RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11707
(177 letters)
>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 = 277 bits (712), Expect = 7e-97
Identities = 103/149 (69%), Positives = 127/149 (85%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S ++KK++EIN YLLGT+AGGAADC YW+RVL ++CRLYELRN ERISVAAASKL+ NM
Sbjct: 27 ASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNM 86
Query: 64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
Y YKG GLSMG MI GWDK GP LYYVDSDG R+KG++FSVGSGS +A+GVLD+GY ++
Sbjct: 87 LYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYD 146
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
L+ EEA+ LAR++IYHAT+RD SGG +
Sbjct: 147 LSVEEAYDLARRAIYHATHRDAYSGGNVN 175
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 232 bits (594), Expect = 3e-78
Identities = 99/148 (66%), Positives = 122/148 (82%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S S+KK++EIN LLGT+AGGAADC +W+R LA QCRLYELRNGE ISVAAASK++ N+
Sbjct: 66 ASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANI 125
Query: 64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
+NYKG GLSMG MI GWDK+GP L+YVD+DG R+ GN+FS GSGS +A+GVLD G+ W+
Sbjct: 126 VWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWD 185
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
L DEEA L R++IYHAT+RD SGG I
Sbjct: 186 LNDEEAQDLGRRAIYHATFRDAYSGGAI 213
>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 = 176 bits (450), Expect = 5e-57
Identities = 67/156 (42%), Positives = 96/156 (61%), Gaps = 7/156 (4%)
Query: 4 SSGSM------KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAAS 57
S+GS+ KI +I+D +L AG AAD R+L + RLYELRNG +SV AA+
Sbjct: 21 SAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA 80
Query: 58 KLMCNMAYNYKGTGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
L+ N+ Y+Y+G + +++ G DK GP LYYVD G I+ + GSGS +A+G+L
Sbjct: 81 NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGIL 140
Query: 117 DTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
D GY ++T EEA +L +K+I A RD +SGG +
Sbjct: 141 DRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176
>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 = 154 bits (393), Expect = 2e-48
Identities = 60/149 (40%), Positives = 90/149 (60%), Gaps = 3/149 (2%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S +++KI +I+D++ AG AAD L K+ +LY LR GE I V A +KL+ N+
Sbjct: 27 ASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANL 86
Query: 64 AYNYKGTG--LSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
Y Y + L + +++AG D+ GPQLY VD G I+ ++GSGS +A G+L+ Y
Sbjct: 87 LYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLY 146
Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGG 149
++T EEA +LA K++ A RD SGG
Sbjct: 147 KPDMTLEEAIELALKALKSALERDLYSGG 175
>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 = 143 bits (364), Expect = 4e-44
Identities = 55/154 (35%), Positives = 83/154 (53%), Gaps = 6/154 (3%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISV----AAASKL 59
S +++KI +I+D++ AG AAD + +LY LR G ISV A KL
Sbjct: 32 SKDTVEKIFKIDDHIGMAFAGLAADAQTLVDYARAEAQLYRLRYGRPISVELAKRIADKL 91
Query: 60 MCNMAYNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
Y+ + + ++IAG+D+ G P LY +D G I+ ++GSGS +A+G L+
Sbjct: 92 QAYTQYSGRR-PYGVSLLIAGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEK 150
Query: 119 GYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
Y ++T EEA +LA K++ A RD SGG I
Sbjct: 151 LYKPDMTLEEAVELAVKALKEAIERDALSGGNIE 184
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 133 bits (337), Expect = 2e-39
Identities = 59/150 (39%), Positives = 89/150 (59%), Gaps = 2/150 (1%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S +++KI +I+D++ +AG AAD R + +LY LR GE ISV A +KL+ N+
Sbjct: 57 ASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNI 116
Query: 64 AYNYKGTG--LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
Y +G + +++AG D GP+LY D G + ++GSGS FA+G L+ Y
Sbjct: 117 LQEYTQSGRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR 176
Query: 122 WNLTDEEAHQLARKSIYHATYRDFASGGLI 151
+L+ EEA +LA K++ A RD ASGG I
Sbjct: 177 EDLSLEEAIELAVKALRAAIERDAASGGGI 206
>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 = 120 bits (302), Expect = 1e-34
Identities = 54/148 (36%), Positives = 87/148 (58%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S + KK+ +I+DY+ T+AG D R+L + +LYELR G +SV A + L+ N+
Sbjct: 28 ASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNI 87
Query: 64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
+ + + +++ G D+ GP LY +D G I+ + + GSGS A+GVL+ Y +
Sbjct: 88 LNSNRFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYRED 147
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
++ EEA +LA ++I A RD ASG I
Sbjct: 148 MSVEEAKKLAVRAIKSAIERDVASGNGI 175
>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 = 116 bits (293), Expect = 2e-33
Identities = 56/144 (38%), Positives = 83/144 (57%)
Query: 9 KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
KKI +I+D + T+AG D R+L + RLYELR G +S+ A + L+ N+ + K
Sbjct: 32 KKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSK 91
Query: 69 GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
+ ++I G D+ GP LY +D G I+ + GSGS +A+GVL+ Y ++T EE
Sbjct: 92 YFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEE 151
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
A +LA ++I A RD ASG I
Sbjct: 152 AKKLAIRAIKSAIERDSASGDGID 175
>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 = 112 bits (281), Expect = 6e-32
Identities = 47/141 (33%), Positives = 72/141 (51%), Gaps = 2/141 (1%)
Query: 1 MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM 60
+ + + KI + D + LAG AAD R L + +LY LR GE ISV A +K +
Sbjct: 24 LPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKEL 83
Query: 61 CNMAYNYK-GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLDT 118
+ Y G + +++AG D+ G LYY+D G I+ + GS S A +L+
Sbjct: 84 AKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEK 143
Query: 119 GYHWNLTDEEAHQLARKSIYH 139
Y ++T EEA +LA K++
Sbjct: 144 LYKPDMTLEEAVELALKALKS 164
>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 = 97.3 bits (243), Expect = 8e-26
Identities = 46/144 (31%), Positives = 75/144 (52%), Gaps = 2/144 (1%)
Query: 10 KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
K+ +++D + +G AAD + ++ + GE V A+ L N+ YNYK
Sbjct: 33 KLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKE 92
Query: 70 TGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
LS G+++AGWD+ G Q+Y + G I+ GSGS + +G +D Y +T EE
Sbjct: 93 M-LSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEE 151
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
+ + ++ A RD +SGG+IR
Sbjct: 152 CIKFVKNALSLAMSRDGSSGGVIR 175
>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 = 80.3 bits (199), Expect = 3e-19
Identities = 42/143 (29%), Positives = 68/143 (47%), Gaps = 5/143 (3%)
Query: 9 KKIVEIND--YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYN 66
+KI I Y G AG AAD +++ L+ L G + V A ++ +
Sbjct: 32 EKIHYIAPNIYCCG--AGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFR 89
Query: 67 YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
Y+G + +++ G D GP LY + G K ++GSGS+ A VL+ Y ++T+
Sbjct: 90 YQG-HIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTE 148
Query: 127 EEAHQLARKSIYHATYRDFASGG 149
EEA +L ++I + D SG
Sbjct: 149 EEAKKLVCEAIEAGIFNDLGSGS 171
>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 = 69.7 bits (171), Expect = 4e-15
Identities = 42/141 (29%), Positives = 71/141 (50%), Gaps = 19/141 (13%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKLMC 61
S++KI+EI+D++ ++G AD R L R+ E +N E ++V + ++ +
Sbjct: 56 SVEKIMEIDDHIGCAMSGLIADA----RTLIDHARV-EAQNHRFTYNEPMTVESVTQAVS 110
Query: 62 NMAYNYKGTGLSMGMM---------IAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFA 112
++A + M IAG D+ GPQL++ D G + + ++GSGS A
Sbjct: 111 DLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGA 170
Query: 113 FGVLDTGYHWNLTDEEAHQLA 133
L YH ++T EEA +LA
Sbjct: 171 QSSLQEKYHKDMTLEEAEKLA 191
>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 = 66.8 bits (164), Expect = 3e-14
Identities = 43/131 (32%), Positives = 72/131 (54%), Gaps = 3/131 (2%)
Query: 10 KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM-CNMAYNY- 67
KI +++D+ L +G A D + + + K +LY++RNG +S AA+ +A +
Sbjct: 34 KIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLR 93
Query: 68 KGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
T + +++AG+DK GP LYY+D G +K + G G+ F +LD Y ++T
Sbjct: 94 SRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTV 153
Query: 127 EEAHQLARKSI 137
EEA +L +K I
Sbjct: 154 EEALELMKKCI 164
>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 = 65.5 bits (161), Expect = 1e-13
Identities = 47/147 (31%), Positives = 70/147 (47%), Gaps = 13/147 (8%)
Query: 3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASK 58
S++KI +I+D++ +AG AD RVL + R+ Y GE I V K
Sbjct: 52 LDPSSVEKIFKIDDHIGCAVAGLTADA----RVLVNRARVEAQNYRYTYGEPIPVEVLVK 107
Query: 59 LMCNMAYNYKGTGLSM----GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
+ ++A Y G ++IAG+D+ GPQLY D G ++G GS A
Sbjct: 108 RIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAK 167
Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHA 140
L+ Y +LT EEA +LA K++
Sbjct: 168 TFLEKRYKKDLTLEEAIKLALKALKEV 194
>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 = 55.4 bits (134), Expect = 6e-10
Identities = 43/143 (30%), Positives = 71/143 (49%), Gaps = 12/143 (8%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
S++KI +I+D++ +G AD RVL + R+ + L GE I V K +C+
Sbjct: 57 SIEKIYKIDDHVGAATSGLVADA----RVLIDRARVEAQIHRLTYGEPIDVEVLVKKICD 112
Query: 63 MAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
+ Y G + ++IAG D GP+L+ D G + ++GSG L+
Sbjct: 113 LKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEK 172
Query: 119 GYHWNLTDEEAHQLARKSIYHAT 141
Y +++ EEA +LA K++Y A
Sbjct: 173 EYKEDMSLEEAIELALKALYAAL 195
>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 = 53.8 bits (130), Expect = 3e-09
Identities = 42/143 (29%), Positives = 72/143 (50%), Gaps = 12/143 (8%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
S++KI +I+D++ +G AD RVL + R+ L GE I V +K +C+
Sbjct: 58 SIEKIFKIDDHIGAATSGLVADA----RVLIDRARIEAQINRLTYGEPIDVETLAKKICD 113
Query: 63 MAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
+ Y G + ++IAG D GP+L+ D G ++ ++G+G L+
Sbjct: 114 LKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEK 173
Query: 119 GYHWNLTDEEAHQLARKSIYHAT 141
Y +L+ +EA +LA K++Y A
Sbjct: 174 EYREDLSLDEAIELALKALYSAV 196
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 52.1 bits (126), Expect = 1e-08
Identities = 44/145 (30%), Positives = 73/145 (50%), Gaps = 16/145 (11%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
S++KI +I+D++ AG AD RVL + R+ L GE I V +K +C+
Sbjct: 65 SIEKIFKIDDHIGAASAGLVADA----RVLIDRARVEAQINRLTYGEPIGVETLTKKICD 120
Query: 63 M--AY-NYKGT---GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
Y + G G+++ +IAG D GP+L+ D G ++ ++G+G L
Sbjct: 121 HKQQYTQHGGVRPFGVAL--LIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFL 178
Query: 117 DTGYHWNLTDEEAHQLARKSIYHAT 141
+ Y +L+ EEA +LA K++ A
Sbjct: 179 EKNYKEDLSLEEAIELALKALAKAN 203
>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 = 47.4 bits (113), Expect = 6e-07
Identities = 42/158 (26%), Positives = 79/158 (50%), Gaps = 8/158 (5%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
+S ++K+ ++Y +AG A + R+ + YE G +++ + + M
Sbjct: 29 ASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAM 88
Query: 64 AYNYKGT---GLSMGMMIAGWD--KRGPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLD 117
GL++ ++AG+D +++ D G R + + +VGSGSVFA G L
Sbjct: 89 VRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALK 148
Query: 118 TGYHWNLTDEEAHQLARKSIYHATYRDFASGG--LIRG 153
Y +L +++A ++A +++Y A D A+GG L+RG
Sbjct: 149 KLYSPDLDEDDALRVAVEALYDAADDDSATGGPDLVRG 186
>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 = 45.3 bits (108), Expect = 3e-06
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 22/157 (14%)
Query: 8 MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYN- 66
KI ++ D + +G AD + + L + ++Y+ + + +S A ++L+ + Y+
Sbjct: 39 SPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSR 98
Query: 67 -----YKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLD--- 117
Y ++AG D+ G +Y D G + + GS S +LD
Sbjct: 99 RFFPYYVFN------ILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQV 152
Query: 118 TGYHWN------LTDEEAHQLARKSIYHATYRDFASG 148
+ N L+ EEA L + + A RD +G
Sbjct: 153 GRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTG 189
>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 = 43.5 bits (103), Expect = 1e-05
Identities = 41/141 (29%), Positives = 62/141 (43%), Gaps = 13/141 (9%)
Query: 4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN----GERISVAAASKL 59
S S +KI +I+D++ +AG +D +L RL R E I V +
Sbjct: 56 QSFSSEKIYKIDDHIACAVAGITSDA----NILINYARLIAQRYLYSYQEPIPVEQLVQR 111
Query: 60 MCNMAYNYKGTG----LSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
+C++ Y G + + AGWDK G QLY D G ++G+ + A
Sbjct: 112 LCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQS 171
Query: 115 VLDTGYHWNLTDEEAHQLARK 135
+L Y ++T EEA LA K
Sbjct: 172 LLKQDYKDDMTLEEALALAVK 192
>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 = 42.7 bits (101), Expect = 3e-05
Identities = 40/135 (29%), Positives = 59/135 (43%), Gaps = 20/135 (14%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR----LYELRNGERIS----VAAASK 58
S+ K+ +I ++ +G D RVL K+ R Y L GE I V +
Sbjct: 56 SVHKVEQITPHIGMVYSGMGPDF----RVLVKKARKIAQQYYLVYGEPIPVSQLVREIAS 111
Query: 59 LMCNMAYNYKGT----GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
+M Y G G+S+ +IAGWD+ GP LY VD G ++G A
Sbjct: 112 VM--QEYTQSGGVRPFGVSL--LIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKT 167
Query: 115 VLDTGYHWNLTDEEA 129
L+ Y+ +L E+A
Sbjct: 168 FLEKRYNEDLELEDA 182
>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 = 42.2 bits (100), Expect = 3e-05
Identities = 36/146 (24%), Positives = 63/146 (43%), Gaps = 2/146 (1%)
Query: 5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
S +K+ I D L LAG A D + L + LY LR I S L+ ++
Sbjct: 31 STDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLL 90
Query: 65 YNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDG-QRIKGNVFSVGSGSVFAFGVLDTGYHW 122
Y + + ++AG D G P + +D G I + G+ S +G+ ++ +
Sbjct: 91 YEKRFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRP 150
Query: 123 NLTDEEAHQLARKSIYHATYRDFASG 148
++ +E + +++ A RD SG
Sbjct: 151 DMEPDELFETISQALLSAVDRDALSG 176
>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 = 39.5 bits (93), Expect = 3e-04
Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 13/99 (13%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
++ + I D + + G AD R ++ R ++ + G + V +K + +
Sbjct: 58 TVTHLFRITDEIGCVMTGMIADS----RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIAD 113
Query: 63 MA--YNYKGTGLSMG--MMIAGWD-KRGPQLYYVDSDGQ 96
+ Y +G M++ G D + GPQLY D G
Sbjct: 114 INQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGY 152
>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 = 39.6 bits (93), Expect = 3e-04
Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 22/121 (18%)
Query: 2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAK----QCRLYELRNGERISVAAAS 57
S S KKI +++D++ +AG AD RVL++ +C Y I V S
Sbjct: 49 SELSSYQKKIFKVDDHIGIAIAGLTADA----RVLSRYMRQECLNYRFVYDSPIPV---S 101
Query: 58 KLMCNMA---------YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSG 108
+L+ +A Y + G+ G++IAG+D+ GP L+ G + S+G+
Sbjct: 102 RLVSKVAEKAQINTQRYGRRPYGV--GLLIAGYDESGPHLFQTCPSGNYFEYKATSIGAR 159
Query: 109 S 109
S
Sbjct: 160 S 160
>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 = 36.6 bits (85), Expect = 0.003
Identities = 33/140 (23%), Positives = 63/140 (45%), Gaps = 13/140 (9%)
Query: 7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
+++KI ++D++ AG AD RVL + RL + L + ++V ++ +
Sbjct: 56 TVRKICMLDDHVCLAFAGLTADA----RVLINRARLECQSHRLTVEDPVTVEYITRYIAG 111
Query: 63 MAYNYKGTG----LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLD 117
+ Y +G + +I G+D G P+LY D G ++G S L+
Sbjct: 112 LQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLE 171
Query: 118 TGYHWNLTDEEAHQLARKSI 137
Y +T ++ +LA K++
Sbjct: 172 KNYKEEMTRDDTIKLAIKAL 191
>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 = 34.6 bits (80), Expect = 0.016
Identities = 20/64 (31%), Positives = 30/64 (46%)
Query: 75 GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLAR 134
+++ G+D GPQLY ++ G ++G G A L+ LT EA + A
Sbjct: 131 SVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAVKEAA 190
Query: 135 KSIY 138
K IY
Sbjct: 191 KIIY 194
>gnl|CDD|235008 PRK02135, PRK02135, hypothetical protein; Provisional.
Length = 201
Score = 31.8 bits (73), Expect = 0.12
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 16/65 (24%)
Query: 85 GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKS-------- 136
G LYY+ DG+ I+ F VF VL G H T+EE + L R
Sbjct: 126 GKTLYYLHEDGEDIRDVEF--PENPVF---VL--GDHIGFTEEEENLLKRLGAEKISLGP 178
Query: 137 -IYHA 140
+ HA
Sbjct: 179 KMLHA 183
>gnl|CDD|171815 PRK12911, PRK12911, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 1403
Score = 29.8 bits (67), Expect = 0.80
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 103 FSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ 158
F+VG G V F V DT T +A +L+ +HA + G + G +GQ
Sbjct: 784 FAVGEGYVLNFSVKDTA-----TFSDARELSPTESFHAWTSAYCQEG-VSGTKNGQ 833
>gnl|CDD|241293 cd01262, PH_PDK1, 3-Phosphoinositide dependent protein kinase 1
(PDK1) pleckstrin homology (PH) domain. PDK1 plays an
important role in insulin and growth factor signalling
cascades. It phosphorylates and activates many AGC
(cAMP-dependent, cGMP-dependent, protein kinase C (PKC))
family of protein kinases members, including protein
kinase B (PKB, also known as Akt), p70 ribosomal
S6-kinase (S6K), serum and glucocorticoid responsive
kinase (SGK), p90 ribosomal S6 kinase (RSK), and PKC.
PDK1 contains an N-terminal serine/threonine kinase
domain followed by a PH domain. Following binding of the
PH domain to PtdIns(3,4,5)P3 and PtdIns(3,4)P2, PDK1
activates these enzymes by phosphorylating a Ser/Thr
residue in their activation loop. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 107
Score = 28.3 bits (64), Expect = 0.84
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 85 GPQLYYVDSDGQRIKGNVF 103
GP+LYYVD +KG +
Sbjct: 41 GPRLYYVDPVKMVLKGEIP 59
>gnl|CDD|163710 cd08154, catalase_clade_1, Clade 1 of the heme-binding enzyme
catalase. Catalase is a ubiquitous enzyme found in both
prokaryotes and eukaryotes, which is involved in the
protection of cells from the toxic effects of peroxides.
It catalyzes the conversion of hydrogen peroxide to
water and molecular oxygen. Catalases also utilize
hydrogen peroxide to oxidize various substrates such as
alcohol or phenols. Clade 1 catalases are found in
bacteria, algae, and plants; they have a relatively
small subunit size of 55 to 69 kDa, and bind a protoheme
IX (heme b) group buried deep inside the structure. They
appear to form tetramers. In eukaryotic cells, catalases
are located in peroxisomes.
Length = 469
Score = 28.8 bits (65), Expect = 1.7
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 120 YHW-------NLTDEEAHQLARKSIYHAT 141
YHW NLT EEA ++ K+ HAT
Sbjct: 209 YHWKPKQGVKNLTAEEAAEVQGKNFNHAT 237
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 28.5 bits (64), Expect = 2.0
Identities = 15/54 (27%), Positives = 18/54 (33%), Gaps = 9/54 (16%)
Query: 72 LSMGMMIA---GWDKRGPQLYYVDSDGQRI------KGNVFSVGSGSVFAFGVL 116
L G + WD L +VD G RI G S F+ G L
Sbjct: 20 LDKGATLGEGPVWDPDRGALLWVDILGGRIHRLDPETGKKRVFPSPGGFSSGAL 73
>gnl|CDD|183962 PRK13305, sgbH, 3-keto-L-gulonate-6-phosphate decarboxylase;
Provisional.
Length = 218
Score = 27.9 bits (62), Expect = 2.5
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 11/44 (25%)
Query: 121 HWNLTDEEA-HQLA-RKSIYHATYRDFASGGLIRGNASGQQWNQ 162
+W L D H++ R++IYH RD ASGQQW +
Sbjct: 116 NWTLDDARDWHRIGVRQAIYHRG-RD--------AQASGQQWGE 150
>gnl|CDD|233419 TIGR01450, recC, exodeoxyribonuclease V, gamma subunit. This model
describes the gamma subunit of exodeoxyribonuclease V.
Species containing this protein should also have the
alpha (TIGR01447) and beta (TIGR00609) subunits.
Candidates from Borrelia and from the Chlamydias differ
dramatically and score between trusted and noise cutoffs
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 1067
Score = 27.8 bits (62), Expect = 3.4
Identities = 21/98 (21%), Positives = 30/98 (30%), Gaps = 25/98 (25%)
Query: 78 IAGWDKRGPQLYYVDSDGQ---RIKGNVFSV-GSGSVFAFGVLDTGYHWNLTDEEAHQLA 133
+ K+ PQ +D D Q R+ G + + G V W + QL
Sbjct: 913 VLAHRKQPPQSVEIDLDLQSGIRLSGWLGQLYPDGLVR----------WRYGKLNSPQLL 962
Query: 134 RKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKG 171
R + H ASG F G + G
Sbjct: 963 RAWLEHLIL-----------CASGPPVESVLFCGRKVG 989
>gnl|CDD|237372 PRK13386, fliH, flagellar assembly protein H; Provisional.
Length = 236
Score = 27.3 bits (61), Expect = 3.7
Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 5/36 (13%)
Query: 145 FASG---GLIRGNASGQQWNQGRFLGHQKGPNSGRS 177
G G G+A+G QGR G +G S R
Sbjct: 60 LEEGEEEGRQEGHAAGF--AQGRQKGRIEGRQSIRQ 93
>gnl|CDD|139606 PRK13486, PRK13486, bifunctional enterobactin receptor/adhesin
protein; Provisional.
Length = 696
Score = 27.3 bits (60), Expect = 4.8
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 12/60 (20%)
Query: 90 YVDSDGQ------------RIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSI 137
Y + DGQ R + N S G F FG + +WN T+ + +L R +
Sbjct: 262 YDNRDGQLGSLTGGYDRTLRYERNKISAGYDHTFTFGTWKSYLNWNETENKGRELVRSVL 321
>gnl|CDD|133139 cd05472, cnd41_like, Chloroplast Nucleoids DNA-binding Protease,
catalyzes the degradation of ribulose-1,5-bisphosphate
carboxylase/oxygenase. Chloroplast Nucleoids
DNA-binding Protease catalyzes the degradation of
ribulose-1,5-bisphosphate carboxylase/oxygenase
(Rubisco) in senescent leaves of tobacco. Antisense
tobacco with reduced amount of CND41 maintained green
leaves and constant protein levels, especially Rubisco.
CND41 has DNA-binding as well as aspartic protease
activities. The pepsin-like aspartic protease domain is
located at the C-terminus of the protein. The enzyme is
characterized by having two aspartic protease catalytic
site motifs, the Asp-Thr-Gly-Ser in the N-terminal and
Asp-Ser-Gly-Ser in the C-terminal region. Aspartic
proteases are bilobal enzymes, each lobe contributing a
catalytic Asp residue, with an extended active site
cleft localized between the two lobes of the molecule.
One lobe may be evolved from the other through ancient
gene-duplication event. This family of aspartate
proteases is classified by MEROPS as the peptidase
family A1 (pepsin A, clan AA).
Length = 299
Score = 26.9 bits (60), Expect = 5.7
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL-DTG 119
+ R P YYV G + G + S A GV+ D+G
Sbjct: 141 NPRVPTFYYVGLTGISVGGRRLPIPPASFGAGGVIIDSG 179
>gnl|CDD|222585 pfam14191, YodL, YodL-like. The YodL-like protein family
includes the B. subtilis YodL protein, which is
functionally uncharacterized. This domain family is
found in bacteria, and is approximately 100 amino acids
in length. There are two completely conserved residues
(Y and D) that may be functionally important.
Length = 103
Score = 26.0 bits (58), Expect = 6.0
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 66 NYKGTGLSMGMMIAGWDKRGPQLYYVDSDG 95
+++G LS+ ++ +D YYVDS G
Sbjct: 66 DFRGHSLSVSDVVELYDDGKSTAYYVDSFG 95
>gnl|CDD|223253 COG0175, CysH, 3'-phosphoadenosine 5'-phosphosulfate
sulfotransferase (PAPS reductase)/FAD synthetase and
related enzymes [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 261
Score = 26.2 bits (58), Expect = 8.5
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 116 LDTGYHWNLTDEEAHQLARK 135
LDTGYH+ T E +LA +
Sbjct: 71 LDTGYHFPETYEFRDRLAEE 90
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
0.318 0.134 0.414
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,078,458
Number of extensions: 823904
Number of successful extensions: 733
Number of sequences better than 10.0: 1
Number of HSP's gapped: 706
Number of HSP's successfully gapped: 43
Length of query: 177
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 86
Effective length of database: 6,901,388
Effective search space: 593519368
Effective search space used: 593519368
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 (21.7 bits)
S2: 56 (25.2 bits)