 TIGR03147, cyt_nit_nrfF, cytochrome c nitrite reductase,
accessory protein NrfF. [Energy metabolism, Electron
transport].
Length = 126
Score = 28.1 bits (63), Expect = 0.93
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 59 KKFKCPQCKNSELLSSD 75
K +CPQC+N L+ S+
Sbjct: 39 KSLRCPQCQNQNLVESN 55
>gnl|CDD|182265 PRK10144, PRK10144, formate-dependent nitrite reductase complex
subunit NrfF; Provisional.
Length = 126
Score = 27.5 bits (61), Expect = 1.2
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 60 KFKCPQCKNSELLSSDT 76
+ +CPQC+N LL S+
Sbjct: 40 QLRCPQCQNQNLLESNA 56
>gnl|CDD|237820 PRK14806, PRK14806, bifunctional cyclohexadienyl dehydrogenase/
3-phosphoshikimate 1-carboxyvinyltransferase;
Provisional.
Length = 735
Score = 28.0 bits (63), Expect = 1.6
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 29 VDSHMNCEDIAMNFLVAHITAKAPIKV 55
V+SH + IAM+F VA + A PI +
Sbjct: 681 VESHGD-HRIAMSFSVASLRASGPITI 706
>gnl|CDD|226060 COG3529, COG3529, Predicted nucleic-acid-binding protein
containing a Zn-ribbon domain [General function
prediction only].
Length = 66
Score = 26.3 bits (58), Expect = 1.7
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 55 VTPRKKF----KCPQCKNSELLSSDTKHMIERSKCV 86
+ RK+F CP C+ + L+ ++ +E +CV
Sbjct: 1 MAIRKRFIAGAVCPACQAQDTLAMWRENNVEIVECV 36
>gnl|CDD|215281 PLN02507, PLN02507, glutathione reductase.
Length = 499
Score = 26.7 bits (59), Expect = 3.9
Identities = 16/33 (48%), Positives = 16/33 (48%)
Query: 95 EGGIKGSPLRSVEFRADPVLFRDNFPPKLKRYN 127
EGGIK EF AD VLF P KR N
Sbjct: 274 EGGIKVITDHGEEFVADVVLFATGRAPNTKRLN 306
>gnl|CDD|216392 pfam01255, Prenyltransf, Putative undecaprenyl diphosphate
synthase. Previously known as uncharacterized protein
family UPF0015, a single member of this family has been
identified as an undecaprenyl diphosphate synthase.
Length = 222
Score = 26.3 bits (59), Expect = 4.8
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 3/17 (17%)
Query: 14 NYMYTAHMPAP---IRT 27
Y+YT+ +P P IRT
Sbjct: 156 KYLYTSDLPDPDLLIRT 172
>gnl|CDD|218986 pfam06317, Arena_RNA_pol, Arenavirus RNA polymerase. This family
consists of several Arenavirus RNA polymerase proteins
(EC:2.7.7.48).
Length = 2206
Score = 26.5 bits (59), Expect = 5.7
Identities = 15/41 (36%), Positives = 17/41 (41%), Gaps = 9/41 (21%)
Query: 81 ERSKCVSLFAEIYGEGGIKGSPLRSVEFRADPVLFRDNFPP 121
ERS+C S+ G G S F ADP F F P
Sbjct: 552 ERSRCYSINLSDKGVVGELCS------FYADPKRF---FLP 583
>gnl|CDD|220384 pfam09757, Arb2, Arb2 domain. A second fission yeast Argonaute
complex (Argonaute siRNA chaperone, ARC) that contains
two previously uncharacterized proteins, Arb1 and Arb2,
both of which are required for histone H3 Lys9 (H3-K9)
methylation, heterochromatin assembly and siRNA
generation. This family includes a region found in Arb2
and the Hda1 protein.
Length = 160
Score = 25.8 bits (57), Expect = 5.7
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 11 KYWNYMYTAHMPAPIRTYVDSHM 33
KYW + H+ IR Y +
Sbjct: 20 KYWECLREGHLHDVIRQYQSERL 42
>gnl|CDD|227225 COG4888, COG4888, Uncharacterized Zn ribbon-containing protein
[General function prediction only].
Length = 104
Score = 25.5 bits (56), Expect = 6.2
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 49 AKAPIKVTPR---KKFKCPQCKNSELLSSDT 76
+ IK P+ K F CP+C E +SS T
Sbjct: 8 RRKIIKRRPQVLPKTFTCPRC-GHEKVSSCT 37
>gnl|CDD|227532 COG5207, UBP14, Isopeptidase T [Posttranslational modification,
protein turnover, chaperones].
Length = 749
Score = 26.2 bits (57), Expect = 6.6
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 63 CPQCKNSELLSSDTKHMIERSKCVSLFAEIYGEGGI 98
+ +E++ + + R +C F I E I
Sbjct: 3 FSHSEMAEMVLPNLPAVRFREECCYCFRSIGDEHSI 38
>gnl|CDD|131058 TIGR02003, PTS-II-BC-unk1, PTS system, IIBC component. This model
represents a family of fused B and C components of PTS
enzyme II. This clade is a member of a larger family
which contains enzyme II's specific for a variety of
sugars including glucose (TIGR02002) and
N-acetylglucosamine (TIGR01998). None of the members of
this clade have been experimentally characterized. This
clade includes sequences from Streptococcus and
Enterococcus which also include a C-terminal A domain as
well as Bacillus and Clostridium which do not. In nearly
all cases, these species also contain an authentic
glucose-specific PTS transporter [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 548
Score = 26.1 bits (57), Expect = 6.6
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 3 FLGAAFYHKYWNY 15
FLGA Y+KY+NY
Sbjct: 150 FLGATAYNKYYNY 162
>gnl|CDD|233896 TIGR02495, NrdG2, anaerobic ribonucleoside-triphosphate reductase
activating protein. This enzyme is a member of the
radical-SAM family (pfam04055). It is often gene
clustered with the class III (anaerobic) ribonucleotide
triphosphate reductase (NrdD, TIGR02487) and presumably
fulfills the identical function as NrdG which utilizes
S-adenosyl methionine, an iron-sulfur cluster and a
reductant (dihydroflavodoxin) to produce a
glycine-centered radical in NrdD [Purines, pyrimidines,
nucleosides, and nucleotides, 2'-Deoxyribonucleotide
metabolism, Protein fate, Protein modification and
repair].
Length = 192
Score = 25.8 bits (57), Expect = 7.4
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 61 FKCPQCKNSELLSSDTKHMIE 81
KCP C N L+ IE
Sbjct: 28 LKCPYCHNPLLIPRRGSGEIE 48
>gnl|CDD|224819 COG1907, COG1907, Predicted archaeal sugar kinases [General
function prediction only].
Length = 312
Score = 25.8 bits (57), Expect = 9.4
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 9/35 (25%)
Query: 100 GSPLRSVEFRADPVLFRDNFP---------PKLKR 125
G + A P++FR +FP P+++R
Sbjct: 140 GHSFGFLPSSASPLIFRLDFPEDWRFVLAIPEVER 174
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
0.324 0.138 0.433
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,618,295
Number of extensions: 546569
Number of successful extensions: 617
Number of sequences better than 10.0: 1
Number of HSP's gapped: 615
Number of HSP's successfully gapped: 26
Length of query: 132
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 46
Effective length of database: 7,123,158
Effective search space: 327665268
Effective search space used: 327665268
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: 53 (24.1 bits)