RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17511
(466 letters)
>gnl|CDD|145416 pfam02252, PA28_beta, Proteasome activator pa28 beta subunit. PA28
activator complex (also known as 11s regulator of 20S
proteasome) is a ring shaped hexameric structure of
alternating alpha and beta subunits. This family
represents the beta subunit. The activator complex binds
to the 20S proteasome ana simulates peptidase activity
in and ATP-independent manner.
Length = 150
Score = 197 bits (502), Expect = 1e-61
Identities = 70/130 (53%), Positives = 97/130 (74%)
Query: 332 NGPVPSNEKLKLMISVVKPHIKQLVEHSNVLKMWITFMIPKIEDGNNFGVSIQEDILAEI 391
G VPSNEK+ ++ VKP I++L+E N++K+WI IP+IEDGNNFGVSIQE++L E+
Sbjct: 2 CGFVPSNEKIVALLEKVKPEIRELIEKCNLVKLWIQLQIPRIEDGNNFGVSIQEEVLEEL 61
Query: 392 QSVESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSLWLVLCEIR 451
VE++A F DQ+S+Y+ R +++K AKYPH+ DYR+AV ELDEKEY+ L L++ EIR
Sbjct: 62 TRVETKAETFQDQISKYYSERGDLVAKAAKYPHVEDYREAVHELDEKEYIELRLIVLEIR 121
Query: 452 NRYLCLKTIV 461
N Y L I+
Sbjct: 122 NNYAVLHDII 131
Score = 182 bits (464), Expect = 6e-56
Identities = 63/115 (54%), Positives = 88/115 (76%)
Query: 131 NGPVPSNEKLKLMISVVKPHIKQLVEHSNVLKMWITFMIPKIEDGNNFGVSIQEDILAEI 190
G VPSNEK+ ++ VKP I++L+E N++K+WI IP+IEDGNNFGVSIQE++L E+
Sbjct: 2 CGFVPSNEKIVALLEKVKPEIRELIEKCNLVKLWIQLQIPRIEDGNNFGVSIQEEVLEEL 61
Query: 191 QSVESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSLWLV 245
VE++A F DQ+S+Y+ R +++K AKYPH+ DYR+AV ELDEKEY+ L L+
Sbjct: 62 TRVETKAETFQDQISKYYSERGDLVAKAAKYPHVEDYREAVHELDEKEYIELRLI 116
>gnl|CDD|145415 pfam02251, PA28_alpha, Proteasome activator pa28 alpha subunit.
PA28 activator complex (also known as 11s regulator of
20S proteasome) is a ring shaped hexameric structure of
alternating alpha and beta subunits. This family
represents the alpha subunit. The activator complex
binds to the 20S proteasome ana simulates peptidase
activity in and ATP-independent manner.
Length = 64
Score = 66.1 bits (162), Expect = 5e-14
Identities = 20/64 (31%), Positives = 37/64 (57%)
Query: 36 MANGAHVKVKEYVDNVKSQAEELILKGFPEKIVILNDLLATEQFQVEDVTKIHQDINIPV 95
++ KV + ++ +AE L+ FPEKI+ L+ LL + D++++H +NIP+
Sbjct: 1 VSPENKKKVDAFRQSLTKEAERLVSNFFPEKILELDALLKEPILNIHDLSQLHAPLNIPI 60
Query: 96 PEPI 99
P+P
Sbjct: 61 PDPP 64
Score = 62.7 bits (153), Expect = 9e-13
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 245 VKEYVDTVKSQAEELILKGFPEKIVILNDLLATEQFQVEDVTKIHQDINIPIPEPI 300
V + ++ +AE L+ FPEKI+ L+ LL + D++++H +NIPIP+P
Sbjct: 9 VDAFRQSLTKEAERLVSNFFPEKILELDALLKEPILNIHDLSQLHAPLNIPIPDPP 64
>gnl|CDD|218422 pfam05088, Bac_GDH, Bacterial NAD-glutamate dehydrogenase. This
family consists of several bacterial proteins which are
closely related to NAD-glutamate dehydrogenase found in
Streptomyces clavuligerus. Glutamate dehydrogenases
(GDHs) are a broadly distributed group of enzymes that
catalyze the reversible oxidative deamination of
glutamate to ketoglutarate and ammonia.
Length = 1526
Score = 37.1 bits (87), Expect = 0.023
Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 11/93 (11%)
Query: 176 NNFGVSIQEDILAEIQSVESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELD 235
N ++Q +L E++ + +R+ + + +A I +R V L
Sbjct: 1309 NKVPAAVQLRLLLELR-------RLLRRATRWLLRNRRQPLDIAA--EIERFRPGVAALR 1359
Query: 236 EKEYLSLWLVKEYVDTVKSQAEELILKGFPEKI 268
+ L L E + ++ +A+ L+ G PE +
Sbjct: 1360 PQ--LPELLPGEEREALEERAQALVEAGVPEAL 1390
>gnl|CDD|182021 PRK09662, PRK09662, GspL-like protein; Provisional.
Length = 286
Score = 29.7 bits (66), Expect = 3.2
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 240 LSLWLVKEYVDTVKSQAEELILKGFPEKIVILN 272
++LW V E V ++QAE+ L FPE+ I+N
Sbjct: 154 VTLWSVSEQVAQSRTQAEKQFLTLFPEQKRIVN 186
>gnl|CDD|238762 cd01485, E1-1_like, Ubiquitin activating enzyme (E1), repeat
1-like. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets them
for degradation by the 26S proteasome. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and ubiquitin's C-terminus. The E1
also associates with E2 and promotes ubiquitin transfer
to the E2's catalytic cysteine. A set of novel molecules
with a structural similarity to Ub, called Ub-like
proteins (Ubls), have similar conjugation cascades. In
contrast to ubiquitin-E1, which is a single-chain
protein with a weakly conserved two-fold repeat, many of
the Ubls-E1are a heterodimer where each subunit
corresponds to one half of a single-chain E1. This CD
represents the family homologous to the first repeat of
Ub-E1.
Length = 198
Score = 29.3 bits (66), Expect = 3.5
Identities = 22/102 (21%), Positives = 40/102 (39%), Gaps = 8/102 (7%)
Query: 189 EIQSVESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSLWLVKEY 248
I V+ + D S +F+ S + + ++ Q EL+ + L +V+E
Sbjct: 45 SITIVDHRLVSTEDLGSNFFLDAEVSNSGMNRAAASYEFLQ---ELNP--NVKLSIVEED 99
Query: 249 VDTVKSQAEELILKGFPEKIVILNDLLATEQFQVEDVTKIHQ 290
+ S EE + K +VI + +V DV + H
Sbjct: 100 SLSNDSNIEEYLQK---FTLVIATEENYERTAKVNDVCRKHH 138
>gnl|CDD|151672 pfam11230, DUF3029, Protein of unknown function (DUF3029). Some
members in this family of proteins are annotated as
ykkI. Currently no function is known.
Length = 487
Score = 29.2 bits (66), Expect = 5.7
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 212 AKVISKVAKYPHIADYRQAVKELDEKEY 239
K I + +K PH A+Y K+ EK Y
Sbjct: 185 VKNILECSK-PHFANYPMHAKDFGEKGY 211
Score = 29.2 bits (66), Expect = 5.7
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 413 AKVISKVAKYPHIADYRQAVKELDEKEY 440
K I + +K PH A+Y K+ EK Y
Sbjct: 185 VKNILECSK-PHFANYPMHAKDFGEKGY 211
>gnl|CDD|239958 cd04585, CBS_pair_ACT_assoc2, This cd contains two tandem repeats
of the cystathionine beta-synthase (CBS pair) domains in
the acetoin utilization proteins in bacteria. Acetoin
is a product of fermentative metabolism in many
prokaryotic and eukaryotic microorganisms. They produce
acetoin as an external carbon storage compound and then
later reuse it as a carbon and energy source during
their stationary phase and sporulation. In addition
these CBS domains are associated with a downstream ACT
domain, which is linked to a wide range of metabolic
enzymes that are regulated by amino acid concentration.
Pairs of ACT domains bind specifically to a particular
amino acid leading to regulation of the linked enzyme.
CBS is a small domain originally identified in
cystathionine beta-synthase and subsequently found in a
wide range of different proteins. CBS domains usually
come in tandem repeats, which associate to form a
so-called Bateman domain or a CBS pair which is
reflected in this model. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains. It has been proposed that the
CBS domain may play a regulatory role, although its
exact function is unknown.
Length = 122
Score = 27.2 bits (61), Expect = 8.5
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 289 HQDINIPIPEPITLNSHSDGPVTKKAKRELDNDVSGTPVL 328
+ +I +PIT+ D V + A+ L+ +SG PV+
Sbjct: 67 IKVSDIMTRDPITV--SPDASVEEAAELMLERKISGLPVV 104
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
0.317 0.134 0.378
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,963,993
Number of extensions: 2387542
Number of successful extensions: 2164
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2164
Number of HSP's successfully gapped: 21
Length of query: 466
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 366
Effective length of database: 6,502,202
Effective search space: 2379805932
Effective search space used: 2379805932
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: 61 (27.3 bits)