RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8938
(75 letters)
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 41.0 bits (96), Expect = 1e-05
Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 13/69 (18%)
Query: 7 LKTLKINMDSFTDHEMSIASHLVDPADI--------NVSWEHIAGLDGTIKDLKQTVIFP 58
LK LK+ M F + A +V+P+ I NV W I GL+ ++L++ V +P
Sbjct: 418 LKELKVTMKDFME-----ALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWP 472
Query: 59 IKHKEMFAK 67
+KH E+F K
Sbjct: 473 LKHPEIFEK 481
Score = 32.6 bits (74), Expect = 0.009
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
V++E I GL + +++ V P+KH E+F
Sbjct: 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEH 206
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 38.2 bits (89), Expect = 8e-05
Identities = 14/33 (42%), Positives = 24/33 (72%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
NVS+E I GL+ I+++++ V P+KH E+F +
Sbjct: 118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEE 150
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 37.5 bits (88), Expect = 2e-04
Identities = 12/33 (36%), Positives = 23/33 (69%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
NV++E I GL+ I+++++ V P+K E+F +
Sbjct: 127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEE 159
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 34.8 bits (80), Expect = 0.001
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
V D +V+ + I GL+ ++LK+ + P+K E+F K L
Sbjct: 232 VLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGL 273
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 33.0 bits (76), Expect = 0.005
Identities = 12/33 (36%), Positives = 24/33 (72%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
+V++E I GLD I+++++ V P+K+ E+F +
Sbjct: 147 DVTYEDIGGLDEQIQEIREVVELPLKNPELFEE 179
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 32.8 bits (75), Expect = 0.007
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
+V++ I GL I+ ++ V P H E++ + L K PK
Sbjct: 178 DVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGL-KPPK 217
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 27.4 bits (61), Expect = 0.54
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 37 SWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
S+ I GL+ I+++K+ V P+ H E++
Sbjct: 181 SYADIGGLEQQIQEIKEAVELPLTHPELY 209
>gnl|CDD|235807 PRK06460, PRK06460, hypothetical protein; Provisional.
Length = 376
Score = 26.3 bits (58), Expect = 1.6
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 4 ERKLKTLKINMDSFTDHEMSIASHL 28
R +KTLKI MD + IA L
Sbjct: 234 LRGIKTLKIRMDVINRNAEQIAEFL 258
>gnl|CDD|233373 TIGR01356, aroA, 3-phosphoshikimate 1-carboxyvinyltransferase.
This model represents
3-phosphoshikimate-1-carboxyvinyltransferase (aroA),
which catalyzes the sixth of seven steps in the
shikimate pathway of the biosynthesis of chorimate.
Chorismate is last common precursor of all three
aromatic amino acids. Sequences scoring between the
trusted and noise cutoffs include fragmentary and
aberrant sequences in which generally well-conserved
motifs are missing or altererd, but no example of a
protein known to have a different function [Amino acid
biosynthesis, Aromatic amino acid family].
Length = 409
Score = 26.1 bits (58), Expect = 1.9
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 2 EAERKLKTLKINMDSFTDHEMSIA 25
E LK +KI+MD D ++A
Sbjct: 278 EGASGLKGIKIDMDDMIDELPTLA 301
>gnl|CDD|181005 PRK07503, PRK07503, methionine gamma-lyase; Provisional.
Length = 403
Score = 25.5 bits (56), Expect = 2.5
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 5 RKLKTLKINMDSFTDHEMSIASHLVD-PADINVSWEHIAGL 44
R LKTL + MD ++A L PA V H GL
Sbjct: 257 RGLKTLALRMDRHCASAQAVAEWLARHPA---VELVHYPGL 294
>gnl|CDD|238223 cd00381, IMPDH, IMPDH: The catalytic domain of the inosine
monophosphate dehydrogenase. IMPDH catalyzes the
NAD-dependent oxidation of inosine 5'-monophosphate
(IMP) to xanthosine 5' monophosphate (XMP). It is a
rate-limiting step in the de novo synthesis of the
guanine nucleotides. There is often a CBS domain
inserted in the middle of this domain, which is
proposed to play a regulatory role. IMPDH is a key
enzyme in the regulation of cell proliferation and
differentiation. It has been identified as an
attractive target for developing chemotherapeutic
agents.
Length = 325
Score = 25.6 bits (57), Expect = 2.9
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 5/22 (22%)
Query: 9 TLKI-----NMDSFTDHEMSIA 25
TL I MD+ T+ EM+IA
Sbjct: 32 TLNIPLVSAPMDTVTESEMAIA 53
>gnl|CDD|238349 cd00642, GTP_cyclohydro1, GTP cyclohydrolase I (GTP-CH-I)
catalyzes the conversion of GTP into dihydroneopterin
triphosphate. The enzyme product is the precursor of
tetrahydrofolate in eubacteria, fungi, and plants and
of the folate analogs in methanogenic bacteria. In
vertebrates and insects it is the biosynthtic precursor
of tetrahydrobiopterin (BH4) which is involved in the
formation of catacholamines, nitric oxide, and the
stimulation of T lymphocytes. The biosynthetic reaction
of BH4 is controlled by a regulatory protein GFRP which
mediates feedback inhibition of GTP-CH-I by BH4. This
inhibition is reversed by phenylalanine. The decameric
GTP-CH-I forms a complex with two pentameric GFRP in
the presence of phenylalanine or a combination of GTP
and BH4, respectively.
Length = 185
Score = 25.0 bits (55), Expect = 3.2
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 43 GLDGTIKDLKQTVIFPIKHKEM 64
G D + D K T IF H EM
Sbjct: 43 GYDQALNDPKNTAIFDEDHDEM 64
>gnl|CDD|177972 PLN02338, PLN02338, 3-phosphoshikimate 1-carboxyvinyltransferase.
Length = 443
Score = 25.1 bits (55), Expect = 3.6
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 8 KTLKIN-MDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKD 50
K LK +D++ DH M++A L D+ V TI D
Sbjct: 389 KKLKPAEIDTYDDHRMAMAFSLAACGDVPV----------TIND 422
>gnl|CDD|183614 PRK12595, PRK12595, bifunctional 3-deoxy-7-phosphoheptulonate
synthase/chorismate mutase; Reviewed.
Length = 360
Score = 24.9 bits (55), Expect = 4.7
Identities = 9/32 (28%), Positives = 21/32 (65%)
Query: 10 LKINMDSFTDHEMSIASHLVDPADINVSWEHI 41
LKI ++ +++ S +V+PAD+ V+ +++
Sbjct: 171 LKILKQVADEYGLAVISEIVNPADVEVALDYV 202
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 24.7 bits (54), Expect = 4.9
Identities = 8/33 (24%), Positives = 20/33 (60%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
+V++ I GLD +++++ V P+ E++ +
Sbjct: 141 DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQ 173
>gnl|CDD|240355 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 24.5 bits (54), Expect = 6.5
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 13 NMDSFTDHEMSIA 25
MD+ T+H+M+IA
Sbjct: 57 PMDTVTEHKMAIA 69
>gnl|CDD|197278 cd09181, PLDc_FAM83A_N, N-terminal phospholipase D-like domain of
the uncharacterized protein, Family with sequence
similarity 83A. N-terminal phospholipase D (PLD)-like
domain of the uncharacterized protein, Family with
sequence similarity 83A (FAM83A), also known as tumor
antigen BJ-TSA-9. FAM83A or BJ-TSA-9 is a novel
tumor-specific gene highly expressed in human lung
adenocarcinoma. Due to this specific expression pattern,
it may serve as a biomarker for lung cancer, especially
in the early detection of micrometastasis for lung
adenocarcinoma patients. Since the N-terminal PLD-like
domain of FAM83 proteins shows only trace similarity to
the PLD catalytic domain and lacks the functionally
important histidine residue, FAM83 proteins may share a
similar three-dimensional fold with PLD enzymes, but are
most unlikely to carry PLD activity.
Length = 276
Score = 24.0 bits (52), Expect = 8.3
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 5 RKLKTLKINMDSFTDHEM 22
+ + L I MD FTD E+
Sbjct: 135 KTTQVLAIVMDVFTDVEI 152
>gnl|CDD|232887 TIGR00232, tktlase_bact, transketolase, bacterial and yeast.
This model is designed to capture orthologs of
bacterial transketolases. The group includes two from
the yeast Saccharomyces cerevisiae but excludes
dihydroxyactetone synthases (formaldehyde
transketolases) from various yeasts and the even more
distant mammalian transketolases. Among the family of
thiamine diphosphate-dependent enzymes that includes
transketolases, dihydroxyacetone synthases, pyruvate
dehydrogenase E1-beta subunits, and
deoxyxylulose-5-phosphate synthases, mammalian and
bacterial transketolases seem not to be orthologous
[Energy metabolism, Pentose phosphate pathway].
Length = 653
Score = 24.3 bits (53), Expect = 8.3
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 40 HIAGLDGTIKDLKQ 53
H+ G D +I+DLKQ
Sbjct: 72 HLTGYDLSIEDLKQ 85
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases
2 CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 24.1 bits (53), Expect = 8.8
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 5/22 (22%)
Query: 9 TLKI-----NMDSFTDHEMSIA 25
TL I NMD+ T+ M+IA
Sbjct: 34 TLNIPLVSANMDTVTESRMAIA 55
>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase.
Snu114p subfamily. Snu114p is one of several proteins
that make up the U5 small nuclear ribonucleoprotein
(snRNP) particle. U5 is a component of the spliceosome,
which catalyzes the splicing of pre-mRNA to remove
introns. Snu114p is homologous to EF-2, but typically
contains an additional N-terminal domain not found in
Ef-2. This protein is part of the GTP translation factor
family and the Ras superfamily, characterized by five
G-box motifs.
Length = 213
Score = 23.8 bits (52), Expect = 9.5
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 1 MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINV 36
+A KL+ ++++ + LV P NV
Sbjct: 145 TDAYYKLRHTIDEINNYIASFSTTEGFLVSPELGNV 180
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
0.316 0.130 0.369
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,628,739
Number of extensions: 272976
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 27
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
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: 53 (24.1 bits)