RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10990
(486 letters)
>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 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 = 189
Score = 352 bits (905), Expect = e-121
Identities = 138/218 (63%), Positives = 163/218 (74%), Gaps = 29/218 (13%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TTIVG +F DGVVLGADTRAT+ IVA+KNC+KIHY+A NIYCCGAGTAADT+ T++I+
Sbjct: 1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
S LEL +LNTG+ PRV+TA +L+Q LFRYQ
Sbjct: 61 SNLELHRLNTGRKPRVVTALTMLKQHLFRYQ----------------------------- 91
Query: 346 GHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEEC 405
GH+ AALVLGGVD TG HL++IYPHGS+D +PF TMGSGSLAAMSV E +KP+MTEEE
Sbjct: 92 GHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEA 151
Query: 406 KKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYLRPY 443
KKLV +AI AG+FNDLGSGSN+DLCVI K+GVEYLR Y
Sbjct: 152 KKLVCEAIEAGIFNDLGSGSNVDLCVITKDGVEYLRNY 189
Score = 62.6 bits (153), Expect = 2e-11
Identities = 24/31 (77%), Positives = 27/31 (87%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKNC 187
TTIVG +F DGVVLGADTRAT+ IVA+KNC
Sbjct: 1 TTIVGVVFKDGVVLGADTRATEGPIVADKNC 31
>gnl|CDD|238893 cd01912, proteasome_beta, proteasome beta 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 = 189
Score = 223 bits (572), Expect = 3e-71
Identities = 81/217 (37%), Positives = 110/217 (50%), Gaps = 29/217 (13%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TTIVG DGVVL ADTRA+ ++VA +N KI ++ NI AG+AADTQ T L+
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
L L +L G+ V A LL +L+ Y+
Sbjct: 61 RNLRLYELRNGRELSVKAAANLLSNILYSYRG---------------------------- 92
Query: 346 GHVSAALVLGGVD-DTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEE 404
+L++GGVD G L+ + P GS PF GSGS A + + +KP+MT EE
Sbjct: 93 FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEE 152
Query: 405 CKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYLR 441
+LV+ AI + + DL SG +D+ VI K+GVE LR
Sbjct: 153 AVELVKKAIDSAIERDLSSGGGVDVAVITKDGVEELR 189
Score = 42.4 bits (101), Expect = 1e-04
Identities = 18/31 (58%), Positives = 22/31 (70%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKNC 187
TTIVG DGVVL ADTRA+ ++VA +N
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNF 31
>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 = 184 bits (469), Expect = 6e-56
Identities = 65/208 (31%), Positives = 98/208 (47%), Gaps = 27/208 (12%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TTIVG DGVVL AD R T +VA +KI + +I C AG AAD Q + +
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
+ +L +L G+ V +LL +L+ Y +
Sbjct: 61 KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSL-------------------------- 94
Query: 346 GHVSAALVLGGVD-DTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEE 404
+ +L++ GVD + G L+++ P GS +GSGS A+ + E +KP+MT EE
Sbjct: 95 RPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEE 154
Query: 405 CKKLVRDAIAAGVFNDLGSGSNIDLCVI 432
+L A+ + + DL SG NI++ VI
Sbjct: 155 AIELALKALKSALERDLYSGGNIEVAVI 182
Score = 41.7 bits (99), Expect = 2e-04
Identities = 16/31 (51%), Positives = 17/31 (54%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKNC 187
TTIVG DGVVL AD R T +VA
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTV 31
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 175 bits (445), Expect = 9e-52
Identities = 71/249 (28%), Positives = 105/249 (42%), Gaps = 27/249 (10%)
Query: 205 FQKNAFLASKGYSGPTARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAK 264
F L Y+ ++ GTT VG DGVVL AD RAT ++A N +KI +
Sbjct: 10 FSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDD 69
Query: 265 NIYCCGAGTAADTQVTTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLV 324
+I AG AAD QV ++ +L +L G+ V +LL +L Y +
Sbjct: 70 HIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS-----G 124
Query: 325 RDAIAAGVFNDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSG 384
R +L++ GVDD G L++ P GS + +GSG
Sbjct: 125 R---------------------PYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSG 163
Query: 385 SLAAMSVFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVI-KKNGVEYLRPY 443
S A E ++ +++ EE +L A+ A + D SG I++ VI K G L
Sbjct: 164 SQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGE 223
Query: 444 EIANVKGKK 452
EI +
Sbjct: 224 EIKKLLDDL 232
Score = 49.2 bits (118), Expect = 1e-06
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 139 NAFLASKGYSGPTARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNC-YLLSYSDLIA 197
L Y+ ++ GTT VG DGVVL AD RAT ++A N + D I
Sbjct: 13 EGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIG 72
Query: 198 VTVS 201
+ ++
Sbjct: 73 MAIA 76
>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 = 169 bits (430), Expect = 4e-50
Identities = 67/212 (31%), Positives = 96/212 (45%), Gaps = 27/212 (12%)
Query: 223 KTGTTIVGAIFADGVVLGADTRAT-DDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTT 281
KTGTTIVG DGVVL AD RAT ++++ +KI + +I AG AAD Q
Sbjct: 2 KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLV 61
Query: 282 DLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSN 341
D ++ +L +L G+ V A R+ ++ Q G
Sbjct: 62 DYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQY-------------SGRRPYG---- 104
Query: 342 IDLCGHVSAALVLGGVDDTGA-HLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNM 400
+L++ G D+ G HL++I P GS +GSGS A E +KP+M
Sbjct: 105 --------VSLLIAGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDM 156
Query: 401 TEEECKKLVRDAIAAGVFNDLGSGSNIDLCVI 432
T EE +L A+ + D SG NI++ VI
Sbjct: 157 TLEEAVELAVKALKEAIERDALSGGNIEVAVI 188
Score = 46.8 bits (112), Expect = 5e-06
Identities = 19/33 (57%), Positives = 22/33 (66%)
Query: 154 KTGTTIVGAIFADGVVLGADTRATDDTIVAEKN 186
KTGTTIVG DGVVL AD RAT + + K+
Sbjct: 2 KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKD 34
>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 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 = 147 bits (374), Expect = 5e-42
Identities = 68/214 (31%), Positives = 105/214 (49%), Gaps = 30/214 (14%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TTI+ + GVVLGAD+R + + VA + K+ + IYCC +G+AADTQ D +
Sbjct: 1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
L++ + G+ P V TA L + + + Y+E
Sbjct: 61 YYLDMHSIELGEPPLVKTAASLFKNLCYNYKEM--------------------------- 93
Query: 346 GHVSAALVLGGVDDT-GAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEE 404
+SA +++ G D+ G +++I G PF GSGS ++N+KP MT EE
Sbjct: 94 --LSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEE 151
Query: 405 CKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVE 438
C K V++A++ + D SG I L +I K+GVE
Sbjct: 152 CIKFVKNALSLAMSRDGSSGGVIRLVIITKDGVE 185
Score = 36.0 bits (84), Expect = 0.019
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKN 186
TTI+ + GVVLGAD+R + + VA +
Sbjct: 1 TTIIAVEYDGGVVLGADSRTSTGSYVANRV 30
>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 = 129 bits (326), Expect = 4e-35
Identities = 67/213 (31%), Positives = 99/213 (46%), Gaps = 28/213 (13%)
Query: 225 GTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLI 284
GTT VG DGVVL AD RA+ VA KN +K+ + I AG+ D Q ++
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 285 ASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDL 344
++ +L +L G+ V LL +L + F +
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNILNSNR---------------FFPFI-------- 97
Query: 345 CGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEE 404
L++GGVD+ G HL+++ P G + GSGS A V E ++ +M+ EE
Sbjct: 98 -----VQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEE 152
Query: 405 CKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGV 437
KKL AI + + D+ SG+ ID+ VI K+GV
Sbjct: 153 AKKLAVRAIKSAIERDVASGNGIDVAVITKDGV 185
Score = 42.2 bits (100), Expect = 2e-04
Identities = 22/49 (44%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 156 GTTIVGAIFADGVVLGADTRATDDTIVAEKNCY-LLSYSDLIAVTVSSI 203
GTT VG DGVVL AD RA+ VA KN + D IA+T++
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGS 49
>gnl|CDD|238884 cd01901, Ntn_hydrolase, The Ntn hydrolases (N-terminal nucleophile)
are a diverse superfamily of of enzymes that are
activated autocatalytically via an N-terminally lcated
nucleophilic amino acid. N-terminal nucleophile (NTN-)
hydrolase superfamily, which contains a four-layered
alpha, beta, beta, alpha core structure. This family of
hydrolases includes penicillin acylase, the 20S
proteasome alpha and beta subunits, and glutamate
synthase. The mechanism of activation of these proteins
is conserved, although they differ in their substrate
specificities. All known members catalyze the hydrolysis
of amide bonds in either proteins or small molecules,
and each one of them is synthesized as a preprotein. For
each, an autocatalytic endoproteolytic process generates
a new N-terminal residue. This mature N-terminal residue
is central to catalysis and acts as both a polarizing
base and a nucleophile during the reaction. The
N-terminal amino group acts as the proton acceptor and
activates either the nucleophilic hydroxyl in a Ser or
Thr residue or the nucleophilic thiol in a Cys residue.
The position of the N-terminal nucleophile in the active
site and the mechanism of catalysis are conserved in
this family, despite considerable variation in the
protein sequences.
Length = 164
Score = 125 bits (315), Expect = 6e-34
Identities = 52/191 (27%), Positives = 74/191 (38%), Gaps = 28/191 (14%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
+T V GVVL AD R + VA KI I AG AAD Q +
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
L+L +L G+ V+ + L ++L Y +
Sbjct: 61 EALQLYRLRYGEPISVVALAKELAKLLQVYTQG--------------------------- 93
Query: 346 GHVSAALVLGGVDDTGAHLFNIYPHGSSDTVP-FCTMGSGSLAAMSVFESNWKPNMTEEE 404
L++ GVD+ G +L+ I P G P GS S A S+ E +KP+MT EE
Sbjct: 94 RPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEE 153
Query: 405 CKKLVRDAIAA 415
+L A+ +
Sbjct: 154 AVELALKALKS 164
Score = 36.2 bits (84), Expect = 0.014
Identities = 11/31 (35%), Positives = 13/31 (41%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKNC 187
+T V GVVL AD R + VA
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPV 31
>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 = 124 bits (313), Expect = 3e-33
Identities = 68/215 (31%), Positives = 97/215 (45%), Gaps = 28/215 (13%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TT VG + DGVVL AD RA+ +A KN +KI + I AG+ D Q ++
Sbjct: 1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILK 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
++ L +L G+ + LL +L F +
Sbjct: 61 AEARLYELRRGRPMSIKALATLLSNILNSS---------------KYFPYI--------- 96
Query: 346 GHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEEC 405
L++GGVD+ G HL+++ P GS + GSGS A V E +K +MT EE
Sbjct: 97 ----VQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEA 152
Query: 406 KKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYL 440
KKL AI + + D SG ID+ VI K+G + L
Sbjct: 153 KKLAIRAIKSAIERDSASGDGIDVVVITKDGYKEL 187
Score = 39.9 bits (94), Expect = 0.001
Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVAEKNC-YLLSYSDLIAVTVS 201
TT VG + DGVVL AD RA+ +A KN + D IA+T++
Sbjct: 1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIA 46
>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 = 92.7 bits (231), Expect = 6e-22
Identities = 55/215 (25%), Positives = 97/215 (45%), Gaps = 28/215 (13%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIA 285
TT + IF GV++ D+RAT + +A + +K+ + + AG AAD Q ++
Sbjct: 1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG 60
Query: 286 SQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
+ L +L + V A++LL ML++Y+ G G
Sbjct: 61 RECRLYELRNKERISVAAASKLLSNMLYQYK--------------------GMG------ 94
Query: 346 GHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEEC 405
+S ++ G D TG L+ + G+ ++GSGS A V +S ++ +++ EE
Sbjct: 95 --LSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEA 152
Query: 406 KKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYL 440
L R AI D SG N++L ++++G +
Sbjct: 153 YDLARRAIYHATHRDAYSGGNVNLYHVREDGWRKI 187
Score = 30.3 bits (69), Expect = 1.5
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 8/42 (19%)
Query: 157 TTIVGAIFADGVVLGADTRATDDTIVA--------EKNCYLL 190
TT + IF GV++ D+RAT + +A E N YLL
Sbjct: 1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLL 42
>gnl|CDD|239726 cd03757, proteasome_beta_type_1, proteasome beta type-1 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 = 212
Score = 73.1 bits (180), Expect = 8e-15
Identities = 46/229 (20%), Positives = 89/229 (38%), Gaps = 48/229 (20%)
Query: 225 GTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLI 284
G T++ D V+ DTR ++ + ++ KI + +G AD T +
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67
Query: 285 ASQLELLKLNTGKIPRVITANRLLRQML-----FRYQEEECKKLVRDAIAAGVFNDLGSG 339
+++++ K + K +LL +L F Y VFN
Sbjct: 68 KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYY---------------VFN----- 107
Query: 340 SNIDLCGHVSAALVLGGVDDTG-AHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFES---- 394
+L G+D+ G +++ P GS + + GS S + ++
Sbjct: 108 -------------ILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGR 154
Query: 395 -NWKP----NMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVE 438
N ++ EE LV+DA + D+ +G ++++ +I K+G+E
Sbjct: 155 KNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIE 203
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 72.7 bits (178), Expect = 2e-14
Identities = 58/232 (25%), Positives = 101/232 (43%), Gaps = 33/232 (14%)
Query: 210 FLASKGYSGPTARKT-----GTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAK 264
FLA + A K GTT + + G+++ D++AT +A ++ +K+ +
Sbjct: 19 FLAEYTFDHGDANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINP 78
Query: 265 NIYCCGAGTAADTQVTTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLV 324
+ AG AAD +A Q L +L G++ V A+++L +++ Y+
Sbjct: 79 TLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYK-------- 130
Query: 325 RDAIAAGVFNDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSG 384
G G +S ++ G D G LF + G+ + GSG
Sbjct: 131 ------------GMG--------LSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSG 170
Query: 385 SLAAMSVFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNG 436
S A V ++ +K ++ +EE + L R AI F D SG I+L ++K+G
Sbjct: 171 STYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDG 222
Score = 29.6 bits (66), Expect = 3.2
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 141 FLASKGYSGPTARKT-----GTTIVGAIFADGVVLGADTRATDDTIVAEKN 186
FLA + A K GTT + + G+++ D++AT +A ++
Sbjct: 19 FLAEYTFDHGDANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQS 69
>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 = 68.8 bits (169), Expect = 3e-13
Identities = 57/232 (24%), Positives = 87/232 (37%), Gaps = 50/232 (21%)
Query: 220 TARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQV 279
A K GTT VG DGVVL D R T + + +KI + +I +G AD +V
Sbjct: 24 EAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPS-SIEKIFKIDDHIGAATSGLVADARV 82
Query: 280 TTDLIASQLELLKLNTGKIPRVIT-ANRLLRQMLFRYQE----EECKKLVRDAIAA---- 330
D R+ NRL Y E E K + D
Sbjct: 83 LID---------------RARIEAQINRL------TYGEPIDVETLAKKICDLKQQYTQH 121
Query: 331 -GV--FNDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLA 387
GV F AL++ GVDD G LF P G+ +G+G A
Sbjct: 122 GGVRPF---------------GVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQA 166
Query: 388 AMSVFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEY 439
E ++ +++ +E +L A+ + V + L + N+++ I ++
Sbjct: 167 VTEFLEKEYREDLSLDEAIELALKALYSAVEDKL-TPENVEVAYITVEDKKF 217
Score = 33.0 bits (76), Expect = 0.23
Identities = 15/27 (55%), Positives = 15/27 (55%)
Query: 151 TARKTGTTIVGAIFADGVVLGADTRAT 177
A K GTT VG DGVVL D R T
Sbjct: 24 EAVKRGTTAVGIKTKDGVVLAVDKRIT 50
>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 = 65.8 bits (161), Expect = 2e-12
Identities = 54/221 (24%), Positives = 88/221 (39%), Gaps = 40/221 (18%)
Query: 220 TARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQV 279
A K GTT +G +GVVL D R T + E + +KI+ + ++ +G AD +V
Sbjct: 23 EAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPE-SIEKIYKIDDHVGAATSGLVADARV 81
Query: 280 TTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAA-----GV-- 332
D + ++ +L G+ V E K + D GV
Sbjct: 82 LIDRARVEAQIHRLTYGEPIDV----------------EVLVKKICDLKQQYTQHGGVRP 125
Query: 333 FNDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVF 392
F AL++ GVDD G LF P G+ + +GSG A
Sbjct: 126 F---------------GVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFL 170
Query: 393 ESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIK 433
E +K +M+ EE +L A+ A + + + N+++ +
Sbjct: 171 EKEYKEDMSLEEAIELALKALYAAL-EENETPENVEIAYVT 210
Score = 31.9 bits (73), Expect = 0.51
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 151 TARKTGTTIVGAIFADGVVLGADTRAT 177
A K GTT +G +GVVL D R T
Sbjct: 23 EAVKRGTTALGIKCKEGVVLAVDKRIT 49
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 66.0 bits (162), Expect = 3e-12
Identities = 65/246 (26%), Positives = 86/246 (34%), Gaps = 62/246 (25%)
Query: 221 ARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVT 280
A K GTT VG DGVVL D R T I +KI + +I AG AD +V
Sbjct: 32 AVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSS-IEKIFKIDDHIGAASAGLVADARVL 90
Query: 281 TDL--IASQLELLKLNTGKIPRVITANRLLRQMLFRYQE----EECKKLVRDAIAA---- 330
D + +Q+ NRL Y E E K + D
Sbjct: 91 IDRARVEAQI----------------NRL------TYGEPIGVETLTKKICDHKQQYTQH 128
Query: 331 -GV--FNDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPF---CT-MGS 383
GV F AL++ GVDD G LF P G T +G+
Sbjct: 129 GGVRPF---------------GVALLIAGVDDGGPRLFETDPSG----AYLEYKATAIGA 169
Query: 384 GSLAAMSVFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNG--VEYLR 441
G M E N+K +++ EE +L A+A N+++ I L
Sbjct: 170 GRDTVMEFLEKNYKEDLSLEEAIELALKALAKAN-EGKLDPENVEIAYIDVETKKFRKLS 228
Query: 442 PYEIAN 447
EI
Sbjct: 229 VEEIEK 234
Score = 31.7 bits (73), Expect = 0.67
Identities = 15/26 (57%), Positives = 15/26 (57%)
Query: 152 ARKTGTTIVGAIFADGVVLGADTRAT 177
A K GTT VG DGVVL D R T
Sbjct: 32 AVKRGTTAVGVKTKDGVVLAVDKRIT 57
>gnl|CDD|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 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 = 197
Score = 64.5 bits (158), Expect = 5e-12
Identities = 57/225 (25%), Positives = 94/225 (41%), Gaps = 34/225 (15%)
Query: 224 TGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDL 283
TGT+++ + DGV++ ADT + ++ KN ++I + N +G AD Q L
Sbjct: 1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRL 60
Query: 284 IASQL---ELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGS 340
+ + E L P+ I + L R + R K N L +
Sbjct: 61 LDQLVIDDECLDDGHSLSPKEI-HSYLTRVLYNR----RSK-----------MNPLWN-- 102
Query: 341 NIDLCGHVSAALVLGGVDDTG-AHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNW--K 397
LV+GGVD+ G L + G++ P G G+ A+ + W K
Sbjct: 103 ----------TLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKK 152
Query: 398 PNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYLRP 442
P++TEEE + L+ + + + D S + + V+ K GVE P
Sbjct: 153 PDLTEEEARALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEGP 197
Score = 32.9 bits (76), Expect = 0.19
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 155 TGTTIVGAIFADGVVLGADTRA 176
TGT+++ + DGV++ ADT
Sbjct: 1 TGTSVIAIKYKDGVIIAADTLG 22
>gnl|CDD|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 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 = 193
Score = 62.6 bits (153), Expect = 2e-11
Identities = 52/220 (23%), Positives = 89/220 (40%), Gaps = 37/220 (16%)
Query: 227 TIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIAS 286
T++G D V+L ADT A +V + + KI+ ++ + +G A D + I
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62
Query: 287 QLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLCG 346
++L K+ G A R+ L L S +
Sbjct: 63 NIQLYKMRNGYELSPKAAANFTRRELAES--------------------LRSRTPY---- 98
Query: 347 HVSAALVLGGVDD-TGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEEC 405
V+ L+L G D G L+ I G+ VP+ G G+ +S+ + +KP+MT EE
Sbjct: 99 QVN--LLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEA 156
Query: 406 KKLVRDAIAAGVFNDLG-----SGSNIDLCVIKKNGVEYL 440
+L++ I +L + N + V+ K+G+ L
Sbjct: 157 LELMKKCI-----KELKKRFIINLPNFTVKVVDKDGIRDL 191
>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 = 59.0 bits (144), Expect = 5e-10
Identities = 59/227 (25%), Positives = 87/227 (38%), Gaps = 55/227 (24%)
Query: 221 ARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVT 280
A K G+T VG DGVVL + + T + +KI + +I C AG AD +V
Sbjct: 23 AVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSV-EKIFKIDDHIGCAVAGLTADARV- 80
Query: 281 TDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEE---CKKLVRDAIA-------- 329
L+ RV N +RY E + LV+ IA
Sbjct: 81 --LV------------NRARVEAQN-------YRYTYGEPIPVEVLVK-RIADLAQVYTQ 118
Query: 330 -AGV--FNDLGSGSNIDLCGHVSAALVLGGVD-DTGAHLFNIYPHGSSDTVPFCTMGSGS 385
GV F G +L++ G D + G L+ P G+ +G GS
Sbjct: 119 YGGVRPF------------G---VSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGS 163
Query: 386 LAAMSVFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVI 432
A + E +K ++T EE KL A+ + D NI++ V+
Sbjct: 164 QEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV 209
Score = 29.3 bits (67), Expect = 3.1
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 152 ARKTGTTIVGAIFADGVVLGADTRATD 178
A K G+T VG DGVVL + + T
Sbjct: 23 AVKNGSTAVGIKGKDGVVLAVEKKVTS 49
>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 = 53.1 bits (128), Expect = 5e-08
Identities = 58/217 (26%), Positives = 91/217 (41%), Gaps = 31/217 (14%)
Query: 221 ARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVT 280
A K G+T +G +GVVL + R T ++ + +KI + +I C +G AD +
Sbjct: 23 AIKLGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADART- 80
Query: 281 TDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQE----EECKKLVRD-AIAAGVFND 335
LI RV N F Y E E + V D A+ F +
Sbjct: 81 --LIDHA------------RVEAQNHR-----FTYNEPMTVESVTQAVSDLALQ---FGE 118
Query: 336 LGSGSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESN 395
G + AL++ GVD+ G LF+ P G+ +GSGS A S +
Sbjct: 119 GDDGKKA-MSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEK 177
Query: 396 WKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVI 432
+ +MT EE +KL +I V + + +N++L +
Sbjct: 178 YHKDMTLEEAEKLAL-SILKQVMEEKLNSTNVELATV 213
>gnl|CDD|204931 pfam12465, Pr_beta_C, Proteasome beta subunits C terminal. This
domain family is found in eukaryotes, and is
approximately 40 amino acids in length. The family is
found in association with pfam00227. There is a
conserved GTT sequence motif. There is a single
completely conserved residue Y that may be functionally
important. This family includes the C terminal of the
beta-type subunits of the proteasome, a multimeric
complex that degrades proteins into peptides as part of
the MHC class I-mediated Ag-presenting pathway.
Length = 38
Score = 47.1 bits (113), Expect = 2e-07
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 446 ANVKGKKDGDYRFKRGTTALLSTQRIP--IVVESEQV 480
N +G++ G Y+FK GTTA+L T+ +P + V E V
Sbjct: 1 PNERGERQGSYKFKPGTTAVL-TESVPLKLDVVEETV 36
>gnl|CDD|239728 cd03759, proteasome_beta_type_3, proteasome beta type-3 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 = 195
Score = 49.9 bits (120), Expect = 4e-07
Identities = 44/214 (20%), Positives = 79/214 (36%), Gaps = 26/214 (12%)
Query: 224 TGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDL 283
G +V D V + +D R + QK+ + +Y AG A D Q
Sbjct: 2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQK 61
Query: 284 IASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNID 343
+ ++ L +L + + T + L+ +L Y++ V + + AG+ D
Sbjct: 62 LRFRVNLYRLREEREIKPKTFSSLISSLL--YEKRFGPYFV-EPVVAGLDPDGKP----- 113
Query: 344 LCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEE 403
+ +D G S F G+ S + ES W+P+M +
Sbjct: 114 ---------FICTMDLIGC---------PSIPSDFVVSGTASEQLYGMCESLWRPDMEPD 155
Query: 404 ECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGV 437
E + + A+ + V D SG + +I K+ V
Sbjct: 156 ELFETISQALLSAVDRDALSGWGAVVYIITKDKV 189
>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 = 46.9 bits (112), Expect = 7e-06
Identities = 53/234 (22%), Positives = 90/234 (38%), Gaps = 41/234 (17%)
Query: 220 TARKTGTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQV 279
A +G VG A+GVVL + + I E + K+ + +I +G D +V
Sbjct: 22 AAVSSGAPSVGIKAANGVVLATEKKVPSPLID-ESSVHKVEQITPHIGMVYSGMGPDFRV 80
Query: 280 TTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEE-ECKKLVRDAIAAGVFNDLGS 338
L+K A ++ +Q Y E +LVR+ IA+ V +
Sbjct: 81 ----------LVKK----------ARKIAQQYYLVYGEPIPVSQLVRE-IAS-VMQEYTQ 118
Query: 339 GSNIDLCGHVSAALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKP 398
+ G +L++ G D+ G +L+ + P GS T +G A + E +
Sbjct: 119 SGGVRPFG---VSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNE 175
Query: 399 NMTEEECKKLVRDAIAAGV------FNDLGSGSNIDLCVI-KKNGVEYLRPYEI 445
++ E DAI + F + NI++ + + G L P EI
Sbjct: 176 DLELE-------DAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEI 222
>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type.
Members of this family are the beta subunit of the 20S
proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In
Streptomyces, maturation during proteasome assembly was
shown to remove a 53-amino acid propeptide. Most of the
length of the propeptide is not included in this model
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 219
Score = 45.1 bits (107), Expect = 2e-05
Identities = 46/187 (24%), Positives = 75/187 (40%), Gaps = 36/187 (19%)
Query: 225 GTTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIH----YMAKNIYCCGAGTAADTQVT 280
GTTIV + GV++ D RAT ++A ++ +K++ Y A I AGTA
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGI----AGTAGLAIEL 57
Query: 281 TDLIASQLELL-KLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSG 339
L +LE K+ + ANRL +VR + A
Sbjct: 58 VRLFQVELEHYEKIEGVPLTLDGKANRL-------------AAMVRGNLPAA-------- 96
Query: 340 SNIDLCGHVSAALVLGGVDDTGA-HLFNIYPHGS-SDTVPFCTMGSGSLAAMSVFESNWK 397
+ G L+ G D GA +F+ G + + +GSGS+ A + +
Sbjct: 97 ----MQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYS 152
Query: 398 PNMTEEE 404
P++ E++
Sbjct: 153 PDLDEDD 159
Score = 35.8 bits (83), Expect = 0.026
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 156 GTTIVGAIFADGVVLGADTRATDDTIVAEKN 186
GTTIV + GV++ D RAT ++A ++
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMIASRD 32
>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 = 44.3 bits (105), Expect = 4e-05
Identities = 51/219 (23%), Positives = 81/219 (36%), Gaps = 41/219 (18%)
Query: 221 ARKTGTTIVGAIFADGVVLGADTRAT----DDTIVAEKNCQKIHYMAKNIYCCGAGTAAD 276
A + GTT VG D VVLG + ++ D + +KI + ++ AG AD
Sbjct: 23 AVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDP-----RTVRKICMLDDHVCLAFAGLTAD 77
Query: 277 TQVTTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGV--FN 334
+V + + + +L V R + + RY + + GV F
Sbjct: 78 ARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQ-----------SGGVRPFG 126
Query: 335 DLGSGSNIDLCGHVSAALVLGGVD-DTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFE 393
+S ++ G D D L+ P G+ +G S E
Sbjct: 127 -------------IST--LIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLE 171
Query: 394 SNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVI 432
N+K MT ++ KL A+ V GS NI+L V+
Sbjct: 172 KNYKEEMTRDDTIKLAIKALLEVV--QSGSK-NIELAVM 207
>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 = 41.9 bits (99), Expect = 3e-04
Identities = 42/199 (21%), Positives = 74/199 (37%), Gaps = 55/199 (27%)
Query: 227 TIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIAS 286
T +G + DG+VL A+ + T + + +KI+ + +I C AG +D + +
Sbjct: 31 TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILIN---- 86
Query: 287 QLELLKLNTGKIPRVITANRLLRQMLFRYQEEE-CKKLVRDAIAAGVFNDLGSGSNIDLC 345
A + ++ L+ YQE ++LV+ LC
Sbjct: 87 ----------------YARLIAQRYLYSYQEPIPVEQLVQ-----------------RLC 113
Query: 346 GH--------------VSAALVLGGVDDT-GAHLFNIYPHGSSDTVPFCTMGSGSLAAMS 390
VS + G D G L+ P G+ +G+ + AA S
Sbjct: 114 DIKQGYTQYGGLRPFGVS--FLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQS 171
Query: 391 VFESNWKPNMTEEECKKLV 409
+ + ++K +MT EE L
Sbjct: 172 LLKQDYKDDMTLEEALALA 190
>gnl|CDD|219819 pfam08395, 7tm_7, 7tm Chemosensory receptor. This family includes
a number of gustatory and odorant receptors mainly from
insect species such as A. gambiae and D. melanogaster.
They are classified as G-protein-coupled receptors
(GPCRs), or seven-transmembrane receptors. They show
high sequence divergence, consistent with an ancient
origin for the family.
Length = 370
Score = 42.4 bits (100), Expect = 3e-04
Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 70 VKFFLLELRDRKFKFEIFRLFSLDFDTFLSYKMMGFISTYIVILIQ 115
++ FLL+L +K KF LF LD S M I+TY+VILIQ
Sbjct: 322 IEKFLLQLLHQKLKFTACGLFDLDRSLLFS--MFSAITTYLVILIQ 365
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 38.7 bits (90), Expect = 0.004
Identities = 45/229 (19%), Positives = 86/229 (37%), Gaps = 35/229 (15%)
Query: 229 VGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIASQL 288
VG + +GV+LGAD + + K +KI+ + +I+C AG AD +
Sbjct: 35 VGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANI--------- 85
Query: 289 ELLKLNTGKIPRVITANRLLRQ-MLFRYQEEE-CKKLVRDAIAAGVFNDLGSGSNIDLCG 346
+I RL Q + Y E + ++LV + + S +
Sbjct: 86 ------------LINQCRLYAQRYRYTYGEPQPVEQLV-----VQICDLKQSYTQFGGLR 128
Query: 347 HVSAALVLGGVDDT-GAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPNMTEEEC 405
+ + G D+ G L++ P G+ +G + A S+ + WK ++T E+
Sbjct: 129 PFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQG 188
Query: 406 KKLVRDAIAAGVFNDLGSGSNIDLCVIKKNG------VEYLRPYEIANV 448
L + + + I++ ++ + L EIA +
Sbjct: 189 LLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAEL 237
>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 = 38.0 bits (89), Expect = 0.006
Identities = 44/193 (22%), Positives = 70/193 (36%), Gaps = 42/193 (21%)
Query: 227 TIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCGAGTAADTQVTTDLIAS 286
T +G DGVVL + T N ++I + ++I AG AD +
Sbjct: 32 TAIGIRCKDGVVLAVEKLVTSKLYEPGSN-KRIFNVDRHIGIAVAGLLADGRHLVSRARE 90
Query: 287 QLELLKLNTGK-IPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFNDLGSGSNIDLC 345
+ E + N G IP + A+R+ +
Sbjct: 91 EAENYRDNYGTPIPVKVLADRV-------------------------------AMYMHAY 119
Query: 346 GHVSA------ALVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWKPN 399
S+ +++LGG D G L+ I P G S C +G G AA + E K
Sbjct: 120 TLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELE---KLK 176
Query: 400 MTEEECKKLVRDA 412
+E C++ V++A
Sbjct: 177 FSELTCREAVKEA 189
>gnl|CDD|226015 COG3484, COG3484, Predicted proteasome-type protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 255
Score = 35.6 bits (82), Expect = 0.037
Identities = 52/236 (22%), Positives = 89/236 (37%), Gaps = 40/236 (16%)
Query: 226 TTIVGAIFADGVVLGADTR--ATDDTIVAEKNCQKIHYMA----KNIYCCGAGTAADTQV 279
T VG I G+V G+D+R A D I K K+ + + C AG A TQ
Sbjct: 2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFK---KLFVFELPGDRVLVLCTAGNLAITQA 58
Query: 280 TTDLIASQLELLKLNTGK----IPRVITANRLLRQMLFRYQEEECKKLVRDAIAAGVFND 335
L+ E ++ + G IP + A L+ + + Q RD+ A
Sbjct: 59 VLHLLD---ERIQRDDGDSLLNIPSMYEATTLVGETVREVQA-------RDSPA------ 102
Query: 336 LGSGSNIDLCGHVSAALVLGG-VDDTGAHLFNIYPHG----SSDTVPFCTMGSGSLAAMS 390
+ ID + + +LGG + L+ IYP G ++ PF +G +
Sbjct: 103 -LEKAGIDF----NCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKP 156
Query: 391 VFESNWKPNMTEEECKKLVRDAIAAGVFNDLGSGSNIDLCVIKKNGVEYLRPYEIA 446
+ + + EE K + + + +++ G +DL V + + I
Sbjct: 157 ILDRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSFSVRHTLRIR 212
>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 = 35.0 bits (81), Expect = 0.047
Identities = 18/66 (27%), Positives = 36/66 (54%), Gaps = 5/66 (7%)
Query: 352 LVLGGVDDTGAHLFNIYPHGSSDTVPFCTMGSGSLAAMSVFESNWK--PNMTEEECKKLV 409
L++ G D++G HLF P G+ ++G+ S +A + E +++ + + EE L+
Sbjct: 127 LLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEE---LI 183
Query: 410 RDAIAA 415
+ A+ A
Sbjct: 184 KHALRA 189
>gnl|CDD|222368 pfam13771, zf-HC5HC2H, PHD-like zinc-binding domain. The members
of this family are annotated as containing PHD domain,
but the zinc-binding region here is not typical of PHD
domains. The conformation here is a well-conserved
cysteine-histidine rich region spanning 90 residues,
where the Cys and His are arranged as
HxxC(31)CxxC(6)CxxCxxxxCxxxxHxxC (21)CxxH.
Length = 89
Score = 28.5 bits (64), Expect = 1.8
Identities = 10/25 (40%), Positives = 10/25 (40%), Gaps = 8/25 (32%)
Query: 20 IKCCVPGCHRFLPRAYCPDFHVLCG 44
I CCV C R FHV C
Sbjct: 49 IGCCVKNCRRA--------FHVTCA 65
>gnl|CDD|238894 cd01913, protease_HslV, Protease HslV and the ATPase/chaperone HslU
are part of an ATP-dependent proteolytic system that is
the prokaryotic homolog of the proteasome. HslV is a
dimer of hexamers (a dodecamer) that forms a central
proteolytic chamber with active sites on the interior
walls of the cavity. HslV shares significant sequence
and structural similarity with the proteasomal
beta-subunit and both are members of the Ntn-family of
hydrolases. HslV has a nucleophilic threonine residue
at its N-terminus that is exposed after processing of
the propeptide and is directly involved in active site
catalysis.
Length = 171
Score = 29.5 bits (67), Expect = 2.4
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 226 TTIVGAIFADGVVLGADTRATDDTIVAEKNCQKIHYMAKNIYCCG-AGTAAD 276
TTI+ VV+ D + T V + N +K+ + G AG+ AD
Sbjct: 1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTAD 52
>gnl|CDD|188530 TIGR04015, WcaC, colanic acid biosynthesis glycosyl transferase
WcaC. This gene is one of the glycosyl transferases
involved in the biosynthesis of colanic acid, an
exopolysaccharide expressed in Enterobacteraceae
species.
Length = 405
Score = 29.9 bits (67), Expect = 3.0
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 279 VTTDLIASQLELLKLNTGKIPRVITANRLLRQMLFRYQEEECKKLVRDAIAAG 331
V T+ I ++L + GK + A+ L RY + ++LVRD +A G
Sbjct: 223 VATEAILAELPPVPETPGKPKIAVVAHDL------RYDGKTNQRLVRDMMALG 269
>gnl|CDD|225514 COG2966, COG2966, Uncharacterized conserved protein [Function
unknown].
Length = 250
Score = 29.2 bits (66), Expect = 4.3
Identities = 15/76 (19%), Positives = 27/76 (35%), Gaps = 7/76 (9%)
Query: 88 RLFSLDFDTFLSYKMMGFISTYIVILIQESYNDFGRLSTSTIVQKALQSEINAFLASKGY 147
LF + FL F + + L+++ + G + L S I + +A
Sbjct: 141 LLFGGGWLDFLI----AFFAGLLGFLLRQYLSRKGNPD---FFFEVLASFIASIVAVLFG 193
Query: 148 SGPTARKTGTTIVGAI 163
S I+G+I
Sbjct: 194 SLGLGITPDALIIGSI 209
>gnl|CDD|215811 pfam00235, Profilin, Profilin.
Length = 121
Score = 27.9 bits (63), Expect = 5.0
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 134 LQSEINAFLASKGYSGPTARKTGTTIVGAIFADGVVLGADTRATDD 179
++++ + KG G KT ++ ++ + V G + +
Sbjct: 71 IRADDGSIYGKKGKGGVVIVKTKQALIIGMYDEPVQPGQANKVVEK 116
>gnl|CDD|227490 COG5161, SFT1, Pre-mRNA cleavage and polyadenylation specificity
factor [RNA processing and modification].
Length = 1319
Score = 29.5 bits (66), Expect = 5.5
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 317 EEECKKLVRDAIAAGVF--NDLGSGSNIDLCGHVSAALVLGGVDDTGAHLFNI 367
+ K+++ IA+ F + L GS + GHV+ L GGV D+ + + I
Sbjct: 366 SMDGKRIIGFDIASLEFEGDLLKKGSAVSCVGHVNNLLFFGGVGDSNSRVLRI 418
>gnl|CDD|214441 MTH00157, ATP6, ATP synthase F0 subunit 6; Provisional.
Length = 223
Score = 28.6 bits (65), Expect = 5.8
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 61 WLSPLELGLV----KFFLLELRDRKFKFEIFRLFSLDFDTFLSYKMMG----FISTYIVI 112
WLS LGL+ F+L+ R +I + +F T L K G FIS + I
Sbjct: 21 WLSTF-LGLLFIPSSFWLIPSRYNILWNKILKTLHKEFKTLLGPKNKGSTLIFISLFSFI 79
Query: 113 LI 114
L
Sbjct: 80 LF 81
>gnl|CDD|130727 TIGR01666, YCCS, TIGR01666 family membrane protein. This model
represents a clade of sequences from gamma and beta
proteobacteria. These proteins are >700 amino acids long
and many have been annotated as putative membrane
proteins. The gene from Salmonella has been annotated as
a putative efflux transporter. The gene from E. coli has
the name yccS [Cell envelope, Other].
Length = 704
Score = 28.7 bits (64), Expect = 9.9
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 12/68 (17%)
Query: 59 VSWLSPLELGLVKFFLLELRDR---KFKFEIFRLFS---------LDFDTFLSYKMMGFI 106
S PL LG++ L++L DR + K IF L L F + + +
Sbjct: 31 SSQSMPLILGIIAAALVDLDDRLTGRLKNVIFTLICFSIASFSVELLFGKPWLFAVGLTV 90
Query: 107 STYIVILI 114
ST+ I++
Sbjct: 91 STFGFIML 98
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
0.321 0.137 0.406
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,747,390
Number of extensions: 2443848
Number of successful extensions: 2208
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2181
Number of HSP's successfully gapped: 83
Length of query: 486
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 385
Effective length of database: 6,457,848
Effective search space: 2486271480
Effective search space used: 2486271480
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 (21.9 bits)
S2: 61 (27.3 bits)