RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9587
(236 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 = 123 bits (310), Expect = 5e-35
Identities = 50/103 (48%), Positives = 73/103 (70%), Gaps = 1/103 (0%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+GAEIAKN++LSG+ S+ +LD VT+ED+ AQFL P ED+G+NRA++S R + LNP
Sbjct: 32 LGAEIAKNLVLSGIGSLTILDDRTVTEEDLG-AQFLIPAEDLGQNRAEASLERLRALNPR 90
Query: 187 VEVTSNETKVDEISEEFVHGFDVVIATSCNPNQLIKIDDFCRS 229
V+V+ + + E EEF FDVV+AT + +L+KI++ CR
Sbjct: 91 VKVSVDTDDISEKPEEFFSQFDVVVATELSRAELVKINELCRK 133
Score = 27.6 bits (62), Expect = 4.4
Identities = 8/10 (80%), Positives = 8/10 (80%)
Query: 20 AELYDRQIRL 29
LYDRQIRL
Sbjct: 1 IALYDRQIRL 10
>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 = 104 bits (262), Expect = 5e-27
Identities = 44/104 (42%), Positives = 65/104 (62%), Gaps = 4/104 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G EIAKN+IL+GVKSV L D+ + D+ ++QF EDIGKNRA++S+AR LNP
Sbjct: 30 LGVEIAKNLILAGVKSVTLHDTKPCSWSDL-SSQFYLREEDIGKNRAEASQARLAELNPY 88
Query: 187 VEVTSNETKVDEISEEFVHGFDVVIATSCNPNQLIKIDDFCRSK 230
V VT + ++ + + F VV+ T + +KI++FC S
Sbjct: 89 VPVTVST---GPLTTDELLKFQVVVLTDASLEDQLKINEFCHSP 129
>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 = 90.9 bits (226), Expect = 1e-22
Identities = 41/109 (37%), Positives = 64/109 (58%), Gaps = 4/109 (3%)
Query: 124 LTRVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAP-HEDIGKNRAKSSEARAQN 182
+GAEIAKN++L+G+ S+ ++D +V+ ED+ + FL + G NRA +S Q
Sbjct: 27 AGALGAEIAKNLVLAGIDSITIVDHRLVSTEDLGSNFFLDAEVSNSGMNRAAASYEFLQE 86
Query: 183 LNPNVEVTSNETKV---DEISEEFVHGFDVVIATSCNPNQLIKIDDFCR 228
LNPNV+++ E D EE++ F +VIAT N + K++D CR
Sbjct: 87 LNPNVKLSIVEEDSLSNDSNIEEYLQKFTLVIATEENYERTAKVNDVCR 135
>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 = 86.1 bits (213), Expect = 2e-19
Identities = 38/104 (36%), Positives = 58/104 (55%), Gaps = 6/104 (5%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G EIAKN++L+GVKSV L D+ D+++ F +D+G+NRA++ + LNP
Sbjct: 35 LGLEIAKNLVLAGVKSVTLHDTEKCQAWDLSS-NFFLSEDDVGRNRAEAVVKKLAELNPY 93
Query: 187 VEVTSNETKVDEIS-EEFVHGFDVVIATSCNPNQLIKIDDFCRS 229
V V+S EEF+ F V+ T + +I+DFC S
Sbjct: 94 VHVSS----SSVPFNEEFLDKFQCVVLTEMSLPLQKEINDFCHS 133
Score = 39.1 bits (91), Expect = 0.001
Identities = 32/126 (25%), Positives = 58/126 (46%), Gaps = 14/126 (11%)
Query: 112 QSYKIYVYSTGPLTRVGAEIAKNIILSGVKS-----VCLLDSGVVTKEDVNTAQFLAPHE 166
Q+ I++ G + G E+ KN L GV + + + D ++ K ++N QFL
Sbjct: 418 QNLNIFLVGCGAI---GCEMLKNFALMGVGTGKKGMITVTDPDLIEKSNLNR-QFLFRPH 473
Query: 167 DIGKNRAKSSEARAQNLNPNVEVTSNETKVDEISE-----EFVHGFDVVIATSCNPNQLI 221
IGK ++ ++ +NP +++ +++ +V +E EF DVVI N
Sbjct: 474 HIGKPKSYTAADATLKINPQIKIDAHQNRVGPETETIFNDEFYEKLDVVINALDNVEARR 533
Query: 222 KIDDFC 227
+D C
Sbjct: 534 YVDSRC 539
>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 = 76.5 bits (189), Expect = 1e-17
Identities = 38/114 (33%), Positives = 60/114 (52%), Gaps = 3/114 (2%)
Query: 124 LTRVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNL 183
L +G+EIA N+ SGV + L+D V ++N QFLA DIGK +A+ + R L
Sbjct: 7 LGGLGSEIALNLARSGVGKITLIDFDTVELSNLN-RQFLARQADIGKPKAEVAARRLNEL 65
Query: 184 NPNVEVTSNETKVDEIS-EEFVHGFDVVIATSCNPNQLIKIDDFCRSKSKISLF 236
NP V VT+ + E + ++F+ G D+VI N ++ C+ + I +
Sbjct: 66 NPGVNVTAVPEGISEDNLDDFLDGVDLVIDAIDNIAVRRALNRACK-ELGIPVI 118
>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 = 77.3 bits (191), Expect = 2e-16
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 6/111 (5%)
Query: 125 TRVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLN 184
T G EI KN++L G+ S ++D V +ED+ FL +GK+RA+++ Q LN
Sbjct: 29 TATGTEILKNLVLPGIGSFTIVDGSKVDEEDLGNNFFLDA-SSLGKSRAEATCELLQELN 87
Query: 185 PNVE----VTSNETKVDEISEEFVHGFDVVIATSCNPNQLIKIDDFCRSKS 231
P+V S E +D F F VVIAT+ + L+++ D S +
Sbjct: 88 PDVNGSAVEESPEALLDN-DPSFFSQFTVVIATNLPESTLLRLADVLWSAN 137
>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 = 68.0 bits (167), Expect = 1e-14
Identities = 29/107 (27%), Positives = 55/107 (51%), Gaps = 2/107 (1%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G+ A+ + +GV + L+D V ++N Q L DIGK +A+ ++ R + +NP+
Sbjct: 12 LGSPAAEYLARAGVGKLTLVDFDTVELSNLNR-QILFTESDIGKPKAEVAKERLRAINPD 70
Query: 187 VEVTSNETKVDEIS-EEFVHGFDVVIATSCNPNQLIKIDDFCRSKSK 232
VEV + ++ + EE + G D+V+ N ++D C +
Sbjct: 71 VEVEAYPERLTPENLEELLKGVDLVVDALDNFAARYLLNDACVKRGI 117
>gnl|CDD|223552 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 2
[Coenzyme metabolism].
Length = 254
Score = 69.0 bits (169), Expect = 4e-14
Identities = 36/111 (32%), Positives = 58/111 (52%), Gaps = 3/111 (2%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G+ AK + L+GV + ++D V ++ QFL D+GK +A+ + + LNP
Sbjct: 41 LGSPAAKYLALAGVGKLTIVDFDTVELSNLQR-QFLFTEADVGKPKAEVAAKALRKLNPL 99
Query: 187 VEVTSNETKVDEIS-EEFVHGFDVVIATSCNPNQLIKIDDFCRSKSKISLF 236
VEV + ++DE + EE + FDVV+ + N I+D C K I L
Sbjct: 100 VEVVAYLERLDEENAEELIAQFDVVLDCTDNFETRYLINDACV-KLGIPLV 149
Score = 30.1 bits (68), Expect = 0.86
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 13 MELTEDEAELYDRQIRLTPLPLWNSLKMRQSCT 45
L+++E E Y RQI L + K++ S
Sbjct: 1 SMLSDEEIERYSRQILLPGIGGEGQQKLKDSRV 33
>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 = 51.2 bits (123), Expect = 9e-08
Identities = 32/98 (32%), Positives = 53/98 (54%), Gaps = 4/98 (4%)
Query: 115 KIYVYSTGPLTRVGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAK 174
KI V G L G E+ KN+ LSG +++ ++D + ++N QFL +DIGK +A+
Sbjct: 1 KILVIGAGGL---GCELLKNLALSGFRNIHVIDMDTIDVSNLNR-QFLFREKDIGKPKAE 56
Query: 175 SSEARAQNLNPNVEVTSNETKVDEISEEFVHGFDVVIA 212
+ + P V VT + K+ + EEF F+++I
Sbjct: 57 VAAKFVNDRVPGVNVTPHFGKIQDKDEEFYRQFNIIIC 94
>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 = 49.0 bits (118), Expect = 4e-07
Identities = 28/99 (28%), Positives = 53/99 (53%), Gaps = 6/99 (6%)
Query: 138 SGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVD 197
+GV + L+D VV ++ Q L D+G+ +A+++ R + +NP+VE+ + ++D
Sbjct: 43 AGVGKLGLVDDDVVELSNLQR-QILHTEADVGQPKAEAAAERLRAINPDVEIEAYNERLD 101
Query: 198 EIS-EEFVHGFDVVIATSCNPNQLIK--IDDFCRSKSKI 233
+ EE + G+D+V+ C N + I+D C K
Sbjct: 102 AENAEELIAGYDLVL--DCTDNFATRYLINDACVKLGKP 138
>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 = 49.1 bits (117), Expect = 4e-07
Identities = 22/88 (25%), Positives = 44/88 (50%), Gaps = 4/88 (4%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G E+ KN+ L G + ++D + ++N QFL +DIG+ +++ + + NPN
Sbjct: 10 IGCELLKNLALMGFGQIHVIDMDTIDVSNLNR-QFLFRPKDIGRPKSEVAAEAVNDRNPN 68
Query: 187 VEVTSNETKVDEIS---EEFVHGFDVVI 211
+V + KV + F F +++
Sbjct: 69 CKVVPYQNKVGPEQDFNDTFFEQFHIIV 96
>gnl|CDD|140272 PTZ00245, PTZ00245, ubiquitin activating enzyme; Provisional.
Length = 287
Score = 48.9 bits (116), Expect = 6e-07
Identities = 28/73 (38%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 128 GAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNV 187
AE AKN++L+GV++V + D G+VT DV T + + G R + Q LNP+V
Sbjct: 38 AAEAAKNLVLAGVRAVAVADEGLVTDADVCTNYLM--QGEAGGTRGARALGALQRLNPHV 95
Query: 188 EVTSNETKVDEIS 200
V TK+D S
Sbjct: 96 SVYDAVTKLDGSS 108
>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 = 48.1 bits (115), Expect = 1e-06
Identities = 23/86 (26%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G E+ KN++L+G + ++D + ++N QFL + +GK++A+ ++ + NPN
Sbjct: 10 IGCELLKNLVLTGFGEIHIIDLDTIDLSNLNR-QFLFRKKHVGKSKAQVAKEAVLSFNPN 68
Query: 187 VEVTSNETKV--DEISEEFVHGFDVV 210
V++ + + + + EF FD+V
Sbjct: 69 VKIVAYHANIKDPDFNVEFFKQFDLV 94
>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 = 45.0 bits (107), Expect = 2e-05
Identities = 29/111 (26%), Positives = 55/111 (49%), Gaps = 11/111 (9%)
Query: 127 VGAEIAKNIILSGVKS-----VCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQ 181
+G E+ KN L GV + + + D + K ++N QFL D+GK +++ + A +
Sbjct: 10 IGCELLKNFALMGVGTGESGEITVTDMDNIEKSNLNR-QFLFRPHDVGKPKSEVAAAAVK 68
Query: 182 NLNPNVEVTSNETKVDEISE-----EFVHGFDVVIATSCNPNQLIKIDDFC 227
+NP++++T+ + +V +E EF D V N + + +D C
Sbjct: 69 AMNPDLKITALQNRVGPETEHIFNDEFWEKLDGVANALDNVDARMYVDRRC 119
>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 = 42.0 bits (99), Expect = 6e-05
Identities = 27/88 (30%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 128 GAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNL---N 184
G+ IA + SGV ++ L+D VV ++N Q+ IG+ EA +NL N
Sbjct: 11 GSNIAVLLARSGVGNLKLVDFDVVEPSNLNRQQYFL--SQIGE---PKVEALKENLREIN 65
Query: 185 PNVEVTSNETKVDEIS-EEFVHGFDVVI 211
P V++ + K+DE + E D+V+
Sbjct: 66 PFVKIEAINIKIDENNLEGLFGDCDIVV 93
>gnl|CDD|236320 PRK08644, PRK08644, thiamine biosynthesis protein ThiF;
Provisional.
Length = 212
Score = 40.2 bits (95), Expect = 3e-04
Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 9/88 (10%)
Query: 128 GAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNL---N 184
G+ IA + SGV ++ L+D VV ++N Q+ IG EA +NL N
Sbjct: 40 GSNIAVALARSGVGNLKLVDFDVVEPSNLNRQQYFI--SQIGM---PKVEALKENLLEIN 94
Query: 185 PNVEVTSNETKVDEIS-EEFVHGFDVVI 211
P VE+ ++ K+DE + EE D+V+
Sbjct: 95 PFVEIEAHNEKIDEDNIEELFKDCDIVV 122
>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 = 39.9 bits (93), Expect = 4e-04
Identities = 21/92 (22%), Positives = 47/92 (51%), Gaps = 3/92 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
+G+ +A N+ +G+ + L+D VV ++N Q+ A +G+ + ++ + +NP
Sbjct: 32 LGSNVAINLARAGIGKLILVDFDVVEPSNLNRQQYKASQ--VGEPKTEALKENISEINPY 89
Query: 187 VEVTSNETKVDEIS-EEFVHGFDVVIATSCNP 217
E+ + + K+ E + ++F D+V N
Sbjct: 90 TEIEAYDEKITEENIDKFFKDADIVCEAFDNA 121
>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 = 39.3 bits (92), Expect = 7e-04
Identities = 26/103 (25%), Positives = 53/103 (51%), Gaps = 6/103 (5%)
Query: 128 GAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNV 187
G+ A + +GV ++ ++D V ++ Q L ED+G+ + + + R + LN ++
Sbjct: 33 GSPAALYLAGAGVGTIVIVDDDHVDLSNLQR-QILFTEEDVGRPKVEVAAQRLRELNSDI 91
Query: 188 EVTSNETKVD-EISEEFVHGFDVVIATSCNPNQLIK--IDDFC 227
+VT+ + +V E E ++ D+V+ C N + I+D C
Sbjct: 92 QVTALKERVTAENLELLINNVDLVL--DCTDNFATRYLINDAC 132
>gnl|CDD|224100 COG1179, COG1179, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 1
[Coenzyme metabolism].
Length = 263
Score = 38.0 bits (89), Expect = 0.002
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
VG+ + + SG+ + L+D V + N Q A DIGK + + + R + +NP
Sbjct: 41 VGSWAVEALARSGIGRITLIDMDDVCVTNTNR-QIHALLGDIGKPKVEVMKERIKQINPE 99
Query: 187 VEVTSNETKVDE--ISEEFVHGFDVVI 211
EVT+ + E + + GFD VI
Sbjct: 100 CEVTAINDFITEENLEDLLSKGFDYVI 126
>gnl|CDD|236337 PRK08762, PRK08762, molybdopterin biosynthesis protein MoeB;
Validated.
Length = 376
Score = 38.1 bits (89), Expect = 0.003
Identities = 21/79 (26%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 139 GVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVDE 198
GV ++ ++D VV + ++ Q L + +G+ + S+ R LNP+V+V + + +V
Sbjct: 158 GVGTLGIVDHDVVDRSNLQR-QILHTEDRVGQPKVDSAAQRLAALNPDVQVEAVQERVTS 216
Query: 199 IS-EEFVHGFDVVIATSCN 216
+ E + DVV+ + N
Sbjct: 217 DNVEALLQDVDVVVDGADN 235
>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 = 36.4 bits (85), Expect = 0.007
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
VG+ A+ + SGV + L+D VV ++N Q A +GK + + R +++NP
Sbjct: 22 VGSWAAEALARSGVGKLTLIDFDVVCVSNLNR-QIHALLSTVGKPKVEVMAERIRDINPE 80
Query: 187 VEVTSNETKV--DEISEEFVHGFDVVI 211
EV + E + D + D V+
Sbjct: 81 CEVDAVEEFLTPDNSEDLLGGDPDFVV 107
>gnl|CDD|221401 pfam12061, DUF3542, Protein of unknown function (DUF3542). This
family of proteins is functionally uncharacterized. This
protein is found in eukaryotes and viruses. Proteins in
this family are typically between 516 to 1283 amino
acids in length. This protein is found associated with
pfam00931.
Length = 403
Score = 35.3 bits (81), Expect = 0.020
Identities = 21/52 (40%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 177 EARAQNLNPNVEVTSNETKVDEISEEFVHGF-DVVIATSCNPNQLIKIDDFC 227
E RA+ P + SN+ +D S EFV F D V+ N N L+KI+D C
Sbjct: 11 EIRAEYSFPKTSLASNKVGID--SPEFVMEFIDTVVQ---NLNVLVKINDPC 57
>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 = 33.2 bits (76), Expect = 0.066
Identities = 21/87 (24%), Positives = 43/87 (49%), Gaps = 5/87 (5%)
Query: 138 SGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVD 197
+GV ++ LLD V+ ++ Q L +IG+ + +S++ +NP++ + K+D
Sbjct: 46 AGVGNLTLLDFDTVSLSNLQR-QVLHSDANIGQPKVESAKDALTQINPHIAINPINAKLD 104
Query: 198 EIS-EEFVHGFDVVIATSCN---PNQL 220
+ + D+V+ + N NQL
Sbjct: 105 DAELAALIAEHDIVVDCTDNVEVRNQL 131
>gnl|CDD|235526 PRK05597, PRK05597, molybdopterin biosynthesis protein MoeB;
Validated.
Length = 355
Score = 32.9 bits (75), Expect = 0.13
Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 138 SGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNVEVT-SNETKV 196
+GV + ++D V +++ Q + +G+ +A+S+ LNP+V+VT S
Sbjct: 50 AGVGHITIIDDDTVDLSNLHR-QVIHSTAGVGQPKAESAREAMLALNPDVKVTVSVRRLT 108
Query: 197 DEISEEFVHGFDVVIATSCN 216
+ + + DV++ S N
Sbjct: 109 WSNALDELRDADVILDGSDN 128
>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 = 32.3 bits (74), Expect = 0.18
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 128 GAEIAKNIILSGVKSVCLLDSGVVTKEDVNTA-QFLAPHEDIGKNRAKSSEA--RAQNLN 184
G +A+N++ GV+ + +DSG V+ N Q L ED + K+ A R + +
Sbjct: 11 GCNVARNLLGWGVRHITFVDSGKVSYS--NPVRQSLFTFEDCKGGKPKAEAAAERLKEIF 68
Query: 185 PNVEVT 190
P+++ T
Sbjct: 69 PSIDAT 74
>gnl|CDD|180204 PRK05690, PRK05690, molybdopterin biosynthesis protein MoeB;
Provisional.
Length = 245
Score = 31.0 bits (71), Expect = 0.44
Identities = 10/47 (21%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 166 EDIGKNRAKSSEARAQNLNPNVEVTSNETKVDEIS-EEFVHGFDVVI 211
IG+ + +S+ A +NP++ + + ++D+ + G D+V+
Sbjct: 81 ATIGQPKVESARAALARINPHIAIETINARLDDDELAALIAGHDLVL 127
>gnl|CDD|185071 PRK15116, PRK15116, sulfur acceptor protein CsdL; Provisional.
Length = 268
Score = 29.8 bits (67), Expect = 1.1
Identities = 23/87 (26%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 127 VGAEIAKNIILSGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPN 186
VG+ A+ + +G+ ++ L+D V + N Q A +++G +A+ R + +NP
Sbjct: 41 VGSWAAEALARTGIGAITLIDMDDVCVTNTNR-QIHALRDNVGLAKAEVMAERIRQINPE 99
Query: 187 VEVT--SNETKVDEISEEFVHGFDVVI 211
VT + D ++E GF VI
Sbjct: 100 CRVTVVDDFITPDNVAEYMSAGFSYVI 126
>gnl|CDD|181302 PRK08223, PRK08223, hypothetical protein; Validated.
Length = 287
Score = 29.3 bits (66), Expect = 1.8
Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 160 QFLAPHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVDEIS-EEFVHGFDV 209
Q A +G+ +A+ +++NP +E+ + + + + + F+ G DV
Sbjct: 70 QAGAMMSTLGRPKAEVLAEMVRDINPELEIRAFPEGIGKENADAFLDGVDV 120
>gnl|CDD|224821 COG1909, COG1909, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 167
Score = 28.4 bits (64), Expect = 2.0
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 178 ARAQNLNPNVEVTSNETKVDEISEEFVHGFDVVIATSCNP 217
L P++ + +TK E ++ F VI NP
Sbjct: 49 LIEVGLIPDLAIVDGKTKRREPVDQNRIVFKRVI-KVRNP 87
>gnl|CDD|181156 PRK07878, PRK07878, molybdopterin biosynthesis-like protein MoeZ;
Validated.
Length = 392
Score = 28.9 bits (65), Expect = 2.2
Identities = 10/31 (32%), Positives = 20/31 (64%)
Query: 167 DIGKNRAKSSEARAQNLNPNVEVTSNETKVD 197
D+G+++A+S+ +NP V V +E ++D
Sbjct: 92 DVGRSKAQSARDSIVEINPLVNVRLHEFRLD 122
>gnl|CDD|215479 PLN02887, PLN02887, hydrolase family protein.
Length = 580
Score = 28.7 bits (64), Expect = 2.8
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 2/45 (4%)
Query: 29 LTPLPLWNSLKMRQSCTTDKFDSGEWNPKRGQNQRQDRRPAVPRT 73
+T + K + + K W RG R+ RR A P
Sbjct: 52 VTSTEFSSFRKGFHAFRSTKPRGRVWAAHRGY--RKIRRRAPPPK 94
>gnl|CDD|235528 PRK05600, PRK05600, thiamine biosynthesis protein ThiF; Validated.
Length = 370
Score = 28.7 bits (64), Expect = 2.9
Identities = 18/78 (23%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 138 SGVKSVCLLDSGVVTKEDVNTAQFLAPHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVD 197
+GV ++ L+D V +++ Q L D+G+ + + + R + + P++ V + ++
Sbjct: 63 AGVGTITLIDDDTVDVSNIHR-QILFGASDVGRPKVEVAAERLKEIQPDIRVNALRERLT 121
Query: 198 -EISEEFVHGFDVVIATS 214
E + E ++G D+V+ S
Sbjct: 122 AENAVELLNGVDLVLDGS 139
>gnl|CDD|213395 cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits with a stoichiometry of 3:3:1:1:1.
Alpha and beta subunit form the globular catalytic
moiety, a hexameric ring of alternating subunits. Gamma,
delta and epsilon subunits form a stalk, connecting F1
to F0, the integral membrane proton translocating
domain. In bacteria, which is lacking a eukaryotic
epsilon subunit homolog, this subunit is called the
epsilon subunit.
Length = 123
Score = 26.7 bits (60), Expect = 5.7
Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 5/50 (10%)
Query: 138 SGVKSVCLLDSGVVTKEDVNTAQFLAPH----EDIGKNRAKSSEARAQNL 183
G + + G + N LA EDI RA+ + RA+
Sbjct: 53 DGEEKYFAVSGGFLEVTP-NRVTILADEAERPEDIDVERAEEALERAEER 101
>gnl|CDD|235332 PRK05031, PRK05031, tRNA (uracil-5-)-methyltransferase; Validated.
Length = 362
Score = 27.5 bits (62), Expect = 6.4
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 197 DEISEEFVHGFDVVIATSCNPNQL 220
D+ + + V ++ ++ SCNP L
Sbjct: 302 DDETLKLVQAYERILYISCNPETL 325
>gnl|CDD|176204 cd08242, MDR_like, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family, including threonine dehydrogenase.
The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 27.2 bits (61), Expect = 7.2
Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 13/67 (19%)
Query: 158 TAQFLAPHED----IGKNRAKSSEARAQNLNPNVEVTSNETKVDEISEEFVHGFDVVIAT 213
AQ LA +G++ K + AR + ET + + +E GFDVV+
Sbjct: 171 IAQVLALTGPDVVLVGRHSEKLALARRLGV---------ETVLPDEAESEGGGFDVVVEA 221
Query: 214 SCNPNQL 220
+ +P+ L
Sbjct: 222 TGSPSGL 228
>gnl|CDD|223639 COG0565, LasT, rRNA methylase [Translation, ribosomal structure and
biogenesis].
Length = 242
Score = 27.2 bits (61), Expect = 7.4
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 201 EEFVHGFDVVIATSCNP 217
EE + D+V+AT+
Sbjct: 67 EEALADCDLVVATTARS 83
>gnl|CDD|227742 COG5455, COG5455, Predicted integral membrane protein [Function
unknown].
Length = 129
Score = 26.3 bits (58), Expect = 8.6
Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 7/55 (12%)
Query: 50 DSGEWNPKRGQNQRQDRRPAVPRT---NLIYKKKVCP---RWELNPR-PSAYRAH 97
D P+ ++ +DR PRT K V RW+ R P YR H
Sbjct: 30 DIKRKMPQGARHLDRDRAWDRPRTVERRSYELKSVIAKFNRWKRGDRLPPMYRRH 84
>gnl|CDD|227948 COG5661, COG5661, Predicted secreted Zn-dependent protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 210
Score = 26.7 bits (59), Expect = 9.0
Identities = 10/44 (22%), Positives = 21/44 (47%)
Query: 165 HEDIGKNRAKSSEARAQNLNPNVEVTSNETKVDEISEEFVHGFD 208
H +I + A+ E +L P + S + K E++++ + D
Sbjct: 132 HAEIARYHAREMEKALLSLRPRPDCESLQAKAAEVTQQVMERHD 175
>gnl|CDD|182342 PRK10261, PRK10261, glutathione transporter ATP-binding protein;
Provisional.
Length = 623
Score = 27.1 bits (60), Expect = 9.6
Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 10/48 (20%)
Query: 164 PHEDIGKNRAKSSEARAQNLNPNVEVTSNETKVDEISEEFVHGFDVVI 211
PHE G R + ARA LNP V I++E V DV I
Sbjct: 461 PHEFSGGQRQRICIARALALNPKV----------IIADEAVSALDVSI 498
>gnl|CDD|222410 pfam13839, PC-Esterase, GDSL/SGNH-like Acyl-Esterase family found
in Pmr5 and Cas1p. The PC-Esterase family is comprised
of Cas1p, the Homo sapiens C7orf58, Arabidopsis thaliana
PMR5 and a group of plant freezing
resistance/coldacclimatization proteins typified by
Arabidopsis thaliana ESKIMO1, animal FAM55D proteins,
and animal FAM113 proteins. The PC-Esterase family has
features that are both similar and different from the
canonical GDSL/SGNH superfamily. The members of this
family are predicted to have Acyl esterase activity and
predicted to modify cell-surface biopolymers such as
glycans and glycoproteins. The Cas1p protein has a
Cas1_AcylT domain, in addition, with the opposing
acyltransferase activity. The C7orf58 family has a
ATP-Grasp domain fused to the PC-Esterase and is the
first identified secreted tubulin-tyrosine ligase like
enzyme in eukaryotes. The plant family with PMR5, ESK1,
TBL3 etc have a N-terminal C rich potential sugar
binding domain followed by the PC-Esterase domain.
Length = 270
Score = 27.0 bits (60), Expect = 10.0
Identities = 23/103 (22%), Positives = 35/103 (33%), Gaps = 26/103 (25%)
Query: 127 VGAEIAKNIILSGVKS-VCLLDSGVVTKEDVNTAQFLAPHEDIGKN---RAKSSEARAQ- 181
VG +++N +S VCLL K E G+ R K +
Sbjct: 21 VGDSLSRNQ----WESLVCLLSQVEPPKGKT--------LERDGRLFRFRFKDYNVTIEF 68
Query: 182 ------NLNPNVEVTSNETKVDEISEEFV---HGFDVVIATSC 215
+ N E K+D I E++ G DV++ S
Sbjct: 69 YWSPFLVESDNAEEGKRVLKLDSIDEKWSKLWPGADVLVFNSG 111
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
0.314 0.129 0.383
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,362,988
Number of extensions: 1000077
Number of successful extensions: 663
Number of sequences better than 10.0: 1
Number of HSP's gapped: 642
Number of HSP's successfully gapped: 47
Length of query: 236
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 142
Effective length of database: 6,768,326
Effective search space: 961102292
Effective search space used: 961102292
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: 42 (22.0 bits)
S2: 57 (25.8 bits)