RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10992
(179 letters)
>gnl|CDD|183087 PRK11325, PRK11325, scaffold protein; Provisional.
Length = 127
Score = 260 bits (667), Expect = 5e-91
Identities = 100/124 (80%), Positives = 111/124 (89%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E VIDHYENPRNVGS DK D NVGTG+VGAPACGDVMKLQIKV+D G I DAKFKT+G
Sbjct: 3 YSEKVIDHYENPRNVGSFDKNDPNVGTGMVGAPACGDVMKLQIKVNDEGIIEDAKFKTYG 62
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELCLPPVKLHCSMLAEDAIKAALSDYR 169
CGSAIASSSL TEWVKGKT+DEAL +KNTDIA+EL LPPVK+HCS+LAEDAIKAA++DY+
Sbjct: 63 CGSAIASSSLVTEWVKGKTLDEALAIKNTDIAEELALPPVKIHCSILAEDAIKAAIADYK 122
Query: 170 IKQN 173
KQ
Sbjct: 123 SKQA 126
>gnl|CDD|188192 TIGR01999, iscU, FeS cluster assembly scaffold IscU. This model
represents IscU, a homolog of the N-terminal region of
NifU, an Fe-S cluster assembly protein found mostly in
nitrogen-fixing bacteria. IscU is considered part of the
IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU
is found in nitrogenase-containing (nitrogen-fixing)
species. A NifU-type protein is also found in
Helicobacter and Campylobacter. IscU and NifU are
considered scaffold proteins on which Fe-S clusters are
assembled before transfer to apoproteins. This model
excludes true NifU proteins as in Klebsiella pneumoniae
and Anabaena sp. as well as archaeal homologs. It
includes largely proteobacterial and eukaryotic forms
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 124
Score = 246 bits (631), Expect = 2e-85
Identities = 103/124 (83%), Positives = 114/124 (91%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E VIDHYENPRNVGSLDK DKNVGTGLVGAPACGDVMKLQIKV+D+G I DAKFKTFG
Sbjct: 1 YSEKVIDHYENPRNVGSLDKDDKNVGTGLVGAPACGDVMKLQIKVNDDGIIEDAKFKTFG 60
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELCLPPVKLHCSMLAEDAIKAALSDYR 169
CGSAIASSSLATE +KGK+++EALK+KNT+IAKEL LPPVKLHCS+LAEDAIKAA+ DY+
Sbjct: 61 CGSAIASSSLATELIKGKSLEEALKIKNTEIAKELSLPPVKLHCSLLAEDAIKAAIKDYK 120
Query: 170 IKQN 173
KQ
Sbjct: 121 SKQE 124
>gnl|CDD|216592 pfam01592, NifU_N, NifU-like N terminal domain. This domain is
found in NifU in combination with pfam01106. This domain
is found on isolated in several bacterial species. The
nif genes are responsible for nitrogen fixation. However
this domain is found in bacteria that do not fix
nitrogen, so it may have a broader significance in the
cell than nitrogen fixation. These proteins appear to be
scaffold proteins for iron-sulfur clusters.
Length = 126
Score = 204 bits (521), Expect = 1e-68
Identities = 83/128 (64%), Positives = 102/128 (79%), Gaps = 5/128 (3%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVD-DNGKIIDAKFKTF 108
Y + V+DH++NPRNVG L++ D G VG+PACGD M+LQIKVD D +I DAKFKTF
Sbjct: 2 YSDKVLDHFKNPRNVGVLEEAD---AVGDVGSPACGDAMRLQIKVDEDTDRIEDAKFKTF 58
Query: 109 GCGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELC-LPPVKLHCSMLAEDAIKAALSD 167
GCGSAIASSS TE VKGKT+DEALK+ NTDIA+EL LPPVK+HCS+L +DA+KAA++D
Sbjct: 59 GCGSAIASSSALTELVKGKTLDEALKITNTDIAEELGGLPPVKMHCSVLGDDALKAAIAD 118
Query: 168 YRIKQNSA 175
Y+ K A
Sbjct: 119 YKGKNLCA 126
>gnl|CDD|132460 TIGR03419, NifU_clost, FeS cluster assembly scaffold protein NifU,
Clostridium type. NifU and NifS form a pair of
iron-sulfur (FeS) cluster biosynthesis proteins much
simpler than the ISC and SUF systems. Members of this
protein family are a distinct group of NifU-like
proteins, found always to a NifS-like protein and
restricted to species that lack a SUF system. Typically,
NIF systems service a smaller number of FeS-containing
proteins than do ISC or SUF. Members of this particular
branch typically are found, almost half the time, near
the mnmA gene, involved in the carboxymethylaminomethyl
modification of U34 in some tRNAs (see GenProp0704).
While other NifU proteins are associated with nitrogen
fixation, this family is not [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 121
Score = 171 bits (435), Expect = 1e-55
Identities = 72/125 (57%), Positives = 94/125 (75%), Gaps = 5/125 (4%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E V+DH+ NPRNVG ++ D G G VG P CGD+MK+ +KV+D+ I D KFKTFG
Sbjct: 1 YSEKVMDHFMNPRNVGEIENAD---GVGEVGNPKCGDIMKIFLKVEDD-IIKDVKFKTFG 56
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKEL-CLPPVKLHCSMLAEDAIKAALSDY 168
CG+AIASSS+ATE +KGKT++EA +L N +A+ L LPPVK+HCS+LAE+AI A++DY
Sbjct: 57 CGAAIASSSMATEMIKGKTLEEAWELTNKAVAEALDGLPPVKMHCSVLAEEAIHKAINDY 116
Query: 169 RIKQN 173
R K
Sbjct: 117 REKNG 121
>gnl|CDD|223892 COG0822, IscU, NifU homolog involved in Fe-S cluster formation
[Energy production and conversion].
Length = 150
Score = 164 bits (417), Expect = 1e-52
Identities = 80/147 (54%), Positives = 96/147 (65%), Gaps = 22/147 (14%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E ++DHY+NPRNVG LD D VG G VGAPACGDV+ L +KVD NG I DAKFK FG
Sbjct: 7 YSEKILDHYKNPRNVGVLDDAD--VGVGHVGAPACGDVITLYLKVD-NGVIEDAKFKGFG 63
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLK--NTDIAKELC-----------------LPPVK 150
C +IASSS+ TE VKGKT+DEALK+ TD+AKEL LPP +
Sbjct: 64 CAISIASSSMMTELVKGKTLDEALKITEAFTDMAKELGGDPDDRLGDLVALAGVALPPAR 123
Query: 151 LHCSMLAEDAIKAALSDYRIKQNSAKA 177
+ CS+LA DA+KAA+ DY+ K A
Sbjct: 124 IKCSLLAWDALKAAIKDYKGKAEEAVE 150
>gnl|CDD|143480 cd06664, IscU_like, Iron-sulfur cluster scaffold-like proteins.
IscU_like and NifU_like proteins. IscU and NifU function
as a scaffold for the assembly of [2Fe-2S] clusters
before they are transferred to apo target proteins. They
are highly conserved and play vital roles in the ISC and
NIF systems of Fe-S protein maturation. NIF genes
participate in nitrogen fixation in several isolated
bacterial species. The NifU domain, however, is also
found in bacteria that do not fix nitrogen, so it may
have wider significance in the cell. Human IscU
interacts with frataxin, the Friedreich ataxia gene
product, and incorrectly spliced IscU has been shown to
disrupt iron homeostasis in skeletal muscle and cause
myopathy.
Length = 123
Score = 161 bits (409), Expect = 9e-52
Identities = 66/126 (52%), Positives = 84/126 (66%), Gaps = 15/126 (11%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E ++DHY NPRNVG L+ GTG VG P CGD + L +KV+D G+I DAKF+ FG
Sbjct: 2 YSEIILDHYRNPRNVGRLED---ADGTGEVGNPLCGDEITLYLKVED-GRITDAKFQGFG 57
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKE-----------LCLPPVKLHCSMLAE 158
C +IAS+SL TE +KGKT+DEALKL N DIA + LPP ++HC++LA
Sbjct: 58 CAISIASASLLTELIKGKTLDEALKLLNKDIAMLDGKEELAALAGVGLPPARIHCALLAW 117
Query: 159 DAIKAA 164
A+KAA
Sbjct: 118 KALKAA 123
>gnl|CDD|233679 TIGR02000, NifU_proper, Fe-S cluster assembly protein NifU. Three
different but partially homologous Fe-S cluster assembly
systems have been described: Isc, Suf, and Nif. The
latter is associated with donation of an Fe-S cluster to
nitrogenase in a number of nitrogen-fixing species.
NifU, described here, consists of an N-terminal domain
(pfam01592) and a C-terminal domain (pfam01106).
Homologs with an equivalent domain archictecture from
Helicobacter and Campylobacter, however, are excluded
from this model by a high trusted cutoff. The model,
therefore, is specific for NifU involved in nitrogenase
maturation. The related model TIGR01999 homologous to
the N-terminus of this model describes IscU from the Isc
system as in E. coli, Saccharomyces cerevisiae, and Homo
sapiens [Biosynthesis of cofactors, prosthetic groups,
and carriers, Other, Central intermediary metabolism,
Nitrogen fixation].
Length = 290
Score = 136 bits (343), Expect = 8e-40
Identities = 61/122 (50%), Positives = 90/122 (73%), Gaps = 5/122 (4%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVD-DNGKIIDAKFKTF 108
Y + V +H+ NP+N G ++ + G VG+ +CGD ++L +KVD ++ KI+DA F+TF
Sbjct: 4 YTDKVKEHFYNPKNAGVVEDANA---VGEVGSISCGDALRLMLKVDPESDKIVDAGFQTF 60
Query: 109 GCGSAIASSSLATEWVKGKTVDEALKLKNTDIAKEL-CLPPVKLHCSMLAEDAIKAALSD 167
GCGSAIASSS TE +KG T+DEALK+ N DIA L LPP K+HCS++ ++A++AA+++
Sbjct: 61 GCGSAIASSSALTEMIKGLTLDEALKVSNQDIADYLGGLPPEKMHCSVMGQEALEAAIAN 120
Query: 168 YR 169
YR
Sbjct: 121 YR 122
>gnl|CDD|233676 TIGR01994, SUF_scaf_2, SUF system FeS assembly protein, NifU
family. Three iron-sulfur cluster assembly systems are
known so far. ISC is broadly distributed while NIF tends
to be associated with nitrogenase in nitrogen-fixing
bacteria. The most recently described is SUF, believed
to be important to maintain the function during aerobic
stress of enzymes with labile Fe-S clusters. It is
fairly widely distributed. This family represents one of
two different proteins proposed to act as a scaffold on
which the Fe-S cluster is built and from which it is
transferred [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 137
Score = 74.7 bits (184), Expect = 1e-17
Identities = 35/91 (38%), Positives = 53/91 (58%), Gaps = 14/91 (15%)
Query: 50 YHENVIDHYENPRNVGSLDKKD-----KNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAK 104
Y + ++DHY+NPR+ G L+ N P CGD + L +K++ + +I D
Sbjct: 5 YRQVILDHYKNPRHRGKLEDATVQERGHN--------PTCGDEITLTVKLEGD-RIEDIA 55
Query: 105 FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
F+ GC + AS+S+ TE +KGKTV+EAL L
Sbjct: 56 FEGEGCSISQASASMMTELIKGKTVEEALSL 86
>gnl|CDD|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme for non-lysosomal protein degradation
in both the cytosol and the nucleus. It is composed of
28 subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are both members
of the N-terminal nucleophile (Ntn)-hydrolase
superfamily. Their N-terminal threonine residues are
exposed as a nucleophile in peptide bond hydrolysis.
Mammals have 7 alpha and 7 beta proteasome subunits
while archaea have one of each.
Length = 188
Score = 29.5 bits (67), Expect = 0.72
Identities = 17/42 (40%), Positives = 23/42 (54%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G II+ K+ G GS A L E+ + TV+EA KL
Sbjct: 114 LDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKL 155
>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5. The 20S
proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 213
Score = 28.8 bits (65), Expect = 1.3
Identities = 16/42 (38%), Positives = 21/42 (50%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
D +G K G GS A SSL ++ K T++EA KL
Sbjct: 149 TDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKL 190
>gnl|CDD|217804 pfam03941, INCENP_ARK-bind, Inner centromere protein, ARK binding
region. This region of the inner centromere protein
has been found to be necessary and sufficient for
binding to aurora-related kinase. This interaction has
been implicated in the coordination of chromosome
segregation with cell division in yeast.
Length = 57
Score = 26.9 bits (60), Expect = 1.4
Identities = 7/21 (33%), Positives = 9/21 (42%), Gaps = 2/21 (9%)
Query: 40 PKWASTPVLHYHENVIDHYEN 60
P WA +P L E + N
Sbjct: 19 PSWAESPNL--REALRRQQYN 37
>gnl|CDD|215805 pfam00227, Proteasome, Proteasome subunit. The proteasome is a
multisubunit structure that degrades proteins. Protein
degradation is an essential component of regulation
because proteins can become misfolded, damaged, or
unnecessary. Proteasomes and their homologues vary
greatly in complexity: from HslV (heat shock locus v),
which is encoded by 1 gene in bacteria, to the
eukaryotic 20S proteasome, which is encoded by more than
14 genes. Recently evidence of two novel groups of
bacterial proteasomes was proposed. The first is Anbu,
which is sparsely distributed among cyanobacteria and
proteobacteria. The second is call beta-proteobacteria
proteasome homologue (BPH).
Length = 188
Score = 28.7 bits (65), Expect = 1.4
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 93 KVDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D +G +I+ K G GS A L + T++EA++L
Sbjct: 122 SIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVEL 164
>gnl|CDD|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex,
archaeal, beta subunit. This protein family describes
the archaeal proteasome beta subunit, homologous to both
the alpha subunit and to the alpha and beta subunits of
eukaryotic proteasome subunits. This family is universal
in the first 29 complete archaeal genomes but
occasionally is duplicated [Protein fate, Degradation of
proteins, peptides, and glycopeptides].
Length = 185
Score = 28.3 bits (64), Expect = 1.6
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G II+ + G GS +A L E+ + +V+EA KL
Sbjct: 115 LDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKL 156
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 28.4 bits (64), Expect = 1.8
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
D +G + K G GS A L E+ + +++EA++L
Sbjct: 146 TDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIEL 187
>gnl|CDD|217964 pfam04205, FMN_bind, FMN-binding domain. This conserved region
includes the FMN-binding site of the NqrC protein as
well as the NosR and NirI regulatory proteins.
Length = 84
Score = 26.9 bits (60), Expect = 2.2
Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 85 GDVMKLQIKVDDNGKIIDAKFK----TFGCGSAIASSSLATEWVKGKTVDEALKLKNTDI 140
G + + + VD +GKI + T G G ++V GK + K + D+
Sbjct: 3 GGPITVTVTVDKDGKITGVEVLEHKETPGLGDKAEDEEFIKQFV-GKQLTAVKK-DSADV 60
>gnl|CDD|240325 PTZ00237, PTZ00237, acetyl-CoA synthetase; Provisional.
Length = 647
Score = 28.6 bits (64), Expect = 2.4
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 9/51 (17%)
Query: 83 ACGDVMKLQIKVDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEAL 133
++ IK D II +K+ S+L W G+ ++E++
Sbjct: 355 TLPKTIRYLIKTDPEATIIRSKYD---------LSNLKEIWCGGEVIEESI 396
>gnl|CDD|216070 pfam00703, Glyco_hydro_2, Glycosyl hydrolases family 2. This
family contains beta-galactosidase, beta-mannosidase and
beta-glucuronidase activities.
Length = 109
Score = 26.7 bits (59), Expect = 3.9
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 89 KLQIKVDDNGKIIDAKFKTFG 109
L +++D +GK+ID FG
Sbjct: 87 TLTVELDADGKVIDEVSTRFG 107
>gnl|CDD|237448 PRK13614, PRK13614, lipoprotein LpqB; Provisional.
Length = 573
Score = 27.5 bits (61), Expect = 4.2
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 97 NGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDE 131
NG+I+ + G+ + +L +W+ G+TV E
Sbjct: 404 NGRIVAYRPTGVAEGAQAPTVTLTADWLAGRTVKE 438
>gnl|CDD|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 188
Score = 26.8 bits (60), Expect = 5.0
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
VD +G + + G GS A L + + +V+EA L
Sbjct: 114 VDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDL 155
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 27.0 bits (60), Expect = 6.0
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 85 GDVMKLQIKVDDNGKIIDAKF 105
DV KL NG+IID F
Sbjct: 237 DDVCKLDFGTHVNGRIIDCAF 257
>gnl|CDD|147579 pfam05472, Ter, DNA replication terminus site-binding protein (Ter
protein). This family contains several bacterial Ter
proteins. The Ter protein specifically binds to DNA
replication terminus sites on the host and plasmid
genome and then blocks progress of the DNA replication
fork.
Length = 290
Score = 26.9 bits (60), Expect = 6.2
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 148 PVKLHCSMLAEDAIKAALSDYRIKQN-SAKAA 178
V+ A DA A +D IK+ S+KA
Sbjct: 50 EVEQLSGEEALDAALHAFTDLFIKEGQSSKAT 81
>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV. This
group contains the eukaryotic proteosome alpha and beta
subunits and the prokaryotic protease hslV subunit.
Proteasomes are large multimeric self-compartmentalizing
proteases, involved in the clearance of misfolded
proteins, the breakdown of regulatory proteins, and the
processing of proteins such as the preparation of
peptides for immune presentation. Two main proteasomal
types are distinguished by their different tertiary
structures: the eukaryotic/archeal 20S proteasome and
the prokaryotic proteasome-like heat shock protein
encoded by heat shock locus V, hslV. The proteasome
core particle is a highly conserved cylindrical
structure made up of non-identical subunits that have
their active sites on the inner walls of a large central
cavity. The proteasome subunits of bacteria, archaea,
and eukaryotes all share a conserved Ntn (N terminal
nucleophile) hydrolase fold and a catalytic mechanism
involving an N-terminal nucleophilic threonine that is
exposed by post-translational processing of an inactive
propeptide.
Length = 182
Score = 26.3 bits (59), Expect = 8.2
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 93 KVDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
VD +G I+ K G GS A L + T++EA++L
Sbjct: 116 SVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIEL 158
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 26.4 bits (58), Expect = 8.4
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 109 GCGSAIASSSLATEWVKGKTVDEALKL 135
G + A S L EW + T+++ L L
Sbjct: 165 GQNNQTAQSILKQEWKEDLTLEQGLLL 191
>gnl|CDD|237608 PRK14095, pgi, glucose-6-phosphate isomerase; Provisional.
Length = 533
Score = 26.5 bits (59), Expect = 8.4
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 8/46 (17%)
Query: 133 LKLKNTDIAKELCLPPVKLHCSMLAEDAIKAALSDYRIKQNSAKAA 178
L L++ I +EL P+ L + LS+ RIK+ S
Sbjct: 8 LDLESFKILQELAPEPLDL--------TLPGVLSEERIKKYSLSGE 45
>gnl|CDD|130974 TIGR01919, hisA-trpF,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide
isomerase/N-(5'phosphoribosyl)anthranilate isomerase.
This model represents a bifunctional protein posessing
both hisA
(1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase) and trpF
(N-(5'phosphoribosyl)anthranilate isomerase) activities.
Thus, it is involved in both the histidine and
tryptophan biosynthetic pathways. Enzymes with this
property have been described only in the Actinobacteria
(High-GC gram-positive). The enzyme is closely related
to the monofunctional HisA proteins (TIGR00007) and in
Actinobacteria, the classical monofunctional TrpF is
generally absent.
Length = 243
Score = 26.5 bits (58), Expect = 8.8
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 26 GTCRTNNATTLLKSPKWASTPVLHYHENVI 55
G N T W + V+ Y +++
Sbjct: 95 GGRARVNGGTAALENPWWAAAVIRYGGDIV 124
>gnl|CDD|187832 cd09701, Cas10_III, CRISPR/Cas system-associated protein Cas10.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Multidomain protein with permuted HD nuclease domain,
inactivated palm domain and Zn-ribbon; signature gene
for type III.
Length = 909
Score = 26.6 bits (59), Expect = 9.7
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLA-TEWVKGKTVDEALKLKNTDIAKELCL 146
V+DNG D F+ F +L W+ +D+ L+ K D K+ CL
Sbjct: 852 VEDNGP--DIVFEQF------VEDTLINANWLDWDRLDDELRDKLEDAGKKGCL 897
>gnl|CDD|218990 pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA).
This family consists of several Ribosomal protein L11
methyltransferase (EC:2.1.1.-) sequences.
Length = 294
Score = 26.4 bits (59), Expect = 9.8
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 108 FGCGS---AIASSSLATEWVKGKTVDE 131
GCGS AIA+ L + V G +D
Sbjct: 167 VGCGSGILAIAALKLGAKKVVGVDIDP 193
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
0.315 0.129 0.380
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,568,758
Number of extensions: 744327
Number of successful extensions: 659
Number of sequences better than 10.0: 1
Number of HSP's gapped: 642
Number of HSP's successfully gapped: 35
Length of query: 179
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 88
Effective length of database: 6,901,388
Effective search space: 607322144
Effective search space used: 607322144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (25.3 bits)