RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9593
(84 letters)
>gnl|CDD|238769 cd01492, Aos1_SUMO, Ubiquitin activating enzyme (E1) subunit
Aos1. Aos1 is part of the heterodimeric activating
enzyme (E1), specific for the SUMO family of
ubiquitin-like proteins (Ubls). E1 enzymes are part of
a conjugation cascade to attach Ub or Ubls, covalently
to substrate proteins consisting of activating (E1),
conjugating (E2), and/or ligating (E3) enzymes. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. The
E1 also associates with E2 and promotes ubiquitin
transfer to the E2's catalytic cysteine.
Post-translational modification by SUMO family of
ubiquitin-like proteins (Ublps) is involved in cell
division, nuclear transport, the stress response and
signal transduction. Aos1 contains part of the
adenylation domain.
Length = 197
Score = 87.3 bits (217), Expect = 3e-23
Identities = 36/61 (59%), Positives = 50/61 (81%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q RLR+ +ILLIG++G+GAEIAKN++LSG+ S+ +LD VT+ED+ AQFL P ED+G+
Sbjct: 16 QKRLRSARILLIGLKGLGAEIAKNLVLSGIGSLTILDDRTVTEEDLG-AQFLIPAEDLGQ 74
Query: 75 N 75
N
Sbjct: 75 N 75
>gnl|CDD|238768 cd01491, Ube1_repeat1, Ubiquitin activating enzyme (E1), repeat
1. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets
them for degradation by the 26S proteasome. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and ubiquitin's
C-terminus. E1 also associates with E2 and promotes
ubiquitin transfer to the E2's catalytic cysteine.
Ubiquitin-E1 is a single-chain protein with a weakly
conserved two-fold repeat. This CD represents the first
repeat of Ub-E1.
Length = 286
Score = 70.4 bits (173), Expect = 3e-16
Identities = 28/60 (46%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 16 SRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKN 75
+L+ + +L+ G+ G+G EIAKN+IL+GVKSV L D+ + D+ ++QF EDIGKN
Sbjct: 15 KKLQKSNVLISGLGGLGVEIAKNLILAGVKSVTLHDTKPCSWSDL-SSQFYLREEDIGKN 73
>gnl|CDD|238762 cd01485, E1-1_like, Ubiquitin activating enzyme (E1), repeat
1-like. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets
them for degradation by the 26S proteasome. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and ubiquitin's
C-terminus. The E1 also associates with E2 and promotes
ubiquitin transfer to the E2's catalytic cysteine. A
set of novel molecules with a structural similarity to
Ub, called Ub-like proteins (Ubls), have similar
conjugation cascades. In contrast to ubiquitin-E1,
which is a single-chain protein with a weakly conserved
two-fold repeat, many of the Ubls-E1are a heterodimer
where each subunit corresponds to one half of a
single-chain E1. This CD represents the family
homologous to the first repeat of Ub-E1.
Length = 198
Score = 60.9 bits (148), Expect = 4e-13
Identities = 25/65 (38%), Positives = 43/65 (66%), Gaps = 1/65 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAP-HEDIG 73
Q++LR+ K+L+IG +GAEIAKN++L+G+ S+ ++D +V+ ED+ + FL + G
Sbjct: 14 QNKLRSAKVLIIGAGALGAEIAKNLVLAGIDSITIVDHRLVSTEDLGSNFFLDAEVSNSG 73
Query: 74 KNGLK 78
N
Sbjct: 74 MNRAA 78
>gnl|CDD|130475 TIGR01408, Ube1, ubiquitin-activating enzyme E1. This model
represents the full length, over a thousand amino
acids, of a multicopy family of eukaryotic proteins,
many of which are designated ubiquitin-activating
enzyme E1. Members have two copies of the ThiF family
domain (pfam00899), a repeat found in
ubiquitin-activating proteins (pfam02134), and other
regions.
Length = 1008
Score = 60.3 bits (146), Expect = 2e-12
Identities = 22/59 (37%), Positives = 39/59 (66%), Gaps = 1/59 (1%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKN 75
++ + +L+ G+ G+G EIAKN++L+GVKSV L D+ D+++ F +D+G+N
Sbjct: 21 KMAKSNVLISGMGGLGLEIAKNLVLAGVKSVTLHDTEKCQAWDLSS-NFFLSEDDVGRN 78
Score = 32.6 bits (74), Expect = 0.014
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 14 YQSRLRATKILLIGVEGVGAEIAKNIILSGVKS-----VCLLDSGVVTKEDVNTAQFLAP 68
+Q +L+ I L+G +G E+ KN L GV + + + D ++ K ++N QFL
Sbjct: 413 FQQKLQNLNIFLVGCGAIGCEMLKNFALMGVGTGKKGMITVTDPDLIEKSNLNR-QFLFR 471
Query: 69 HEDIGK 74
IGK
Sbjct: 472 PHHIGK 477
>gnl|CDD|223552 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 2
[Coenzyme metabolism].
Length = 254
Score = 55.5 bits (134), Expect = 8e-11
Identities = 19/61 (31%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q +L+ +++L++G G+G+ AK + L+GV + ++D V ++ QFL D+GK
Sbjct: 25 QQKLKDSRVLVVGAGGLGSPAAKYLALAGVGKLTIVDFDTVELSNLQR-QFLFTEADVGK 83
Query: 75 N 75
Sbjct: 84 P 84
>gnl|CDD|238770 cd01493, APPBP1_RUB, Ubiquitin activating enzyme (E1) subunit
APPBP1. APPBP1 is part of the heterodimeric activating
enzyme (E1), specific for the Rub family of
ubiquitin-like proteins (Ubls). E1 enzymes are part of
a conjugation cascade to attach Ub or Ubls, covalently
to substrate proteins consisting of activating (E1),
conjugating (E2), and/or ligating (E3) enzymes. E1
activates ubiquitin(-like) by C-terminal adenylation,
and subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. E1
also associates with E2 and promotes ubiquitin transfer
to the E2's catalytic cysteine. Post-translational
modification by Rub family of ubiquitin-like proteins
(Ublps) activates SCF ubiquitin ligases and is involved
in cell cycle control, signaling and embryogenesis.
ABPP1 contains part of the adenylation domain.
Length = 425
Score = 52.7 bits (127), Expect = 8e-10
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q+ L + + L+ G EI KN++L G+ S ++D V +ED+ FL +GK
Sbjct: 15 QAALESAHVCLLNATATGTEILKNLVLPGIGSFTIVDGSKVDEEDLGNNFFLDA-SSLGK 73
Query: 75 N 75
+
Sbjct: 74 S 74
>gnl|CDD|238760 cd01483, E1_enzyme_family, Superfamily of activating enzymes (E1)
of the ubiquitin-like proteins. This family includes
classical ubiquitin-activating enzymes E1,
ubiquitin-like (ubl) activating enzymes and other
mechanistic homologes, like MoeB, Thif1 and others. The
common reaction mechanism catalyzed by MoeB, ThiF and
the E1 enzymes begins with a nucleophilic attack of the
C-terminal carboxylate of MoaD, ThiS and ubiquitin,
respectively, on the alpha-phosphate of an ATP molecule
bound at the active site of the activating enzymes,
leading to the formation of a high-energy acyladenylate
intermediate and subsequently to the formation of a
thiocarboxylate at the C termini of MoaD and ThiS.
Length = 143
Score = 48.8 bits (117), Expect = 6e-09
Identities = 24/54 (44%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKN 75
++LL+G+ G+G+EIA N+ SGV + L+D V ++N QFLA DIGK
Sbjct: 1 RVLLVGLGGLGSEIALNLARSGVGKITLIDFDTVELSNLN-RQFLARQADIGKP 53
>gnl|CDD|140272 PTZ00245, PTZ00245, ubiquitin activating enzyme; Provisional.
Length = 287
Score = 47.4 bits (112), Expect = 8e-08
Identities = 27/64 (42%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q +L T + L GV G AE AKN++L+GV++V + D G+VT DV T +L E G
Sbjct: 21 QQQLMHTSVALHGVAGAAAEAAKNLVLAGVRAVAVADEGLVTDADVCT-NYLMQGEAGGT 79
Query: 75 NGLK 78
G +
Sbjct: 80 RGAR 83
>gnl|CDD|216180 pfam00899, ThiF, ThiF family. This family contains a repeated
domain in ubiquitin activating enzyme E1 and members of
the bacterial ThiF/MoeB/HesA family.
Length = 134
Score = 44.5 bits (106), Expect = 2e-07
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 20 ATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKN 75
++++L++G G+G+ A+ + +GV + L+D V ++N Q L DIGK
Sbjct: 1 SSRVLVVGAGGLGSPAAEYLARAGVGKLTLVDFDTVELSNLNR-QILFTESDIGKP 55
>gnl|CDD|238766 cd01489, Uba2_SUMO, Ubiquitin activating enzyme (E1) subunit
UBA2. UBA2 is part of the heterodimeric activating
enzyme (E1), specific for the SUMO family of
ubiquitin-like proteins (Ubls). E1 enzymes are part of
a conjugation cascade to attach Ub or Ubls, covalently
to substrate proteins consisting of activating (E1),
conjugating (E2), and/or ligating (E3) enzymes. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. The
E1 also associates with E2 and promotes ubiquitin
transfer to the E2's catalytic cysteine.
Post-translational modification by SUMO family of
ubiquitin-like proteins (Ublps) is involved in cell
division, nuclear transport, the stress response and
signal transduction. UBA2 contains both the
nucleotide-binding motif involved in adenylation and
the catalytic cysteine involved in the thioester
intermediate and Ublp transfer to E2.
Length = 312
Score = 43.1 bits (102), Expect = 2e-06
Identities = 17/53 (32%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
K+L++G G+G E+ KN++L+G + ++D + ++N QFL + +GK
Sbjct: 1 KVLVVGAGGIGCELLKNLVLTGFGEIHIIDLDTIDLSNLNR-QFLFRKKHVGK 52
>gnl|CDD|238765 cd01488, Uba3_RUB, Ubiquitin activating enzyme (E1) subunit UBA3.
UBA3 is part of the heterodimeric activating enzyme
(E1), specific for the Rub family of ubiquitin-like
proteins (Ubls). E1 enzymes are part of a conjugation
cascade to attach Ub or Ubls, covalently to substrate
proteins. consisting of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes. E1 activates
ubiquitin(-like) by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. E1
also associates with E2 and promotes ubiquitin transfer
to the E2's catalytic cysteine. Post-translational
modification by Rub family of ubiquitin-like proteins
(Ublps) activates SCF ubiquitin ligases and is involved
in cell cycle control, signaling and embryogenesis.
UBA3 contains both the nucleotide-binding motif
involved in adenylation and the catalytic cysteine
involved in the thioester intermediate and Ublp
transfer to E2.
Length = 291
Score = 42.3 bits (100), Expect = 4e-06
Identities = 22/53 (41%), Positives = 35/53 (66%), Gaps = 1/53 (1%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
KIL+IG G+G E+ KN+ LSG +++ ++D + ++N QFL +DIGK
Sbjct: 1 KILVIGAGGLGCELLKNLALSGFRNIHVIDMDTIDVSNLNR-QFLFREKDIGK 52
>gnl|CDD|238761 cd01484, E1-2_like, Ubiquitin activating enzyme (E1), repeat
2-like. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets
them for degradation by the 26S proteasome. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and ubiquitin's
C-terminus. E1 also associates with E2 and promotes
ubiquitin transfer to the E2's catalytic cysteine. A
set of novel molecules with a structural similarity to
Ub, called Ub-like proteins (Ubls), have similar
conjugation cascades. In contrast to ubiquitin-E1,
which is a single-chain protein with a weakly conserved
two-fold repeat, many of the Ubls-E1are a heterodimer
where each subunit corresponds to one half of a
single-chain E1. This CD represents the family
homologous to the second repeat of Ub-E1.
Length = 234
Score = 41.4 bits (97), Expect = 8e-06
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
K+LL+G G+G E+ KN+ L G + ++D + ++N QFL +DIG+
Sbjct: 1 KVLLVGAGGIGCELLKNLALMGFGQIHVIDMDTIDVSNLNR-QFLFRPKDIGR 52
>gnl|CDD|169382 PRK08328, PRK08328, hypothetical protein; Provisional.
Length = 231
Score = 37.1 bits (86), Expect = 3e-04
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q +L+ K+ ++GV G+G+ +A + +GV + L+D ++N Q L ED+GK
Sbjct: 22 QEKLKKAKVAVVGVGGLGSPVAYYLAAAGVGRILLIDEQTPELSNLNR-QILHWEEDLGK 80
Query: 75 N 75
N
Sbjct: 81 N 81
>gnl|CDD|238386 cd00757, ThiF_MoeB_HesA_family, ThiF_MoeB_HesA. Family of E1-like
enzymes involved in molybdopterin and thiamine
biosynthesis family. The common reaction mechanism
catalyzed by MoeB and ThiF, like other E1 enzymes,
begins with a nucleophilic attack of the C-terminal
carboxylate of MoaD and ThiS, respectively, on the
alpha-phosphate of an ATP molecule bound at the active
site of the activating enzymes, leading to the
formation of a high-energy acyladenylate intermediate
and subsequently to the formation of a thiocarboxylate
at the C termini of MoaD and ThiS. MoeB, as the MPT
synthase (MoaE/MoaD complex) sulfurase, is involved in
the biosynthesis of the molybdenum cofactor, a
derivative of the tricyclic pterin, molybdopterin
(MPT). ThiF catalyzes the adenylation of ThiS, as part
of the biosynthesis pathway of thiamin pyrophosphate
(vitamin B1). .
Length = 228
Score = 35.1 bits (82), Expect = 0.001
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q +L+ ++L++G G+G+ A+ + +GV + L+D VV ++ Q L D+G+
Sbjct: 16 QEKLKNARVLVVGAGGLGSPAAEYLAAAGVGKLGLVDDDVVELSNLQR-QILHTEADVGQ 74
Query: 75 N 75
Sbjct: 75 P 75
>gnl|CDD|238764 cd01487, E1_ThiF_like, E1_ThiF_like. Member of superfamily of
activating enzymes (E1) of the ubiquitin-like proteins.
The common reaction mechanism catalyzed by E1-like
enzymes begins with a nucleophilic attack of the
C-terminal carboxylate of the ubiquitin-like substrate,
on the alpha-phosphate of an ATP molecule bound at the
active site of the activating enzymes, leading to the
formation of a high-energy acyladenylate intermediate
and subsequently to the formation of a thiocarboxylate
at the C termini of the substrate. The exact function
of this family is unknown.
Length = 174
Score = 34.3 bits (79), Expect = 0.002
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
K+ + G G+G+ IA + SGV ++ L+D VV ++N Q+ IG+
Sbjct: 1 KVGIAGAGGLGSNIAVLLARSGVGNLKLVDFDVVEPSNLNRQQYFL--SQIGE 51
>gnl|CDD|236320 PRK08644, PRK08644, thiamine biosynthesis protein ThiF;
Provisional.
Length = 212
Score = 33.7 bits (78), Expect = 0.005
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
+L+ K+ + G G+G+ IA + SGV ++ L+D VV ++N Q+ IG
Sbjct: 25 KLKKAKVGIAGAGGLGSNIAVALARSGVGNLKLVDFDVVEPSNLNRQQYFI--SQIGM 80
>gnl|CDD|238384 cd00755, YgdL_like, Family of activating enzymes (E1) of
ubiquitin-like proteins related to the E.coli
hypothetical protein ygdL. The common reaction
mechanism catalyzed by E1-like enzymes begins with a
nucleophilic attack of the C-terminal carboxylate of
the ubiquitin-like substrate, on the alpha-phosphate of
an ATP molecule bound at the active site of the
activating enzymes, leading to the formation of a
high-energy acyladenylate intermediate and subsequently
to the formation of a thiocarboxylate at the C termini
of the substrate. The exact function of this family is
unknown.
Length = 231
Score = 33.3 bits (77), Expect = 0.005
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
+LR + ++G+ GVG+ A+ + SGV + L+D VV ++N Q A +GK
Sbjct: 8 KLRNAHVAVVGLGGVGSWAAEALARSGVGKLTLIDFDVVCVSNLNR-QIHALLSTVGK 64
>gnl|CDD|162819 TIGR02354, thiF_fam2, thiamine biosynthesis protein ThiF, family
2. Members of the HesA/MoeB/ThiF family of proteins
(pfam00899) include a number of members encoded in the
midst of thiamine biosynthetic operons. This mix of
known and putative ThiF proteins shows a deep split in
phylogenetic trees, with one the E. coli ThiF and the
E. coli MoeB proteins seemingly more closely related
than E. coli ThiF and Campylobacter (for example) ThiF.
This model represents the divergent clade of putative
ThiF proteins such found in Campylobacter [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Thiamine].
Length = 200
Score = 32.5 bits (74), Expect = 0.010
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPH 69
+L + + G+ G+G+ +A N+ +G+ + L+D VV ++N Q+ A
Sbjct: 18 KLEQATVAICGLGGLGSNVAINLARAGIGKLILVDFDVVEPSNLNRQQYKASQ 70
>gnl|CDD|224100 COG1179, COG1179, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 1
[Coenzyme metabolism].
Length = 263
Score = 32.3 bits (74), Expect = 0.012
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKN 75
+L+ + ++G+ GVG+ + + SG+ + L+D V + N Q A DIGK
Sbjct: 27 KLKQAHVCVVGIGGVGSWAVEALARSGIGRITLIDMDDVCVTNTNR-QIHALLGDIGKP 84
>gnl|CDD|162820 TIGR02356, adenyl_thiF, thiazole biosynthesis adenylyltransferase
ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF
family of proteins (pfam00899) include a number of
members encoded in the midst of thiamine biosynthetic
operons. This mix of known and putative ThiF proteins
shows a deep split in phylogenetic trees, with the
Escherichia. coli ThiF and the E. coli MoeB proteins
seemingly more closely related than E. coli ThiF and
Campylobacter (for example) ThiF. This model represents
the more widely distributed clade of ThiF proteins such
found in E. coli [Biosynthesis of cofactors, prosthetic
groups, and carriers, Thiamine].
Length = 202
Score = 31.6 bits (72), Expect = 0.023
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q RL + +L+IG G+G+ A + +GV ++ ++D V ++ Q L ED+G+
Sbjct: 16 QQRLLNSHVLIIGAGGLGSPAALYLAGAGVGTIVIVDDDHVDLSNLQR-QILFTEEDVGR 74
Query: 75 N 75
Sbjct: 75 P 75
>gnl|CDD|131408 TIGR02355, moeB, molybdopterin synthase sulfurylase MoeB. This
model describes the molybdopterin biosynthesis protein
MoeB in E. coli and related species. The enzyme
covalently modifies the molybdopterin synthase MoaD by
sulfurylation. This enzyme is closely related to ThiF,
a thiamine biosynthesis enzyme that modifies ThiS by an
analogous adenylation. Both MoeB and ThiF belong to the
HesA/MoeB/ThiF family (pfam00899) [Biosynthesis of
cofactors, prosthetic groups, and carriers,
Molybdopterin].
Length = 240
Score = 30.2 bits (68), Expect = 0.088
Identities = 17/60 (28%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q L+A+++L++G+ G+G ++ + +GV ++ LLD V+ ++ Q L +IG+
Sbjct: 19 QEALKASRVLIVGLGGLGCAASQYLAAAGVGNLTLLDFDTVSLSNLQR-QVLHSDANIGQ 77
>gnl|CDD|233388 TIGR01381, E1_like_apg7, E1-like protein-activating enzyme
Gsa7p/Apg7p. This model represents a family of
eukaryotic proteins found in animals, plants, and
yeasts, including Apg7p (YHR171W) from Saccharomyces
cerevisiae and GSA7 from Pichia pastoris. Members are
about 650 to 700 residues in length and include a
central domain of about 150 residues shared with the
ThiF/MoeB/HesA family of proteins. A low level of
similarity to ubiquitin-activating enzyme E1 is
described in a paper on peroxisome autophagy mediated by
GSA7, and is the basis of the name ubiquitin activating
enzyme E1-like protein. Members of the family appear to
be involved in protein lipidation events analogous to
ubiquitination and required for membrane fusion events
during autophagy.
Length = 664
Score = 29.1 bits (65), Expect = 0.20
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVT 56
R K+LL+G +G +A+ +I GV+ + +D+G V+
Sbjct: 335 RYSQLKVLLLGAGTLGCNVARCLIGWGVRHITFVDNGKVS 374
>gnl|CDD|236337 PRK08762, PRK08762, molybdopterin biosynthesis protein MoeB;
Validated.
Length = 376
Score = 28.8 bits (65), Expect = 0.22
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVV 55
Q RL ++LLIG G+G+ A + +GV ++ ++D VV
Sbjct: 130 QRRLLEARVLLIGAGGLGSPAALYLAAAGVGTLGIVDHDVV 170
>gnl|CDD|238767 cd01490, Ube1_repeat2, Ubiquitin activating enzyme (E1), repeat
2. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets
them for degradation by the 26S proteasome. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and ubiquitin's
C-terminus. E1 also associates with E2 and promotes
ubiquitin transfer to the E2's catalytic cysteine.
Ubiquitin-E1 is a single-chain protein with a weakly
conserved two-fold repeat. This CD represents the
second repeat of Ub-E1.
Length = 435
Score = 28.8 bits (65), Expect = 0.23
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 6/58 (10%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKS-----VCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
K+ L+G +G E+ KN L GV + + + D + K ++N QFL D+GK
Sbjct: 1 KVFLVGAGAIGCELLKNFALMGVGTGESGEITVTDMDNIEKSNLNR-QFLFRPHDVGK 57
>gnl|CDD|235528 PRK05600, PRK05600, thiamine biosynthesis protein ThiF;
Validated.
Length = 370
Score = 29.1 bits (65), Expect = 0.23
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q RL ++L+IG G+G +++ +GV ++ L+D V +++ Q L D+G+
Sbjct: 36 QERLHNARVLVIGAGGLGCPAMQSLASAGVGTITLIDDDTVDVSNIHR-QILFGASDVGR 94
>gnl|CDD|180204 PRK05690, PRK05690, molybdopterin biosynthesis protein MoeB;
Provisional.
Length = 245
Score = 27.9 bits (63), Expect = 0.44
Identities = 12/41 (29%), Positives = 27/41 (65%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVV 55
Q +L+A ++L++G+ G+G ++ + +GV ++ L+D V
Sbjct: 27 QEKLKAARVLVVGLGGLGCAASQYLAAAGVGTLTLVDFDTV 67
>gnl|CDD|238763 cd01486, Apg7, Apg7 is an E1-like protein, that activates two
different ubiquitin-like proteins, Apg12 and Apg8, and
assigns them to specific E2 enzymes, Apg10 and Apg3,
respectively. This leads to the covalent conjugation of
Apg8 with phosphatidylethanolamine, an important step
in autophagy. Autophagy is a dynamic membrane
phenomenon for bulk protein degradation in the
lysosome/vacuole.
Length = 307
Score = 27.7 bits (62), Expect = 0.65
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVV 55
K LL+G +G +A+N++ GV+ + +DSG V
Sbjct: 1 KCLLLGAGTLGCNVARNLLGWGVRHITFVDSGKV 34
>gnl|CDD|180967 PRK07411, PRK07411, hypothetical protein; Validated.
Length = 390
Score = 27.4 bits (61), Expect = 0.88
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 11 ILPY-----QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVV 55
ILP Q RL+A +L IG G+G+ + + +G+ + ++D VV
Sbjct: 24 ILPEVGLEGQKRLKAASVLCIGTGGLGSPLLLYLAAAGIGRIGIVDFDVV 73
>gnl|CDD|205097 pfam12836, HHH_3, Helix-hairpin-helix motif. The HhH domain is a
short DNA-binding domain.
Length = 65
Score = 25.9 bits (58), Expect = 0.93
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 20 ATKILLIGVEGVGAEIAKNII 40
A+ LL V G+G ++AKNI+
Sbjct: 11 ASAELLQRVPGIGPKLAKNIV 31
>gnl|CDD|181084 PRK07688, PRK07688, thiamine/molybdopterin biosynthesis
ThiF/MoeB-like protein; Validated.
Length = 339
Score = 27.3 bits (61), Expect = 0.97
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLD 51
Q +LR +L+IG +G A+ ++ +GV V ++D
Sbjct: 19 QQKLREKHVLIIGAGALGTANAEMLVRAGVGKVTIVD 55
>gnl|CDD|133449 cd05191, NAD_bind_amino_acid_DH, NAD(P) binding domain of amino
acid dehydrogenase-like proteins. Amino acid
dehydrogenase(DH)-like NAD(P)-binding domains are
members of the Rossmann fold superfamily and are found
in glutamate, leucine, and phenylalanine DHs (DHs),
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+
as a cofactor. The NAD(P)-binding Rossmann fold
superfamily includes a wide variety of protein families
including NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 86
Score = 26.2 bits (58), Expect = 1.0
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 17 RLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVT 56
L+ ++++G VG IAK + G K V L D ++
Sbjct: 20 SLKGKTVVVLGAGEVGKGIAKLLADEGGKKVVLCDRDILV 59
>gnl|CDD|235526 PRK05597, PRK05597, molybdopterin biosynthesis protein MoeB;
Validated.
Length = 355
Score = 26.8 bits (59), Expect = 1.2
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVV 55
Q L K+ +IG G+G+ + +GV + ++D V
Sbjct: 23 QQSLFDAKVAVIGAGGLGSPALLYLAGAGVGHITIIDDDTV 63
>gnl|CDD|236137 PRK07956, ligA, NAD-dependent DNA ligase LigA; Validated.
Length = 665
Score = 26.6 bits (60), Expect = 1.5
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 20 ATKILLIGVEGVGAEIAKNII 40
A++ L VEGVG +A++I+
Sbjct: 540 ASEEELAAVEGVGEVVAQSIV 560
>gnl|CDD|223350 COG0272, Lig, NAD-dependent DNA ligase (contains BRCT domain type
II) [DNA replication, recombination, and repair].
Length = 667
Score = 26.4 bits (59), Expect = 1.6
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 18 LRATKILLIGVEGVGAEIAKNII 40
L A++ L + G+G +A++II
Sbjct: 538 LAASEEELASIPGIGEVVARSII 560
>gnl|CDD|181876 PRK09461, ansA, cytoplasmic asparaginase I; Provisional.
Length = 335
Score = 25.7 bits (57), Expect = 2.7
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 26 IGV----EGVGAEIAKNIILSGVKSVCLLDSGV 54
IGV G+ AE+ +N + VK++ L GV
Sbjct: 212 IGVVTIYPGISAEVVRNFLRQPVKALILRSYGV 244
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain. This entry
represents the GTPase domain of the 54 kDa SRP54
component, a GTP-binding protein that interacts with
the signal sequence when it emerges from the ribosome.
SRP54 of the signal recognition particle has a
three-domain structure: an N-terminal helical bundle
domain, a GTPase domain, and the M-domain that binds
the 7s RNA and also binds the signal sequence. The
extreme C-terminal region is glycine-rich and lower in
complexity and poorly conserved between species. The
GTPase domain is evolutionary related to P-loop NTPase
domains found in a variety of other proteins.
Length = 197
Score = 25.4 bits (57), Expect = 2.9
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 21 TKILLIGVEGVG-----AEIAKNIILSGVKSVCL 49
ILL+G GVG A++A + L G K V L
Sbjct: 2 GVILLVGPNGVGKTTTIAKLAARLKLKGGKKVLL 35
>gnl|CDD|181505 PRK08621, PRK08621, galactose-6-phosphate isomerase subunit LacA;
Reviewed.
Length = 142
Score = 25.4 bits (56), Expect = 3.0
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 22 KILLIGVEGVGAEIAKNII 40
+++ +G E VG +AKNII
Sbjct: 100 RMITMGSEIVGDGLAKNII 118
>gnl|CDD|176216 cd08254, hydroxyacyl_CoA_DH, 6-hydroxycyclohex-1-ene-1-carboxyl-CoA
dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase,
and other MDR family members. This group contains
enzymes of the zinc-dependent alcohol dehydrogenase
family, including members (aka MDR) identified as
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase and
N-benzyl-3-pyrrolidinol dehydrogenase.
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase
catalyzes the conversion of
6-Hydroxycyclohex-1-enecarbonyl-CoA and NAD+ to
6-Ketoxycyclohex-1-ene-1-carboxyl-CoA,NADH, and H+. This
group displays the characteristic catalytic and
structural zinc sites of the zinc-dependent alcohol
dehydrogenases. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 338
Score = 25.7 bits (57), Expect = 3.1
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 9/45 (20%)
Query: 4 AIITSSSILPYQSRLRA------TKILLIGVEGVG---AEIAKNI 39
A+ T + + PY + +RA +L+IG+ G+G +IAK +
Sbjct: 144 AVATDAVLTPYHAVVRAGEVKPGETVLVIGLGGLGLNAVQIAKAM 188
>gnl|CDD|184760 PRK14604, ruvA, Holliday junction DNA helicase RuvA; Provisional.
Length = 195
Score = 25.1 bits (55), Expect = 4.3
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 24 LLIGVEGVGAEIAKNIILSG 43
LLIGV GVG + A N++ SG
Sbjct: 74 LLIGVSGVGPKAALNLLSSG 93
>gnl|CDD|183547 PRK12475, PRK12475, thiamine/molybdopterin biosynthesis MoeB-like
protein; Provisional.
Length = 338
Score = 25.1 bits (55), Expect = 4.5
Identities = 9/37 (24%), Positives = 22/37 (59%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLD 51
Q ++R +L++G +GA A+ ++ +G+ + + D
Sbjct: 19 QRKIREKHVLIVGAGALGAANAEALVRAGIGKLTIAD 55
>gnl|CDD|214617 smart00323, RasGAP, GTPase-activator protein for Ras-like GTPases.
All alpha-helical domain that accelerates the GTPase
activity of Ras, thereby "switching" it into an "off"
position. Improved domain limits from structure.
Length = 344
Score = 25.0 bits (55), Expect = 5.7
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 2 FSAIITSSSILPYQSR 17
F AII SS LPY R
Sbjct: 160 FDAIINSSDRLPYGLR 175
>gnl|CDD|223284 COG0206, FtsZ, Cell division GTPase [Cell division and chromosome
partitioning].
Length = 338
Score = 24.9 bits (55), Expect = 6.0
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 21 TKILLIGVEGVGAEIAKNIILSGVKSV 47
+I +IGV G G +I GV+ V
Sbjct: 12 ARIKVIGVGGAGGNAVNRMIEEGVEGV 38
>gnl|CDD|238783 cd01525, RHOD_Kc, Member of the Rhodanese Homology Domain
superfamily. Included in this CD are the rhodanese-like
domains found C-terminal of the serine/threonine protein
kinases catalytic (S_TKc) domain and the Tre-2, BUB2p,
Cdc16p (TBC) domain. The putative active site Cys
residue is not present in this CD.
Length = 105
Score = 24.3 bits (53), Expect = 6.0
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 12 LPYQSRLRATKILLIGVEGV----GAEIAKNIILSGVKSVCLLDSGV 54
LP RL K +I + A A ++ GV VC+LD G+
Sbjct: 54 LPTVPRLENYKGKIIVIVSHSHKHAALFAAFLVKCGVPRVCILDGGI 100
>gnl|CDD|179902 PRK04965, PRK04965, NADH:flavorubredoxin oxidoreductase;
Provisional.
Length = 377
Score = 24.9 bits (55), Expect = 6.1
Identities = 16/51 (31%), Positives = 33/51 (64%), Gaps = 5/51 (9%)
Query: 5 IITSSSILPY---QSRLR-ATKILLIGVEGVGAEIAKNIILSGVKSVCLLD 51
++T +S Y +++LR A ++L++G +G E+A ++ +G K+V L+D
Sbjct: 122 MLTLNSQQEYRAAETQLRDAQRVLVVGGGLIGTELAMDLCRAG-KAVTLVD 171
>gnl|CDD|224827 COG1915, COG1915, Uncharacterized conserved protein [Function
unknown].
Length = 415
Score = 24.7 bits (54), Expect = 6.4
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 2/38 (5%)
Query: 38 NIILSGVKSVCL-LDSGVVTK-EDVNTAQFLAPHEDIG 73
N++ SGVK++C+ ++ VVTK D ++Q + D+G
Sbjct: 356 NLLPSGVKTICVDINPAVVTKLSDRGSSQAVGVVTDVG 393
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 24.6 bits (54), Expect = 7.1
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 22 KILLIGVEGVGAEIAKNIILSGVKSVCLLD 51
KIL+IG GVG+ +A + +G V + D
Sbjct: 3 KILVIGAGGVGSVVAHKLAQNGDGEVTIAD 32
>gnl|CDD|181156 PRK07878, PRK07878, molybdopterin biosynthesis-like protein MoeZ;
Validated.
Length = 392
Score = 24.7 bits (54), Expect = 7.7
Identities = 15/60 (25%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 15 QSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGK 74
Q RL+ ++L+IG G+G+ + +GV ++ +++ VV + ++ Q + D+G+
Sbjct: 37 QKRLKNARVLVIGAGGLGSPTLLYLAAAGVGTLGIVEFDVVDESNLQR-QVIHGQSDVGR 95
>gnl|CDD|109681 pfam00633, HHH, Helix-hairpin-helix motif. The
helix-hairpin-helix DNA-binding motif is found to be
duplicated in the central domain of RuvA. The HhH
domain of DisA, a bacterial checkpoint control protein,
is a DNA-binding domain.
Length = 30
Score = 22.7 bits (50), Expect = 7.8
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 14 YQSRLRATKILLIGVEGVGAEIAKNII 40
+ + A++ L+ + GVG + A+ I+
Sbjct: 2 LEGLIPASREELLALPGVGPKTAEAIL 28
>gnl|CDD|178212 PLN02602, PLN02602, lactate dehydrogenase.
Length = 350
Score = 24.3 bits (53), Expect = 8.8
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 1 MFSAIITSSSILPYQSRLRATKILLIGVEGVGAEIAKNII 40
F I SS P R TK+ ++GV VG IA+ I+
Sbjct: 21 FFKPIHNSSPPSP---TRRHTKVSVVGVGNVGMAIAQTIL 57
>gnl|CDD|205093 pfam12826, HHH_2, Helix-hairpin-helix motif. The HhH domain of
DisA, a bacterial checkpoint control protein, is a
DNA-binding domain.
Length = 64
Score = 23.6 bits (52), Expect = 8.9
Identities = 4/16 (25%), Positives = 12/16 (75%)
Query: 25 LIGVEGVGAEIAKNII 40
L+ ++ +G +A++I+
Sbjct: 37 LLEIDDIGPIVAQSIV 52
>gnl|CDD|224487 COG1571, COG1571, Predicted DNA-binding protein containing a
Zn-ribbon domain [General function prediction only].
Length = 421
Score = 24.2 bits (53), Expect = 9.8
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 13 PYQSRLRATKILLIGVEGVGAEIAKNIILSGVKSVCLLDS 52
PY++R A +LL+ A + GV+ + L DS
Sbjct: 50 PYKTRGNAAVLLLVARRRGDANDIFYLAREGVEKLALKDS 89
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.135 0.370
Gapped
Lambda K H
0.267 0.0889 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,061,074
Number of extensions: 317805
Number of successful extensions: 369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 364
Number of HSP's successfully gapped: 60
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (23.9 bits)