RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13971
(153 letters)
>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7. 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 = 207
Score = 85.9 bits (213), Expect = 1e-21
Identities = 43/99 (43%), Positives = 53/99 (53%), Gaps = 27/99 (27%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDRAITVFSPDGHL QVEYAQEAVRKG+TAV G+R + + +
Sbjct: 1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAV---------------GVRGKDCVVLG--- 42
Query: 66 YLVMTKEIISLKVSPLLSQAQNS-KLSMLNDHVVMAFAG 103
+ K L + K+ ML+DHV +AFAG
Sbjct: 43 --------VEKKSVAKLQDPRTVRKICMLDDHVCLAFAG 73
>gnl|CDD|238892 cd01911, proteasome_alpha, proteasome alpha 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
different alpha and 10 different beta proteasome subunit
genes while archaea have one of each.
Length = 209
Score = 82.1 bits (204), Expect = 3e-20
Identities = 35/100 (35%), Positives = 48/100 (48%), Gaps = 29/100 (29%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDR+IT FSP+G L QVEYA EAV+ GSTAV G++ +
Sbjct: 1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAV---------------GIKG--------KD 37
Query: 66 YLVMTKEIISLK--VSPLLSQAQNSKLSMLNDHVVMAFAG 103
+V + K S LL + K+ ++DH+ A AG
Sbjct: 38 GVV----LAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAG 73
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 77.2 bits (191), Expect = 5e-18
Identities = 37/98 (37%), Positives = 53/98 (54%), Gaps = 25/98 (25%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDRAIT+FSPDG L QVEYA+EAV++G+TAV G++ + +
Sbjct: 10 YDRAITIFSPDGRLYQVEYAREAVKRGTTAV---------------GVKTKDGV------ 48
Query: 66 YLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
L + K I SPL+ + K+ ++DH+ A AG
Sbjct: 49 VLAVDKRIT----SPLIEPSSIEKIFKIDDHIGAASAG 82
>gnl|CDD|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex,
archaeal, alpha subunit. This protein family describes
the archaeal proteasome alpha subunit, homologous to
both the beta 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 = 224
Score = 74.6 bits (184), Expect = 3e-17
Identities = 36/98 (36%), Positives = 52/98 (53%), Gaps = 25/98 (25%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDRAITVFSPDG L QVEYA+EAV++G+TAV G++ + +
Sbjct: 3 YDRAITVFSPDGRLYQVEYAREAVKRGTTAV---------------GIKTKDGV------ 41
Query: 66 YLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
L + K I S L+ + K+ ++DH+ A +G
Sbjct: 42 VLAVDKRIT----SKLVEPSSIEKIFKIDDHIGAATSG 75
>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal. 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 = 211
Score = 72.4 bits (178), Expect = 2e-16
Identities = 36/100 (36%), Positives = 48/100 (48%), Gaps = 29/100 (29%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVE--VYLVSSFRKTGLRVQSTIKITL 63
YDRAITVFSPDG L QVEYA+EAV++G+TA+ + + V L R T
Sbjct: 2 YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRIT------------ 49
Query: 64 NNYLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
S L+ K+ ++DHV A +G
Sbjct: 50 ---------------SKLVEPESIEKIYKIDDHVGAATSG 74
>gnl|CDD|204518 pfam10584, Proteasome_A_N, Proteasome subunit A N-terminal
signature. This domain is conserved in the A subunits
of the proteasome complex proteins.
Length = 23
Score = 54.7 bits (133), Expect = 2e-11
Identities = 16/23 (69%), Positives = 19/23 (82%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEA 28
YDR++T FSPDG L QVEYA +A
Sbjct: 1 YDRSLTTFSPDGRLFQVEYAMKA 23
>gnl|CDD|198016 smart00948, Proteasome_A_N, Proteasome subunit A N-terminal
signature Add an annotation. This domain is conserved
in the A subunits of the proteasome complex proteins.
Length = 23
Score = 53.7 bits (130), Expect = 5e-11
Identities = 17/23 (73%), Positives = 19/23 (82%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEA 28
YDR++T FSPDG L QVEYA EA
Sbjct: 1 YDRSLTTFSPDGRLFQVEYAMEA 23
>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 = 55.0 bits (133), Expect = 6e-10
Identities = 31/98 (31%), Positives = 47/98 (47%), Gaps = 25/98 (25%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YDR + FSP+G L QVEYA EA++ GSTA+ + K G+ + +IT
Sbjct: 1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKT---------KEGVVLAVEKRIT--- 48
Query: 66 YLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
SPL+ + K+ ++DH+ A +G
Sbjct: 49 -------------SPLMEPSSVEKIMEIDDHIGCAMSG 73
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 55.4 bits (134), Expect = 6e-10
Identities = 38/104 (36%), Positives = 50/104 (48%), Gaps = 31/104 (29%)
Query: 4 SRYDRAITVFSPDGHLLQVEYAQEAV-RKGSTAVSFQVE--VYLVSSFRKTGLRVQSTIK 60
+ YDRAIT+FSP+G L QVEYA EAV R G+T V + + V L + R T
Sbjct: 1 AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRAT--------- 51
Query: 61 ITLNNYLVMTKEIISLKVSPLLSQAQN-SKLSMLNDHVVMAFAG 103
S LL + N K+ ++DH+ MA AG
Sbjct: 52 ------------------SGLLIASSNVEKIFKIDDHIGMAIAG 77
>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4. 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 = 51.6 bits (124), Expect = 1e-08
Identities = 31/106 (29%), Positives = 44/106 (41%), Gaps = 36/106 (33%)
Query: 4 SRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITL 63
RYD T+FSP+G L QVEYA EA+ T +
Sbjct: 1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLG-------------------------- 34
Query: 64 NNYLVMTKEIISL-----KVSPLLSQAQNS-KLSMLNDHVVMAFAG 103
++ K+ I L S LL Q+ +S K+ ++DH+ A AG
Sbjct: 35 ----ILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAG 76
>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3. 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 = 212
Score = 51.5 bits (124), Expect = 1e-08
Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 25/98 (25%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YD + + FSPDG + QVEYA +AV TA+ G+R + + + +
Sbjct: 4 YDLSASTFSPDGRVFQVEYANKAVENSGTAI---------------GIRCKDGVVLAVEK 48
Query: 66 YLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
+ S L N ++ ++ H+ +A AG
Sbjct: 49 LV----------TSKLYEPGSNKRIFNVDRHIGIAVAG 76
>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6. 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 = 215
Score = 49.2 bits (118), Expect = 8e-08
Identities = 18/32 (56%), Positives = 24/32 (75%), Gaps = 1/32 (3%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGS-TAV 36
+DR IT+FSP+G L QVEYA +AV+ T+V
Sbjct: 2 FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSV 33
>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1. 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 = 211
Score = 48.4 bits (116), Expect = 1e-07
Identities = 32/99 (32%), Positives = 48/99 (48%), Gaps = 29/99 (29%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
YD +T +SP G L QVEYA EAV++GS V GL+ ++
Sbjct: 1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATV---------------GLKSKT-------- 37
Query: 66 YLVMTKEIISLKVSPL-LSQAQNSKLSMLNDHVVMAFAG 103
+ V+ +LK + LS Q K+ ++DH+ +A AG
Sbjct: 38 HAVLV----ALKRATSELSSYQK-KIFKVDDHIGIAIAG 71
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 46.4 bits (110), Expect = 9e-07
Identities = 32/102 (31%), Positives = 42/102 (41%), Gaps = 26/102 (25%)
Query: 3 SSRYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKIT 62
S RYD T FSP+G L QVEYA EA+ S V G+ + +
Sbjct: 2 SRRYDSRTTTFSPEGRLYQVEYALEAINNASLTV---------------GILCKEGV--- 43
Query: 63 LNNYLVMTKEIISLKVSPLLSQAQ-NSKLSMLNDHVVMAFAG 103
L K I S LL + N K+ ++ H+ A AG
Sbjct: 44 ---ILGADKPIS----SKLLDPGKINEKIYKIDSHIFCAVAG 78
>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2. 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 = 227
Score = 43.8 bits (104), Expect = 6e-06
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 25/98 (25%)
Query: 6 YDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNN 65
Y ++T FSP G L+Q+EYA AV G+ +V IK N
Sbjct: 1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVG---------------------IKAA-NG 38
Query: 66 YLVMTKEIISLKVSPLLSQAQNSKLSMLNDHVVMAFAG 103
++ T++ + SPL+ ++ K+ + H+ M ++G
Sbjct: 39 VVLATEKKVP---SPLIDESSVHKVEQITPHIGMVYSG 73
>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 = 31.8 bits (73), Expect = 0.090
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 79 SPLLSQAQNSKLSMLNDHVVMAFAG 103
S LLS+ K+ ++DH+ MAFAG
Sbjct: 28 SKLLSKDTVEKIFKIDDHIGMAFAG 52
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 28.8 bits (65), Expect = 1.3
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 8 RAITVFS-PDGHLLQVEYAQEAVRKGSTAVSFQVEVYLV-----SSFRKTG 52
R + V+S D L V A EAV G + E YL + R+TG
Sbjct: 27 RTVAVYSDADADALHVRMADEAVHIGPAPAA---ESYLDIDKIIDAARRTG 74
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 28.3 bits (63), Expect = 1.9
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 3/65 (4%)
Query: 15 PDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNNYLVMTKEII 74
P +L + +E +R+G T V E+ + F +G+ + I ++ +
Sbjct: 157 PAKDILAI---RECLRQGFTKVRIDGEISPIYKFLTSGIPEDVPVDIVVDTLIKNESNTA 213
Query: 75 SLKVS 79
LKVS
Sbjct: 214 RLKVS 218
>gnl|CDD|237480 PRK13721, PRK13721, conjugal transfer ATP-binding protein TraC;
Provisional.
Length = 844
Score = 28.1 bits (63), Expect = 2.0
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 16/65 (24%)
Query: 5 RYDRAITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLN 64
Y IT F PD + + +VE +++SFRK G + S +
Sbjct: 334 SYFLNITAFCPD----------------NNETALEVEQDILNSFRKNGFELISPRFNHMR 377
Query: 65 NYLVM 69
N+L
Sbjct: 378 NFLTC 382
>gnl|CDD|233602 TIGR01856, hisJ_fam, histidinol phosphate phosphatase, HisJ
family. This model represents the histidinol phosphate
phosphatase HisJ of Bacillus subtilis, and related
proteins from a number of species within a larger
family of phosphatases in the PHP hydrolase family.
HisJ catalyzes the penultimate step of histidine
biosynthesis but shows no homology to the functionally
equivalent sequence in E. coli, a domain of the
bifunctional HisB protein. Note, however, that many
species have two members and that Clostridium
perfringens, predicted not to make histidine, has five
members of this family; this family is designated
subfamily rather than equivalog to indicate that
members may not all act as HisJ.
Length = 253
Score = 27.7 bits (62), Expect = 2.4
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 11 TVFSPDGHLLQVEYAQEAVRKGSTAVSF 38
+ F G E QEA++ G + F
Sbjct: 7 SPFCAHGTDTLEEVVQEAIQLGFEEICF 34
>gnl|CDD|236534 PRK09476, napG, quinol dehydrogenase periplasmic component;
Provisional.
Length = 254
Score = 27.3 bits (61), Expect = 3.2
Identities = 10/60 (16%), Positives = 18/60 (30%), Gaps = 12/60 (20%)
Query: 86 QNSKLSMLNDHVVMAFAGKSLCLIALVALWYNEKDKTISVIYYGGKNSSALATELFLRPP 145
S + ++ +A V + G + A A+ + LRPP
Sbjct: 2 SRSAKPQNGRRRFLRDVVRTAGGLAAVGV------------ALGLQQQQARASGVALRPP 49
>gnl|CDD|224305 COG1387, HIS2, Histidinol phosphatase and related hydrolases of
the PHP family [Amino acid transport and metabolism /
General function prediction only].
Length = 237
Score = 26.2 bits (58), Expect = 7.0
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 11 TVFSPDGHLLQVEYAQEAVRKGSTAVSF 38
TVFS DG E + A+ G ++
Sbjct: 9 TVFS-DGEATPEEMVEAAIELGLEYIAI 35
>gnl|CDD|216474 pfam01390, SEA, SEA domain. Domain found in Sea urchin sperm
protein, Enterokinase, Agrin (SEA). Proposed function of
regulating or binding carbohydrate side chains. Recently
a proteolytic activity has been shown for a SEA domain.
Length = 107
Score = 25.4 bits (56), Expect = 8.1
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 28 AVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIKITLNNYLVMTKEIISLKVSPL 81
+ R GS V V FRK +T++ L L + I +LK+
Sbjct: 60 SFRPGS------VVVDYDVIFRKPSSENGATVEEQLLEQLQQSNNIGNLKIDSS 107
>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 = 25.9 bits (58), Expect = 8.8
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 87 NSKLSMLNDHVVMAFAG 103
K+ ++DH+ AFAG
Sbjct: 31 VEKIFKIDDHIGCAFAG 47
>gnl|CDD|177475 PHA02693, PHA02693, hypothetical protein; Provisional.
Length = 710
Score = 26.1 bits (57), Expect = 9.3
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 10 ITVFSPDGHLLQVEYAQEAVRKGSTAVSFQVEVYLVSSFRKTGLRVQSTIK 60
I+ F PD H+L +AQ + G A ++ FR T LR S I+
Sbjct: 599 ISDFVPDAHVLNTRHAQALIAVGCVAEYLLAAIF----FRVTVLRRMSKIR 645
>gnl|CDD|184154 PRK13573, PRK13573, anthranilate synthase component I; Provisional.
Length = 503
Score = 25.9 bits (57), Expect = 9.9
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 13 FSPDGHLLQVEYAQEAVRKGSTAVSFQV 40
F+ +G+ VE A++ +R G FQV
Sbjct: 228 FTHEGYKAAVEKAKDYIRAGDI---FQV 252
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 0.132 0.361
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,370,106
Number of extensions: 632523
Number of successful extensions: 516
Number of sequences better than 10.0: 1
Number of HSP's gapped: 511
Number of HSP's successfully gapped: 38
Length of query: 153
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 64
Effective length of database: 6,990,096
Effective search space: 447366144
Effective search space used: 447366144
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 (21.8 bits)
S2: 55 (24.8 bits)