RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy271
(191 letters)
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 170 bits (434), Expect = 5e-51
Identities = 56/89 (62%), Positives = 67/89 (75%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
+ALNLE DNVG V+ G+ IKEGD VKRTG I++VPVGE LLGRVV+ LG IDGKGP+
Sbjct: 62 IALNLEEDNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLGQPIDGKGPI 121
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGI 89
+ T V KAPG+I R SV EP+Q+GI
Sbjct: 122 EATETRPVERKAPGVIDRKSVHEPLQTGI 150
Score = 62.8 bits (154), Expect = 6e-12
Identities = 21/37 (56%), Positives = 25/37 (67%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 190
LG IDGKGP++ T V KAPG+I R SV EP+Q
Sbjct: 111 LGQPIDGKGPIEATETRPVERKAPGVIDRKSVHEPLQ 147
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 149 bits (379), Expect = 5e-43
Identities = 58/89 (65%), Positives = 69/89 (77%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
MALNLE D+VG V+ G+ IKEGD VKRTG I++VPVGE+LLGRVVDALGN IDGKGP+
Sbjct: 62 MALNLEEDSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGPI 121
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGI 89
T V KAPG++ R SV EP+Q+GI
Sbjct: 122 DATKTRPVEKKAPGVMDRKSVNEPLQTGI 150
Score = 54.9 bits (133), Expect = 3e-09
Identities = 21/37 (56%), Positives = 25/37 (67%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 190
LGN IDGKGP+ T V KAPG++ R SV EP+Q
Sbjct: 111 LGNPIDGKGPIDATKTRPVEKKAPGVMDRKSVNEPLQ 147
>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha
subunit. The sequences of ATP synthase F1 alpha and
beta subunits are related and both contain a
nucleotide-binding site for ATP and ADP. They have a
common amino terminal domain but vary at the C-terminus.
The beta chain has catalytic activity, while the alpha
chain is a regulatory subunit. The alpha-subunit
contains a highly conserved adenine-specific
noncatalytic nucleotide-binding domain. The conserved
amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton
translocating ATP synthase F1, alpha subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), B subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 501
Score = 131 bits (332), Expect = 2e-36
Identities = 51/89 (57%), Positives = 65/89 (73%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
+ALNLE D+VG V+ G+ I+EG VKRTG I++VPVG+ LLGRVV+ALG IDGKGP+
Sbjct: 61 IALNLEEDSVGAVIMGDYSDIREGSTVKRTGRILEVPVGDGLLGRVVNALGEPIDGKGPI 120
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGI 89
+ V APG+I R SV EP+Q+GI
Sbjct: 121 DSDEFSPVEKIAPGVIERKSVHEPLQTGI 149
Score = 52.4 bits (126), Expect = 3e-08
Identities = 19/38 (50%), Positives = 24/38 (63%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQS 191
LG IDGKGP+ + V APG+I R SV EP+Q+
Sbjct: 110 LGEPIDGKGPIDSDEFSPVEKIAPGVIERKSVHEPLQT 147
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 123 bits (310), Expect = 2e-33
Identities = 46/88 (52%), Positives = 59/88 (67%)
Query: 2 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLK 61
ALNLE +NVGVV+ G+ +I+EG VK TG I +PV E LGRVV+AL IDGKG +
Sbjct: 42 ALNLESNNVGVVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALAKPIDGKGEIS 101
Query: 62 TTTRFRVGIKAPGIIPRISVREPMQSGI 89
+ + APGII R SV EP+Q+G+
Sbjct: 102 ASESRLIESPAPGIISRRSVYEPLQTGL 129
Score = 44.6 bits (106), Expect = 1e-05
Identities = 17/38 (44%), Positives = 22/38 (57%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQS 191
L IDGKG + + + APGII R SV EP+Q+
Sbjct: 90 LAKPIDGKGEISASESRLIESPAPGIISRRSVYEPLQT 127
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 121 bits (307), Expect = 9e-33
Identities = 43/89 (48%), Positives = 57/89 (64%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
A NLE + VG V+ + I G V+RTG +++VPVG+ LLGRV+D LG +DG GPL
Sbjct: 62 FAFNLEEELVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLGRPLDGGGPL 121
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGI 89
+ T R + AP II R V EP+Q+GI
Sbjct: 122 QATARRPLERPAPAIIERDFVTEPLQTGI 150
Score = 49.1 bits (118), Expect = 3e-07
Identities = 18/38 (47%), Positives = 23/38 (60%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQS 191
LG +DG GPL+ T R + AP II R V EP+Q+
Sbjct: 111 LGRPLDGGGPLQATARRPLERPAPAIIERDFVTEPLQT 148
>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain.
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.
The alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic.
Length = 274
Score = 103 bits (259), Expect = 3e-27
Identities = 41/57 (71%), Positives = 46/57 (80%)
Query: 33 IVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGI 89
I DVPVGE LLGRVVDALGN IDGKGP++T R + KAPGIIPR SV EP+Q+GI
Sbjct: 1 IADVPVGEALLGRVVDALGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQTGI 57
Score = 65.0 bits (159), Expect = 7e-13
Identities = 24/38 (63%), Positives = 29/38 (76%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQS 191
LGN IDGKGP++T R + KAPGIIPR SV EP+Q+
Sbjct: 18 LGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQT 55
>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha.
A small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, and in principle may run in either direction. This
model represents the F1 alpha subunit of this apparent
second ATP synthase.
Length = 497
Score = 102 bits (256), Expect = 1e-25
Identities = 42/90 (46%), Positives = 61/90 (67%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
+A N++ D VGVV+ G ++ GD V+RTG ++DVPVG+ LLGRVVD LG +DG GPL
Sbjct: 62 IAFNVDEDEVGVVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLDGGGPL 121
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGIE 90
++ R + AP I+ R V P+Q+G++
Sbjct: 122 ASSPRLPIERPAPPIMDRAPVTVPLQTGLK 151
Score = 37.1 bits (86), Expect = 0.004
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQS 191
LG +DG GPL ++ R + AP I+ R V P+Q+
Sbjct: 111 LGRPLDGGGPLASSPRLPIERPAPPIMDRAPVTVPLQT 148
>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 411
Score = 64.4 bits (158), Expect = 2e-12
Identities = 34/90 (37%), Positives = 46/90 (51%), Gaps = 14/90 (15%)
Query: 12 VVVFGNDRL----------IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLK 61
VV F DR+ ++ G V + +PVG+ LLGRV+D LG +DGKGPL
Sbjct: 38 VVGFRGDRVLLMPLEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLGRPLDGKGPLD 97
Query: 62 TTTRFRVGIKAPGIIP--RISVREPMQSGI 89
RV + AP I P R + EP+ G+
Sbjct: 98 AGE--RVPLYAPPINPLKRAPIDEPLDVGV 125
Score = 29.0 bits (66), Expect = 1.4
Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPM 189
LG +DGKGPL RV + AP I P R + EP+
Sbjct: 86 LGRPLDGKGPLDAGE--RVPLYAPPINPLKRAPIDEPL 121
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 64.2 bits (157), Expect = 2e-12
Identities = 30/88 (34%), Positives = 43/88 (48%), Gaps = 10/88 (11%)
Query: 12 VVVFGNDRL----------IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLK 61
VV F +R+ + G V TG + VPVG+ LLGRV+D LG +DG G
Sbjct: 64 VVGFNEERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLDGGGLPD 123
Query: 62 TTTRFRVGIKAPGIIPRISVREPMQSGI 89
T R + P + R + EP+ +G+
Sbjct: 124 GTERRPLDAPPPNPLKRRPIEEPLDTGV 151
>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 413
Score = 61.2 bits (149), Expect = 2e-11
Identities = 25/69 (36%), Positives = 41/69 (59%)
Query: 21 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRIS 80
I G +V TG + + VG+ LLGRV+D LG +DG+GP+ + + P + R
Sbjct: 57 IGPGSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPYPLDNPPPNPLKRPR 116
Query: 81 VREPMQSGI 89
+R+P+++GI
Sbjct: 117 IRDPLETGI 125
Score = 27.3 bits (61), Expect = 5.8
Identities = 10/37 (27%), Positives = 20/37 (54%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 190
LG +DG+GP+ + + P + R +R+P++
Sbjct: 86 LGRPLDGEGPIIGEEPYPLDNPPPNPLKRPRIRDPLE 122
>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated.
Length = 463
Score = 58.6 bits (143), Expect = 2e-10
Identities = 26/66 (39%), Positives = 37/66 (56%)
Query: 24 GDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVRE 83
G V TGA + VPVG+ LGR+ + LG ID KGP+ R+ + KAP + E
Sbjct: 67 GMEVIDTGAPISVPVGKATLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFEELSTKTE 126
Query: 84 PMQSGI 89
+++GI
Sbjct: 127 ILETGI 132
Score = 28.2 bits (64), Expect = 2.7
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAP 177
LG ID KGP+ R+ + KAP
Sbjct: 93 LGEPIDEKGPIGAEERWPIHRKAP 116
>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 58.0 bits (141), Expect = 3e-10
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 21 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGI--KAPGIIPR 78
+ G V TG + VPVG+ LGR+ + LG ID KGP+K + I KAP
Sbjct: 65 LVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAPSFEEL 124
Query: 79 ISVREPMQSGI 89
+ E +++GI
Sbjct: 125 STKTEILETGI 135
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 57.8 bits (140), Expect = 3e-10
Identities = 24/63 (38%), Positives = 32/63 (50%)
Query: 27 VKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 86
V TG + V VGE LLGRV+D LG DG P + + V AP + R + P+
Sbjct: 88 VSPTGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAPMSRRLIETPLS 147
Query: 87 SGI 89
G+
Sbjct: 148 LGV 150
>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific
ATPase/type III secretory pathway virulence-related
protein. This group of ATPases are responsible for the
export of flagellum and virulence-related proteins. The
bacterial flagellar motor is similar to the
F0F1-ATPase, in that they both are proton driven rotary
molecular devices. However, the main function of the
bacterial flagellar motor is to rotate the flagellar
filament for cell motility. Intracellular pathogens
such as Salmonella and Chlamydia also have proteins
which are similar to the flagellar-specific ATPase, but
function in the secretion of virulence-related proteins
via the type III secretory pathway.
Length = 326
Score = 56.5 bits (137), Expect = 7e-10
Identities = 23/56 (41%), Positives = 34/56 (60%)
Query: 34 VDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGI 89
+ VPVG+ LLGRV+DA G +DGKGPL R+ + P + R + E + +G+
Sbjct: 2 LSVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGV 57
Score = 31.5 bits (72), Expect = 0.25
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 153 CLGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 190
G +DGKGPL R+ + P + R + E +
Sbjct: 17 AFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLP 54
>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively.
Length = 418
Score = 56.5 bits (137), Expect = 8e-10
Identities = 29/87 (33%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 5 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTT 64
D V ++ F + G V + V LGRV++ALG IDGKGPL
Sbjct: 43 FNGDRVLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLGRVINALGEPIDGKGPLPQGE 102
Query: 65 RFRVGIKA--PGIIPRISVREPMQSGI 89
R R ++A P + R V EP+ +G+
Sbjct: 103 R-RYPLRASPPPAMSRARVGEPLDTGV 128
Score = 27.7 bits (62), Expect = 4.0
Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKA--PGIIPRISVREPM 189
LG IDGKGPL R R ++A P + R V EP+
Sbjct: 88 LGEPIDGKGPLPQGER-RYPLRASPPPAMSRARVGEPL 124
>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta.
A small number of taxonomically diverse prokaryotic
species have what appears to be a second ATP synthase,
in addition to the normal F1F0 ATPase in bacteria and
A1A0 ATPase in archaea. These enzymes use ion gradients
to synthesize ATP, and in principle may run in either
direction. This model represents the F1 beta subunit of
this apparent second ATP synthase.
Length = 449
Score = 56.0 bits (135), Expect = 1e-09
Identities = 25/90 (27%), Positives = 41/90 (45%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
+ L+ +V + + + G V+ +G + PVG+ L R+ D GNTID + P
Sbjct: 38 VLSQLDAHHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDRREPP 97
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGIE 90
K V P + R S E ++GI+
Sbjct: 98 KDVEWRSVHQAPPTLTRRSSKSEVFETGIK 127
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 55.0 bits (133), Expect = 3e-09
Identities = 27/85 (31%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Query: 7 PDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRF 66
D + G I G V TG + + VGE LLGRV+D G +DGKG L
Sbjct: 49 GDEALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLDGKGELPAGEIE 108
Query: 67 RVGIKAPGIIP--RISVREPMQSGI 89
+ A P R + +P+ +G+
Sbjct: 109 TRPLDADPPPPMSRQPIDQPLPTGV 133
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 54.3 bits (131), Expect = 5e-09
Identities = 30/89 (33%), Positives = 44/89 (49%), Gaps = 9/89 (10%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
M + +E + G+ F K GD V + +++PVG +LLGRVVD LG IDGKG +
Sbjct: 57 MVVVIEKEQFGISPFSFIEGFKIGDKVFISKEGLNIPVGRNLLGRVVDPLGRPIDGKGAI 116
Query: 61 KTTTRFRVGIKAPGIIPRISVREPMQSGI 89
AP + I+ M+ G+
Sbjct: 117 DYER------YAPIMKAPIA---AMKRGL 136
>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit. The sequences of
ATP synthase F1 alpha and beta subunits are related and
both contain a nucleotide-binding site for ATP and ADP.
They have a common amino terminal domain but vary at the
C-terminus. The beta chain has catalytic activity, while
the alpha chain is a regulatory subunit. Proton
translocating ATP synthase, F1 beta subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), A subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 461
Score = 54.3 bits (131), Expect = 5e-09
Identities = 31/88 (35%), Positives = 48/88 (54%)
Query: 2 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLK 61
A +L D V + G+ + G V TGA + VPVG++ LGR+ + LG ID KGP+
Sbjct: 44 AQHLGDDTVRTIAMGSTDGLVRGLEVIDTGAPISVPVGKETLGRIFNVLGEPIDEKGPIP 103
Query: 62 TTTRFRVGIKAPGIIPRISVREPMQSGI 89
R+ + KAP + + E +++GI
Sbjct: 104 AKERWPIHRKAPSFEEQSTKVEILETGI 131
>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional.
Length = 461
Score = 54.5 bits (132), Expect = 5e-09
Identities = 28/85 (32%), Positives = 46/85 (54%)
Query: 5 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTT 64
L+ V + G+ + GD V+ TG ++VPVGE +LGR++D LG +DG PL
Sbjct: 47 LDETTVRAIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDGGPPLPAEE 106
Query: 65 RFRVGIKAPGIIPRISVREPMQSGI 89
R + P + + + E +++GI
Sbjct: 107 RRPIHSTIPPLAEQDTSTEILETGI 131
>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family. This family of
ATPases demonstrates extensive homology with ATP
synthase F1, beta subunit. It is a mixture of members
with two different protein functions. The first group is
exemplified by Salmonella typhimurium FliI protein. It
is needed for flagellar assembly, its ATPase activity is
required for flagellation, and it may be involved in a
specialized protein export pathway that proceeds without
signal peptide cleavage. The second group of proteins
function in the export of virulence proteins;
exemplified by Yersinia sp. YscN protein an ATPase
involved in the type III secretory pathway for the
antihost Yops proteins [Energy metabolism, ATP-proton
motive force interconversion].
Length = 440
Score = 53.9 bits (130), Expect = 8e-09
Identities = 29/91 (31%), Positives = 44/91 (48%), Gaps = 3/91 (3%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
+ + V ++ + ++ G V TG + + VG+ LLGRV+D LG IDGKG
Sbjct: 62 EVVGFNGEFVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLGKPIDGKGKF 121
Query: 61 KTTTRFRVGIKAPGIIP--RISVREPMQSGI 89
I AP I P R +RE + +G+
Sbjct: 122 LDNVETEGLITAP-INPLKRAPIREILSTGV 151
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 52.5 bits (126), Expect = 2e-08
Identities = 24/54 (44%), Positives = 29/54 (53%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGI 89
VPVG LLGRV+D LG IDG GPL V P + R V P+ +G+
Sbjct: 98 VPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGV 151
Score = 27.0 bits (60), Expect = 7.1
Identities = 13/36 (36%), Positives = 15/36 (41%)
Query: 154 LGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPM 189
LG IDG GPL V P + R V P+
Sbjct: 112 LGEPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPL 147
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 51.9 bits (125), Expect = 4e-08
Identities = 32/90 (35%), Positives = 43/90 (47%), Gaps = 5/90 (5%)
Query: 3 LNLEPDNVGVVVFGNDR-LIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLK 61
L + D V VF L +G V+ TG + +PV EDLLGR+ + G IDG +
Sbjct: 47 LEVRGDKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDGGPEIV 106
Query: 62 TTTRFRVGIKAPGIIP--RISVREPMQSGI 89
R+ I I P RI E +Q+GI
Sbjct: 107 PED--RLDINGAPINPYARIYPEEFIQTGI 134
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 51.6 bits (124), Expect = 4e-08
Identities = 24/56 (42%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPMQSGI 89
+PVG LLGRV+D +GN +DG GP+ T R +P I P R + EP+ G+
Sbjct: 97 LPVGMSLLGRVIDGVGNPLDGLGPIYTDQ--RASRHSPPINPLSRRPITEPLDVGV 150
Score = 27.4 bits (61), Expect = 6.0
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 155 GNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPM 189
GN +DG GP+ T R +P I P R + EP+
Sbjct: 112 GNPLDGLGPIYTDQ--RASRHSPPINPLSRRPITEPL 146
>gnl|CDD|217261 pfam02874, ATP-synt_ab_N, ATP synthase alpha/beta family,
beta-barrel domain. This family includes the ATP
synthase alpha and beta subunits the ATP synthase
associated with flagella.
Length = 69
Score = 46.0 bits (110), Expect = 2e-07
Identities = 16/31 (51%), Positives = 17/31 (54%)
Query: 1 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTG 31
LNL D V VVV G + GD VKRTG
Sbjct: 39 EVLNLGGDKVRVVVMGGTDGLSRGDEVKRTG 69
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 49.6 bits (119), Expect = 2e-07
Identities = 31/85 (36%), Positives = 41/85 (48%), Gaps = 2/85 (2%)
Query: 6 EPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTR 65
+PD V V F I GD V R G + P GRV++ALG IDG GPL TR
Sbjct: 70 DPDGVTVKPFEPRIEIGLGDAVFRKGPLRIRP-DPSWKGRVINALGEPIDGLGPLAPGTR 128
Query: 66 FR-VGIKAPGIIPRISVREPMQSGI 89
+ AP + R V +++G+
Sbjct: 129 PMSIDATAPPAMTRARVETGLRTGV 153
Score = 30.0 bits (68), Expect = 0.88
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 154 LGNTIDGKGPLKTTTRFR-VGIKAPGIIPRISVREPMQS 191
LG IDG GPL TR + AP + R V +++
Sbjct: 113 LGEPIDGLGPLAPGTRPMSIDATAPPAMTRARVETGLRT 151
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 48.2 bits (115), Expect = 6e-07
Identities = 25/69 (36%), Positives = 37/69 (53%)
Query: 21 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRIS 80
I G +V+ TG ++V VG L+G+V+DALG +DG K P + R
Sbjct: 78 IAPGCLVEATGKPLEVKVGSGLIGQVLDALGEPLDGSALPKGLAPVSTDQDPPNPLKRPP 137
Query: 81 VREPMQSGI 89
+REPM+ G+
Sbjct: 138 IREPMEVGV 146
>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional.
Length = 436
Score = 47.3 bits (113), Expect = 1e-06
Identities = 32/89 (35%), Positives = 43/89 (48%), Gaps = 5/89 (5%)
Query: 3 LNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKT 62
+ L+ D V + VFG R I GD V G + V E LLGR + G IDG L+
Sbjct: 43 IRLDGDKVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGRRFNGSGKPIDGGPELEG 102
Query: 63 TTRFRVGIKAPGIIP--RISVREPMQSGI 89
+ I P + P RI RE +++GI
Sbjct: 103 E---PIEIGGPSVNPVKRIVPREMIRTGI 128
>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated.
Length = 451
Score = 47.4 bits (113), Expect = 1e-06
Identities = 23/56 (41%), Positives = 32/56 (57%), Gaps = 4/56 (7%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPMQSGI 89
+P+G +LGRV+D G +DGKGP+K V + P I P R + EP+ GI
Sbjct: 103 LPMGMSMLGRVLDGAGRALDGKGPMK--AEDWVPMDGPTINPLNRHPISEPLDVGI 156
>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated.
Length = 440
Score = 46.7 bits (111), Expect = 2e-06
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 24 GDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVRE 83
G V G + V VG DL GR++D LG IDG PL R P + R + +
Sbjct: 87 GQWVTPLGHMHQVQVGADLAGRILDGLGAPIDGGPPLTGQWRELDC-PPPSPLTRQPIEQ 145
Query: 84 PMQSGI 89
+ +GI
Sbjct: 146 MLTTGI 151
>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit,
nucleotide-binding domain. 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. The beta
subunit of ATP synthase is catalytic.
Length = 274
Score = 46.1 bits (110), Expect = 2e-06
Identities = 20/54 (37%), Positives = 34/54 (62%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGI 89
VPVG + LGR+ + LG ID +GP+KT + + +AP + + + E +++GI
Sbjct: 4 VPVGPETLGRIFNVLGEPIDERGPIKTKKTWPIHREAPEFVEQSTKTEILETGI 57
>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional.
Length = 574
Score = 45.8 bits (108), Expect = 4e-06
Identities = 30/102 (29%), Positives = 50/102 (49%), Gaps = 16/102 (15%)
Query: 1 MALNLEPDN-VGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGP 59
+ NLE D +G+++ N ++ G V TG ++ +PVG +LG+VV+ LG+ + P
Sbjct: 81 LVFNLEKDGRIGIILMDNITEVQSGQKVMATGKLLYIPVGAGVLGKVVNPLGHEV----P 136
Query: 60 LKTTTRFR-----------VGIKAPGIIPRISVREPMQSGIE 90
+ TR R V AP I+ R V + +G +
Sbjct: 137 VGLLTRSRALLESEQTLGKVDAGAPNIVSRSPVNYNLLTGFK 178
>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers. the domains occurs
between pairs og RING fingers.
Length = 64
Score = 41.2 bits (97), Expect = 1e-05
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 6/52 (11%)
Query: 109 DDSETANYI--SAHTKDCP--KCHICIEK--NGGCNHMQCYHCKHEFCWMCL 154
+ +Y+ + K CP C I GCN + C C FC+ C
Sbjct: 4 ERLLLESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCK 55
>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit.
Length = 494
Score = 44.3 bits (105), Expect = 1e-05
Identities = 21/53 (39%), Positives = 28/53 (52%)
Query: 21 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAP 73
+ G V TGA + VPVG LGR+ + LG +D GP+ T T + AP
Sbjct: 81 LMRGMEVIDTGAPLSVPVGGATLGRIFNVLGEPVDNLGPVDTRTTSPIHRSAP 133
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 44.0 bits (105), Expect = 1e-05
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 3 LNLEPDNVGVVVFGNDRLIKEGDI-VKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL 60
L + D V VF + D V+ TG + +PV ED+LGR+ D LG IDG +
Sbjct: 44 LEVSEDKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPIDGGPEI 102
>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 458
Score = 44.0 bits (104), Expect = 2e-05
Identities = 31/85 (36%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 8 DNVGVVVF-GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRF 66
V VF G L G V+ TG + +PV ED+LGR+++ G IDG GP +
Sbjct: 47 GIAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDMLGRILNGSGEPIDG-GP-EIVPDE 104
Query: 67 RVGIKAPGIIP--RISVREPMQSGI 89
R I I P R E +Q+GI
Sbjct: 105 RRDINGAPINPYAREYPEEFIQTGI 129
>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic)
subunit B. These ATPases couple ATP hydrolysis to the
build up of a H+ gradient, but V-type ATPases do not
catalyze the reverse reaction. The Vacuolar (V-type)
ATPase is found in the membranes of vacuoles, the golgi
apparatus and in other coated vesicles in eukaryotes.
Archaea have a protein which is similar in sequence to
V-ATPases, but functions like an F-ATPase (called
A-ATPase). A similar protein is also found in a few
bacteria. This subfamily consists of the non-catalytic
beta subunit.
Length = 276
Score = 41.9 bits (99), Expect = 6e-05
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPMQSGI 89
VPV ED+LGR+ + G IDG + + I P I P RI E +Q+GI
Sbjct: 4 VPVSEDMLGRIFNGSGKPIDGGPEILAEE--YLDINGPPINPVARIYPEEMIQTGI 57
>gnl|CDD|216524 pfam01485, IBR, IBR domain. The IBR (In Between Ring fingers)
domain is often found to occur between pairs of ring
fingers (pfam00097). This domain has also been called
the C6HC domain and DRIL (for double RING finger linked)
domain. Proteins that contain two Ring fingers and an
IBR domain (these proteins are also termed RBR family
proteins) are thought to exist in all eukaryotic
organisms. RBR family members play roles in protein
quality control and can indirectly regulate
transcription. Evidence suggests that RBR proteins are
often parts of cullin-containing ubiquitin ligase
complexes. The ubiquitin ligase Parkin is an RBR family
protein whose mutations are involved in forms of
familial Parkinson's disease.
Length = 63
Score = 37.6 bits (87), Expect = 2e-04
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 125 PKCHICIEKNGGCNH-MQCYHCKHEFCWMCLGN 156
P C IEK G + + C C EFC+ C
Sbjct: 24 PDCGNIIEKTDGGSQNVTCSKCGTEFCFSCKEP 56
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 40.7 bits (96), Expect = 2e-04
Identities = 15/18 (83%), Positives = 16/18 (88%)
Query: 43 LGRVVDALGNTIDGKGPL 60
LGRVV+ALG IDGKGPL
Sbjct: 99 LGRVVNALGEPIDGKGPL 116
>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional.
Length = 442
Score = 40.3 bits (94), Expect = 3e-04
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 30 TGAIVDVPVGEDLLGRVVDALGNTIDG--KGPLKTTTRFRVGIKA-PGIIPRISVREPMQ 86
TG + + G LLGRV++ LG ID KGPL+ +A P + R +R +
Sbjct: 90 TGLPLHIRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRAPPDPLHRAKLRTILS 149
Query: 87 SGI 89
+G+
Sbjct: 150 TGV 152
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 38.7 bits (90), Expect = 0.001
Identities = 18/55 (32%), Positives = 29/55 (52%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGIE 90
+ + + LLGRV+D GN +DGK L T + P + R ++E +GI+
Sbjct: 92 LHLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFPTGIK 146
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 37.7 bits (88), Expect = 0.002
Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 14/92 (15%)
Query: 12 VVVFGNDRLIKE--GD--------IVKRTGAIVDVPVGEDLLGRVVDALGN---TIDGKG 58
VV F +R I G+ ++K TG + V VGE LLG V+D G D
Sbjct: 48 VVGFQRERTILSLIGNAQGLSRQVVLKPTGKPLSVWVGEALLGAVLDPTGKIVERFDAPP 107
Query: 59 PLKTTTRFR-VGIKAPGIIPRISVREPMQSGI 89
+ + R + + P R +REP+ +G+
Sbjct: 108 TVGPISEERVIDVAPPSYAERRPIREPLITGV 139
>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit. This
models eukaryotic vacuolar (H+)-ATPase that is
responsible for acidifying cellular compartments. This
enzyme shares extensive sequence similarity with
archaeal ATP synthase [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 466
Score = 37.4 bits (87), Expect = 0.003
Identities = 26/62 (41%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 30 TGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPMQS 87
TG I+ PV ED+LGRV + G ID KGP + I I P RI E +Q+
Sbjct: 70 TGDILRTPVSEDMLGRVFNGSGKPID-KGPPVLAEDYL-DINGQPINPYARIYPEEMIQT 127
Query: 88 GI 89
GI
Sbjct: 128 GI 129
>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 37.2 bits (86), Expect = 0.003
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 38 VGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIP--RISVREPMQSGI 89
+G+ LGRV++ LG +DGKG L +T + + P I P R +V P+ G+
Sbjct: 92 IGDSWLGRVINGLGEPLDGKGQLGGSTPLQQ--QLPQIHPLQRRAVDTPLDVGV 143
>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN;
Validated.
Length = 433
Score = 36.5 bits (84), Expect = 0.006
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQSGI 89
VPVGE LLGRV+D G +DG+ L P + R + +P+ +GI
Sbjct: 91 VPVGEALLGRVIDGFGRPLDGR-ELPDVCWKDYDAMPPPAMVRQPITQPLMTGI 143
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 31.5 bits (71), Expect = 0.23
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 10/93 (10%)
Query: 3 LNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTID---GKGP 59
+ +E +N ++ F + GD V V +P G LLG+V+ A G ++ P
Sbjct: 58 IAIEKENNMLLPFEQTEKVCYGDSVTLIAEDVVIPRGNHLLGKVLSANGEVLNEEAENIP 117
Query: 60 LKTTTRFRVGIKAPGI--IPRISVREPMQSGIE 90
L+ ++ + AP I R + + ++GI+
Sbjct: 118 LQ-----KIKLDAPPIHAFEREEITDVFETGIK 145
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 31.7 bits (72), Expect = 0.24
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 36 VPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPMQ 86
+P+G LLGRV+D G +DG T I P + P+Q
Sbjct: 110 LPLGPALLGRVLDGSGKPLDGLPAPDTGET------GALITPPFN---PLQ 151
>gnl|CDD|214546 smart00184, RING, Ring finger. E3 ubiquitin-protein ligase
activity is intrinsic to the RING domain of c-Cbl and is
likely to be a general function of this domain; Various
RING fingers exhibit binding activity towards E2
ubiquitin-conjugating enzymes (Ubc' s).
Length = 40
Score = 27.1 bits (60), Expect = 0.98
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 127 CHICIEKNGGCNHMQCYHCKHEFCWMCLGNTIDGKGP 163
C IC+E+ C H FC C+ ++
Sbjct: 1 CPICLEE--YLKDPVILPCGHTFCRSCIRKWLESGNN 35
>gnl|CDD|238623 cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the
atrazine degradation pathway and related hydrolases.
Atrazine, a chlorinated herbizide, can be catabolized
by a variety of different bacteria. The first three
steps of the atrazine dehalogenation pathway are
catalyzed by atrazine chlorohydrolase (AtzA),
hydroxyatrazine ethylaminohydrolase (AtzB), and
N-isopropylammelide N-isopropylaminohydrolase (AtzC).
All three enzymes belong to the superfamily of metal
dependent hydrolases. AtzA and AtzB, beside other
related enzymes are represented in this CD.
Length = 411
Score = 29.5 bits (67), Expect = 1.00
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 9 NVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKG 58
N +V R++++GD++ G IV V L D ID KG
Sbjct: 5 NGTIVTTDPRRVLEDGDVLVEDGRIVAVGPALPLPAYPADE---VIDAKG 51
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 29.1 bits (65), Expect = 1.2
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 126 KCHICIEKNGGCNHMQCYHCKHEFCWMCL 154
KC +C+E+ C C H FC CL
Sbjct: 217 KCFLCLEE---PEVPSCTPCGHLFCLSCL 242
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 29.6 bits (67), Expect = 1.2
Identities = 9/49 (18%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 120 HTKDCPKCHICIEKNGGCNHMQCYHCKH-----EFCWMCLGNTIDGKGP 163
+ +CP C + + ++C++C + + C C + GP
Sbjct: 443 YIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGP 491
>gnl|CDD|233040 TIGR00595, priA, primosomal protein N'. All proteins in this
family for which functions are known are components of
the primosome which is involved in replication, repair,
and recombination.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 505
Score = 29.3 bits (66), Expect = 1.2
Identities = 9/49 (18%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 120 HTKDCPKCHICIEKNGGCNHMQCYHCKH-----EFCWMCLGNTIDGKGP 163
+ CP C + + + ++C++C + + C C + KG
Sbjct: 221 YILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGY 269
>gnl|CDD|211618 TIGR01028, S7_S5_E_A, ribosomal protein
S7(archaeal)/S5(eukaryotic). This model describes the
members from the eukaryotic cytosol and the Archaea of
the family that includes ribosomal protein S7 of
bacteria and S5 of eukaryotes. A separate model
describes bacterial and organellar S7 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 186
Score = 28.6 bits (64), Expect = 1.8
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 8/65 (12%)
Query: 17 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGII 76
N + +K IVK I++ GE+ + +VDA+ N GP + TTR I GI+
Sbjct: 65 NGKKLKAYRIVKEAFEIIEKRTGENPIQVLVDAIENA----GPREDTTR----IGYGGIV 116
Query: 77 PRISV 81
R +V
Sbjct: 117 YRQAV 121
>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a
specialized type of Zn-finger of 40 to 60 residues that
binds two atoms of zinc; defined by the 'cross-brace'
motif C-X2-C-X(9-39)-C-X(1-3)-
H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved
in mediating protein-protein interactions; identified in
a proteins with a wide range of functions such as viral
replication, signal transduction, and development; has
two variants, the C3HC4-type and a C3H2C3-type (RING-H2
finger), which have different cysteine/histidine
pattern; a subset of RINGs are associated with B-Boxes
(C-X2-H-X7-C-X7-C-X2-C-H-X2-H).
Length = 45
Score = 26.3 bits (58), Expect = 1.9
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 126 KCHICIEKNGGCNHMQCYHCKHEFCWMCL 154
+C IC+E+ + C H FC C+
Sbjct: 1 ECPICLEEFREP--VVLLPCGHVFCRSCI 27
>gnl|CDD|204902 pfam12396, DUF3659, Protein of unknown function (DUF3659). This
domain family is found in bacteria and eukaryotes, and
is approximately 70 amino acids in length.
Length = 64
Score = 26.7 bits (60), Expect = 2.2
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 11/44 (25%)
Query: 22 KEGDIVKRTGAIVDVPVG-------EDLLGRVVDALGNTIDGKG 58
K+G++V + G VG + L GR VD G+ +D G
Sbjct: 11 KDGNVVDKDG----NVVGRVVEGDPKKLAGRKVDEDGDILDKDG 50
>gnl|CDD|106544 PRK13599, PRK13599, putative peroxiredoxin; Provisional.
Length = 215
Score = 27.4 bits (60), Expect = 3.9
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 26 IVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPM 85
I T + PV D LG+V + LG GKG T R + G I R+ + P
Sbjct: 83 IKDNTNIAIPFPVIADDLGKVSNQLGMIHPGKG--TNTVRAVFIVDDKGTI-RLIMYYPQ 139
Query: 86 QSG 88
+ G
Sbjct: 140 EVG 142
>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 578
Score = 27.8 bits (62), Expect = 4.1
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 11/76 (14%)
Query: 5 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL---- 60
+E D + V+ IK G+ V TGA + V +G LLG + D + + PL
Sbjct: 40 IEGDKAFIQVYEETSGIKPGEPVVGTGAPLSVELGPGLLGSIYDGV------QRPLDVLK 93
Query: 61 -KTTTRFRVGIKAPGI 75
KT G+ APG+
Sbjct: 94 EKTGDFIARGVDAPGL 109
>gnl|CDD|214988 smart01038, Bgal_small_N, Beta galactosidase small chain. This
domain comprises the small chain of dimeric
beta-galactosidases EC:3.2.1.23. This domain is also
found in single chain beta-galactosidase.
Length = 272
Score = 27.2 bits (61), Expect = 5.2
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 53 TIDGKGPLKTTTRFRVGIKAPGIIPRISVR 82
TIDG G +K F G A +PRI +R
Sbjct: 101 TIDGDGEVKVDVTFTPGGGALPDLPRIGLR 130
Score = 27.2 bits (61), Expect = 5.2
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 157 TIDGKGPLKTTTRFRVGIKAPGIIPRISVR 186
TIDG G +K F G A +PRI +R
Sbjct: 101 TIDGDGEVKVDVTFTPGGGALPDLPRIGLR 130
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 24.7 bits (54), Expect = 7.4
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 125 PKCHICIEKNGGCNHMQCYHCKHEFCWMCL 154
+C IC+++ + C H F CL
Sbjct: 1 DECPICLDEFEPGEEVVVLPCGHVFHKECL 30
>gnl|CDD|180895 PRK07228, PRK07228, N-ethylammeline chlorohydrolase; Provisional.
Length = 445
Score = 26.9 bits (60), Expect = 7.9
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 9 NVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLG--RVVDALGNTI 54
N G+V R I +GD++ I V DL +DA G +
Sbjct: 7 NAGIVTMNAKREIVDGDVLIEDDRIAAVGDRLDLEDYDDHIDATGKVV 54
>gnl|CDD|238521 cd01088, MetAP2, Methionine Aminopeptidase 2. E.C. 3.4.11.18. Also
known as methionyl aminopeptidase and peptidase M.
Catalyzes release of N-terminal amino acids,
preferentially methionine, from peptides and arylamides.
Length = 291
Score = 26.8 bits (60), Expect = 8.0
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 13/57 (22%)
Query: 16 GNDRLIKEGDIVK------RTGAIVDV-------PVGEDLLGRVVDALGNTIDGKGP 59
G+D ++KEGD+VK G I D P +DLL +AL I GP
Sbjct: 66 GDDTVLKEGDVVKLDFGAHVDGYIADSAFTVDFDPKYDDLLEAAKEALNAAIKEAGP 122
>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional.
Length = 586
Score = 26.7 bits (60), Expect = 8.5
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 11/76 (14%)
Query: 5 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL---- 60
+E D + V+ IK G+ V+ TG + V +G LLG + D + PL
Sbjct: 43 IEGDKATIQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGSIFDGIQR------PLDELA 96
Query: 61 -KTTTRFRVGIKAPGI 75
K+ G+ P +
Sbjct: 97 EKSGDFLERGVYVPAL 112
>gnl|CDD|223127 COG0049, RpsG, Ribosomal protein S7 [Translation, ribosomal
structure and biogenesis].
Length = 148
Score = 26.0 bits (58), Expect = 9.6
Identities = 14/73 (19%), Positives = 21/73 (28%), Gaps = 22/73 (30%)
Query: 26 IVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPLKTTTRFRVGIKAPGIIPRISVREPM 85
IV I++ G++ L A+ N P + RVG
Sbjct: 41 IVYGAFDIIEKKTGQNPLQVFEKAIENV----KPREEVKSRRVG---------------- 80
Query: 86 QSGIEYHAPTDCA 98
G Y P +
Sbjct: 81 --GATYQVPVEVR 91
>gnl|CDD|148664 pfam07191, DUF1407, Protein of unknown function (DUF1407). This
family consists of several short, hypothetical bacterial
proteins of around 70 residues in length. Members of
this family have 8 highly conserved cysteine residues,
which form two zinc ribbon domains.
Length = 70
Score = 25.0 bits (55), Expect = 9.6
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 123 DCPKCHICIEKNGGCNHMQCYHCKHEF 149
CP+C +E GG H C C+ +F
Sbjct: 3 ICPQCQQELEWKGG--HYHCDQCQKDF 27
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
0.322 0.140 0.449
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,504,811
Number of extensions: 859397
Number of successful extensions: 946
Number of sequences better than 10.0: 1
Number of HSP's gapped: 941
Number of HSP's successfully gapped: 112
Length of query: 191
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 100
Effective length of database: 6,901,388
Effective search space: 690138800
Effective search space used: 690138800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.2 bits)