RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1371
(244 letters)
>gnl|CDD|214980 smart01024, BCS1_N, This domain is found at the N terminal of the
mitochondrial ATPase BSC1. It encodes the import and
intramitochondrial sorting for the protein.
Length = 170
Score = 65.7 bits (161), Expect = 2e-13
Identities = 27/42 (64%), Positives = 34/42 (80%), Gaps = 1/42 (2%)
Query: 81 ILRKARTLALKQYEGKTVMYTALGSEWRPFGHPKRRRPLNSV 122
+L +AR LALK+ EGKTV+YTA G EWR F P+R+RPL+SV
Sbjct: 130 LLEEARELALKRTEGKTVIYTADGPEWRRF-APRRKRPLSSV 170
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 63.0 bits (154), Expect = 9e-13
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 157 YLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--SI 209
LLYGPPG GK++ A+A EL ++ SE G ++ RL L A + +
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60
Query: 210 ILLEDIDAAFVTREESSQGLED 231
I +++IDA +R
Sbjct: 61 IFIDEIDALAGSRGSGGDSESR 82
>gnl|CDD|219997 pfam08740, BCS1_N, BCS1 N terminal. This domain is found at the N
terminal of the mitochondrial ATPase BSC1. It encodes
the import and intramitochondrial sorting for the
protein.
Length = 179
Score = 55.4 bits (134), Expect = 1e-09
Identities = 28/53 (52%), Positives = 36/53 (67%), Gaps = 6/53 (11%)
Query: 75 LGAGAAILR----KARTLALKQYEGKTVMYTALGSE-WRPFGHPKRRRPLNSV 122
LG IL+ +AR LALK+ EGKTV+Y A GSE WR G P+ +RPL++V
Sbjct: 128 LGRSRQILKELLEEARALALKKDEGKTVIYRADGSEGWRR-GAPRPKRPLSTV 179
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 54.2 bits (131), Expect = 2e-08
Identities = 18/137 (13%), Positives = 31/137 (22%), Gaps = 5/137 (3%)
Query: 96 KTVMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRR 155
K +E R P + + R I
Sbjct: 330 KVHAKNKPLAEDVDLKKIARGTP--GFSGADLANLLNEAALLAARRNKKEITMRDIEEAI 387
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSIILLEDI 215
++ GP + A + L L D H +++ P+ L +
Sbjct: 388 DRVIAGPERKSR-VISEAEKKITAYHEAGHALVGLLLPDADPVHKVTIIPR-GRALGYTL 445
Query: 216 DAAF-VTREESSQGLED 231
S + L D
Sbjct: 446 FLPEEDKYLMSKEELLD 462
Score = 38.1 bits (89), Expect = 0.003
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
L+++ F+ +P Y G +G LL GPPG GK+ A+AGE
Sbjct: 162 LSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG 208
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 49.5 bits (118), Expect = 7e-07
Identities = 32/88 (36%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVA 204
GI +G LLYGPPG GK+ A+A E +N E G +++RL + A
Sbjct: 208 GIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEA 267
Query: 205 PQN--SIILLEDIDAAFVTREESSQGLE 230
+N SII +++IDA REE + +E
Sbjct: 268 EENAPSIIFIDEIDAIAPKREEVTGEVE 295
Score = 34.1 bits (78), Expect = 0.069
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 7/75 (9%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVA 204
GI +G LL+GPPG GK+ A+A E + E G ++ + + A
Sbjct: 483 GIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKA 542
Query: 205 PQNS--IILLEDIDA 217
Q + II ++IDA
Sbjct: 543 RQAAPAIIFFDEIDA 557
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 45.6 bits (108), Expect = 3e-06
Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 16/94 (17%)
Query: 152 PYRRGYLLYGPPGCGKSSFITALAGEL---EFGICVLNLSE----------RGLTDDRLN 198
P + LLYGPPG GK++ A+A EL LN S+ G RL
Sbjct: 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLL 76
Query: 199 HLLSVAPQNSIILLEDIDAAFVTREESSQGLEDI 232
L+ + ++ +++ID+ + L +
Sbjct: 77 FELAEKAKPGVLFIDEIDSL---SRGAQNALLRV 107
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 45.2 bits (107), Expect = 1e-05
Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 11/122 (9%)
Query: 119 LNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
L+ + + + I+ + P + G+ +G LLYGPPG GK+ A+A E
Sbjct: 241 LDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES 300
Query: 179 EFGICVLNLSERGLTDDRLN-------HLLSVAPQN--SIILLEDIDAAFVTREESSQGL 229
+++ L + L A + SII +++ID+ R S G
Sbjct: 301 RSR--FISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGS 358
Query: 230 ED 231
Sbjct: 359 GR 360
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 43.4 bits (103), Expect = 5e-05
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 11/74 (14%)
Query: 117 RP--LNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITAL 174
RP L+ VV + +++ I+ +W +G P ++ LLYGPPG GK+S AL
Sbjct: 9 RPKTLSDVVGNEKAKEQLREWIE------SW--LKGKP-KKALLLYGPPGVGKTSLAHAL 59
Query: 175 AGELEFGICVLNLS 188
A + + + LN S
Sbjct: 60 ANDYGWEVIELNAS 73
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 39.3 bits (91), Expect = 4e-04
Identities = 18/84 (21%), Positives = 33/84 (39%), Gaps = 4/84 (4%)
Query: 154 RRGYLLYGPPGCGKSSFITALAGEL---EFGICVLNLSE-RGLTDDRLNHLLSVAPQNSI 209
L+ GPPG GK++ ALA EL G+ ++ + D+L ++ + S
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 210 ILLEDIDAAFVTREESSQGLEDID 233
+ A + + +D
Sbjct: 62 SGELRLRLALALARKLKPDVLILD 85
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 40.5 bits (95), Expect = 4e-04
Identities = 40/126 (31%), Positives = 59/126 (46%), Gaps = 12/126 (9%)
Query: 116 RRPLNSVVLDSGVADRILTDIKQFV----ADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
+ PL S G+ +I +IK+ V P Y D GI +G +LYGPPG GK+
Sbjct: 176 KAPLESYADIGGLEQQI-QEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLA 234
Query: 172 TALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--SIILLEDIDAAFVTREE 224
A+A E + SE G + L VA +N SI+ +++IDA R +
Sbjct: 235 KAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYD 294
Query: 225 SSQGLE 230
++ G E
Sbjct: 295 ATSGGE 300
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 40.4 bits (95), Expect = 6e-04
Identities = 30/92 (32%), Positives = 44/92 (47%), Gaps = 7/92 (7%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE---FGICVLNLSE 189
++ F+ P + G +G LL GPPG GK+ A+AGE E F I E
Sbjct: 195 FEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE 254
Query: 190 R--GLTDDRLNHLLSVAPQNS--IILLEDIDA 217
G+ R+ L A +NS I+ +++IDA
Sbjct: 255 MFVGVGAARVRDLFKKAKENSPCIVFIDEIDA 286
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 39.6 bits (93), Expect = 9e-04
Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 133 LTDIKQFVADPAWYLDRG--IPYRRGYLLYGPPGCGKSSFITALAGE 177
L +I F+ +P+ + G IP +G LL GPPG GK+ A+AGE
Sbjct: 67 LMEIVDFLKNPSKFTKLGAKIP--KGVLLVGPPGTGKTLLAKAVAGE 111
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 38.6 bits (90), Expect = 0.002
Identities = 16/37 (43%), Positives = 21/37 (56%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
P + + GI +G LLYGPPG GK+ A+A E
Sbjct: 145 PELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN 181
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 38.1 bits (88), Expect = 0.004
Identities = 18/42 (42%), Positives = 25/42 (59%)
Query: 149 RGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSER 190
R + + LL G PG GK+S ITALA + + +NLSE+
Sbjct: 1538 RAMQVGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQ 1579
Score = 29.2 bits (65), Expect = 2.4
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRL 197
LL G G GK++ I LA +L F + V+N S++ D L
Sbjct: 468 LLVGETGTGKTTMIQYLALKLHFKLTVINKSQQTEMSDDL 507
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 35.3 bits (82), Expect = 0.004
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
LYGPPGCGKS+ LA L
Sbjct: 2 WLYGPPGCGKSTLAKYLARAL 22
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 37.4 bits (87), Expect = 0.005
Identities = 17/33 (51%), Positives = 19/33 (57%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALA 175
P Y GI RG LLYGPPG GK+ A+A
Sbjct: 168 PELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVA 200
>gnl|CDD|221912 pfam13086, AAA_11, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 220
Score = 36.9 bits (86), Expect = 0.005
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 13/52 (25%)
Query: 157 YLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNS 208
L+ GPPG GK++ I + +L L++ +L AP NS
Sbjct: 20 TLIQGPPGTGKTTTIVEIIKQL-------------LSNAPGKKVLVCAPSNS 58
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 36.2 bits (84), Expect = 0.011
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
P Y + G+ +G LLYGPPGCGK+ A+A L
Sbjct: 205 PELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSL 240
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug Resistance Protein)-like transporters are
involved in drug, peptide, and lipid export. They belong
to the subfamily C of the ATP-binding cassette (ABC)
superfamily of transport proteins. The ABCC subfamily
contains transporters with a diverse functional spectrum
that includes ion transport, cell surface receptor, and
toxin secretion activities. The MRP-like family, similar
to all ABC proteins, have a common four-domain core
structure constituted by two membrane-spanning domains,
each composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). ABC transporters are a
subset of nucleotide hydrolases that contain a signature
motif, Q-loop, and H-loop/switch region, in addition to,
the Walker A motif/P-loop and Walker B motif commonly
found in a number of ATP- and GTP-binding and
hydrolyzing proteins.
Length = 171
Score = 34.7 bits (81), Expect = 0.019
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 161 GPPGCGKSSFITALAGELE--FG-ICVLNLSERGLTDDRLNHLLSVAPQNSIIL 211
GP G GKS+ + L + G I + + R L + L ++ PQ+ +
Sbjct: 35 GPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLF 88
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 33.8 bits (77), Expect = 0.020
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 157 YLLYGPPGCGKSSFITALAGELEFGICVLNLSE 189
L+ GPPG GKS+ LA +L GI V++L +
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKL--GIPVISLDD 32
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 35.4 bits (83), Expect = 0.022
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
+L+GPPG GK++ +AG +
Sbjct: 40 ILWGPPGTGKTTLARIIAGATD 61
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 35.2 bits (82), Expect = 0.026
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGE 177
GI +G LLYGPPG GK+ A+A E
Sbjct: 161 GIEPPKGVLLYGPPGTGKTLLAKAVAHE 188
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 204
Score = 34.4 bits (80), Expect = 0.026
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GKSS ++AL GELE
Sbjct: 38 GPVGSGKSSLLSALLGELE 56
>gnl|CDD|213222 cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the
transporters involved in export of lipoprotein and
macrolide, and cell division protein. This family is
comprised of MJ0796 ATP-binding cassette,
macrolide-specific ABC-type efflux carrier (MacAB), and
proteins involved in cell division (FtsE), and release
of lipoproteins from the cytoplasmic membrane (LolCDE).
They are clustered together phylogenetically. MacAB is
an exporter that confers resistance to macrolides, while
the LolCDE system is not a transporter at all. An FtsE
null mutants showed filamentous growth and appeared
viable on high salt medium only, indicating a role for
FtsE in cell division and/or salt transport. The LolCDE
complex catalyzes the release of lipoproteins from the
cytoplasmic membrane prior to their targeting to the
outer membrane.
Length = 218
Score = 34.4 bits (80), Expect = 0.026
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 8/52 (15%)
Query: 157 YLLYGPPGCGKS---SFITAL----AGELEF-GICVLNLSERGLTDDRLNHL 200
+ GP G GKS + + L +GE+ G + LSE+ L R H+
Sbjct: 33 VAIVGPSGSGKSTLLNILGGLDRPTSGEVRVDGTDISKLSEKELAAFRRRHI 84
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 34.9 bits (81), Expect = 0.030
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 159 LYGPPGCGKSSFITALAGEL 178
L+GPPG GK++ +AG
Sbjct: 53 LWGPPGTGKTTLARLIAGTT 72
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). Ras-like
GTPase superfamily. The Ras-like superfamily of small
GTPases consists of several families with an extremely
high degree of structural and functional similarity. The
Ras superfamily is divided into at least four families
in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.
This superfamily also includes proteins like the GTP
translation factors, Era-like GTPases, and G-alpha chain
of the heterotrimeric G proteins. Members of the Ras
superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression, the
Rho family regulates cytoskeletal reorganization and
gene expression, the Rab and Sar1/Arf families regulate
vesicle trafficking, and the Ran family regulates
nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family
regulates initiation, elongation, termination, and
release in translation, and the Era-like GTPase family
regulates cell division, sporulation, and DNA
replication. Members of the Ras superfamily are
identified by the GTP binding site, which is made up of
five characteristic sequence motifs, and the switch I
and switch II regions.
Length = 161
Score = 34.0 bits (78), Expect = 0.033
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 158 LLYGPPGCGKSSFITALAGE 177
++ G G GKSS + AL G
Sbjct: 1 VVVGRGGVGKSSLLNALLGG 20
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 34.6 bits (80), Expect = 0.034
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 155 RGYLLYGPPGCGKSSFITALAGEL-EFGICVL 185
G LL+G G GK+ +A EL E G+ V+
Sbjct: 115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVI 146
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 34.5 bits (80), Expect = 0.036
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 142 DPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGE 177
+P + + GI +G LLYGPPG GK+ A+A +
Sbjct: 173 NPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ 208
>gnl|CDD|218528 pfam05272, VirE, Virulence-associated protein E. This family
contains several bacterial virulence-associated protein
E like proteins. These proteins contain a P-loop motif.
Length = 198
Score = 33.9 bits (78), Expect = 0.038
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 159 LYGPPGCGKSSFITALAGE 177
L G G GKS+F+ L GE
Sbjct: 57 LQGAQGSGKSTFLKKLGGE 75
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 34.8 bits (81), Expect = 0.040
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 154 RRGYLLYGPPGCGKSSFITALA 175
G L+ G PG GKS+F ALA
Sbjct: 257 AEGILIAGAPGAGKSTFAQALA 278
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is one
of the Kai proteins among which direct protein-protein
association may be a critical process in the generation
of circadian rhythms in cyanobacteria.
Length = 231
Score = 34.1 bits (79), Expect = 0.042
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSF 170
L GIP R L+ G PG GK+ F
Sbjct: 12 LKGGIPRGRVVLITGGPGTGKTIF 35
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a wide
variety of presumed DNA repair proteins.
Length = 154
Score = 33.4 bits (77), Expect = 0.048
Identities = 13/44 (29%), Positives = 18/44 (40%)
Query: 135 DIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
D+ W + +P LL G PG GKS+ LA +
Sbjct: 14 DLDAPPPPLRWLVKGLLPRGGLTLLAGAPGTGKSTLALDLAAAV 57
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 34.2 bits (79), Expect = 0.048
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
L+ GPPG GK++ + ALA EL
Sbjct: 40 LVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 34.2 bits (78), Expect = 0.051
Identities = 25/92 (27%), Positives = 48/92 (52%), Gaps = 7/92 (7%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE---FGICVLNLSE 189
+ ++ +++ +P+ + G +G L+ GPPG GK+ A+AGE + F I + E
Sbjct: 164 VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE 223
Query: 190 R--GLTDDRLNHLLSVAPQNS--IILLEDIDA 217
G+ R+ + A + + II +++IDA
Sbjct: 224 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA 255
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 34.2 bits (79), Expect = 0.051
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 12/86 (13%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGE-------LEFGICVLNLSERGLTDDRLNHLLS 202
G+P RG LL G G GKS A+A + L+ G L G ++ R+ ++
Sbjct: 255 GLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVG--KLFGGIVGESESRMRQMIR 312
Query: 203 VAPQNS--IILLEDIDAAFVTREESS 226
+A S I+ +++ID AF + ES
Sbjct: 313 IAEALSPCILWIDEIDKAF-SNSESK 337
>gnl|CDD|222912 PHA02624, PHA02624, large T antigen; Provisional.
Length = 647
Score = 34.2 bits (79), Expect = 0.056
Identities = 27/99 (27%), Positives = 42/99 (42%), Gaps = 24/99 (24%)
Query: 135 DIKQFVADPAWY-----------------LDRGIPYRRGYLLYGPPGCGKSSFITALAGE 177
DI Q++A AW + +P RR +L GP GK++ AL
Sbjct: 395 DILQYMAGVAWLHCLLPNFDDVIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAAL--- 451
Query: 178 LEF-GICVLNLSERGLTDDRLNHLLSVAPQNSIILLEDI 215
L+ G LN++ D+LN L A +++ ED+
Sbjct: 452 LDLCGGKSLNVN---CPPDKLNFELGCAIDQFMVVFEDV 487
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 34.0 bits (78), Expect = 0.056
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALA 175
L G+P L+ GPPG GK+ F
Sbjct: 16 LGGGLPRGSVVLITGPPGTGKTIFALQFL 44
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 34.0 bits (79), Expect = 0.059
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 12/48 (25%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKS----SFITALAG 176
L+ +K F+ +GIP + ++YGPP GKS S I L G
Sbjct: 249 LSALKDFL--------KGIPKKNCLVIYGPPDTGKSMFCMSLIKFLGG 288
>gnl|CDD|226929 COG4559, COG4559, ABC-type hemin transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 33.5 bits (77), Expect = 0.070
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 159 LYGPPGCGKSSFITALAGELEFGICVLNLSERGLTD----DRLNHLLSVAPQNS 208
+ GP G GKS+ + AL+GEL + L+ L + H +V PQNS
Sbjct: 32 ILGPNGAGKSTLLKALSGELSPDSGEVTLNGVPLNSWPPEELARH-RAVLPQNS 84
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 33.6 bits (77), Expect = 0.078
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 7/76 (9%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELEFGICVLNLSER-----GLTDDRLNHLLSVAPQNS- 208
+ L YGPPG GK+ ALA E + + ++ +E G R++ L A + +
Sbjct: 152 KNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAP 211
Query: 209 -IILLEDIDAAFVTRE 223
I+ ++++DA + R
Sbjct: 212 CIVFIDELDAIALDRR 227
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 32.6 bits (74), Expect = 0.081
Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 6/51 (11%)
Query: 130 DRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEF 180
+ L + + LL GP G GK+S + L L
Sbjct: 6 EEELERLLDALRRAR------SGGPPSVLLTGPSGTGKTSLLRELLEGLLV 50
>gnl|CDD|115108 pfam06431, Polyoma_lg_T_C, Polyomavirus large T antigen C-terminus.
Length = 417
Score = 33.4 bits (76), Expect = 0.089
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITALAGELEF-GICVLNLSERGLTDDRLNHLLSVAPQNSI 209
IP +R +L GP GK++ AL L+ G LN++ L +RLN L VA +
Sbjct: 152 IPKKRYWLFKGPIDSGKTTLAAAL---LDLCGGKALNVN---LPLERLNFELGVAIDQFM 205
Query: 210 ILLEDIDAAFVTREE--SSQGLEDID 233
++ ED+ + S G+ ++D
Sbjct: 206 VVFEDVKGTGAESRDLPSGHGINNLD 231
>gnl|CDD|223544 COG0468, RecA, RecA/RadA recombinase [DNA replication,
recombination, and repair].
Length = 279
Score = 33.0 bits (76), Expect = 0.11
Identities = 28/108 (25%), Positives = 38/108 (35%), Gaps = 13/108 (12%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALAGE--LEFGICVLNLSERGLT--------DDR 196
L G+P R +YGP GK++ L G +E L D
Sbjct: 53 LGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVDL 112
Query: 197 LNHLLSVAPQNSIILLEDIDAAFVTREESSQGLEDID--AAFVTREES 242
L++LL P LE + + E L +D AA V EE
Sbjct: 113 LDNLLVSQPDTGEQQLEIAEKLARSGAEKI-DLLVVDSVAALVRAEEI 159
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 32.3 bits (74), Expect = 0.11
Identities = 25/88 (28%), Positives = 33/88 (37%), Gaps = 27/88 (30%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNL-------------------SERGLTDDRLN 198
L+ G PG GKS+F L EL G VL+ G RL
Sbjct: 3 LMVGLPGSGKSTFARRLLREL--GAVVLSSDTLRKRLRGDGPPDISYYARASGRVYQRLL 60
Query: 199 HLLSVAPQN--SIILLEDIDAAFVTREE 224
L A + +I +DA ++REE
Sbjct: 61 ELAREALRAGRPVI----VDATNLSREE 84
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA ternary
complex to the ribosomal A site by facilitated release
of the deacylated tRNA from the E site. The reaction
requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions.
Length = 144
Score = 32.0 bits (74), Expect = 0.11
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITALAGELE 179
I L G G GKS+ + +AGELE
Sbjct: 23 INPGDRIGLVGRNGAGKSTLLKLIAGELE 51
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 33.1 bits (76), Expect = 0.12
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 155 RGYLLYGPPGCGKSSFITALA 175
G L+ G PG GKS+F ALA
Sbjct: 264 EGILIAGAPGAGKSTFAQALA 284
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 33.0 bits (76), Expect = 0.13
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 159 LYGPPGCGKSSFITALAGELEFG---ICVLNLSERGLTDDRLNHLLSVAPQNSIIL 211
L G G GKS+ + L G L I V + R L+ + +S QN +
Sbjct: 352 LVGASGAGKSTLLNLLLGFLAPTQGEIRVNGIDLRDLSPEAWRKQISWVSQNPYLF 407
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).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 = 637
Score = 33.0 bits (75), Expect = 0.14
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
L+ GP GCGKS+ I L+ EL
Sbjct: 114 LITGPSGCGKSTTIKILSKEL 134
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 32.6 bits (75), Expect = 0.17
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 157 YLLYGPPGCGKSSFITALAGELE 179
Y L G GCGKS+F+ L G+LE
Sbjct: 30 YGLIGANGCGKSTFMKILGGDLE 52
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 32.4 bits (74), Expect = 0.19
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
+L GPPG GK++ I ALA EL
Sbjct: 38 ILSGPPGTGKTTSILALAHEL 58
>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal.
Miro1 subfamily. Miro (mitochondrial Rho) proteins have
tandem GTP-binding domains separated by a linker region
containing putative calcium-binding EF hand motifs.
Genes encoding Miro-like proteins were found in several
eukaryotic organisms. This CD represents the N-terminal
GTPase domain of Miro proteins. These atypical Rho
GTPases have roles in mitochondrial homeostasis and
apoptosis. Most Rho proteins contain a lipid
modification site at the C-terminus; however, Miro is
one of few Rho subfamilies that lack this feature.
Length = 168
Score = 31.5 bits (72), Expect = 0.21
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 158 LLYGPPGCGKSSFITALAGE 177
+L G G GKSS I +L E
Sbjct: 6 VLIGDEGVGKSSLIMSLVSE 25
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic).
Length = 166
Score = 31.4 bits (72), Expect = 0.21
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 158 LLYGPPGCGKSSFITALAG 176
L+ GP G GKSS ALAG
Sbjct: 31 LITGPSGTGKSSLFRALAG 49
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 32.3 bits (74), Expect = 0.22
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 158 LLYGPPGCGKSSFITALAG 176
L+ G G GK+S + ALAG
Sbjct: 423 LITGESGAGKTSLLRALAG 441
>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815). This
family consists of several bacterial proteins of unknown
function.
Length = 248
Score = 31.7 bits (73), Expect = 0.25
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
LL+G G GKSS + AL E
Sbjct: 57 LLWGARGTGKSSLVKALLNEY 77
>gnl|CDD|226420 COG3905, COG3905, Predicted transcriptional regulator
[Transcription].
Length = 83
Score = 30.1 bits (68), Expect = 0.27
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 193 TDDRLNHLLSVAPQNSIILLEDIDAAFVTREESSQ-----GLEDIDAA-FVTREESS 243
RL+ L ++ + E A FV REE GL D +A FVT EE
Sbjct: 13 LKRRLDELAEATDRSRSYIAEQAIADFVDREEWQLAAIKAGLADAEAGRFVTHEEVI 69
>gnl|CDD|172762 PRK14274, PRK14274, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 259
Score = 31.8 bits (72), Expect = 0.27
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 8/38 (21%)
Query: 145 WY--------LDRGIPYRRGYLLYGPPGCGKSSFITAL 174
WY ++ IP + GP GCGKS+FI L
Sbjct: 21 WYGQHHALKNINLSIPENEVTAIIGPSGCGKSTFIKTL 58
>gnl|CDD|188098 TIGR00957, MRP_assoc_pro, multi drug resistance-associated protein
(MRP). This model describes multi drug
resistance-associated protein (MRP) in eukaryotes. The
multidrug resistance-associated protein is an integral
membrane protein that causes multidrug resistance when
overexpressed in mammalian cells. It belongs to ABC
transporter superfamily. The protein topology and
function was experimentally demonstrated by epitope
tagging and immunofluorescence. Insertion of tags in the
critical regions associated with drug efflux, abrogated
its function. The C-terminal domain seem to highly
conserved [Transport and binding proteins, Other].
Length = 1522
Score = 32.2 bits (73), Expect = 0.29
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 161 GPPGCGKSSFITALAGELE 179
G GCGKSS ++AL E++
Sbjct: 671 GQVGCGKSSLLSALLAEMD 689
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 31.5 bits (71), Expect = 0.30
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
++ G G GK++ + L G+
Sbjct: 9 VVLGDGGVGKTTLLNRLVGDE 29
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 31.8 bits (73), Expect = 0.32
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 12/48 (25%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKS----SFITALAG 176
LT +K F+ +GIP + ++YGPP GKS S I L G
Sbjct: 421 LTALKDFL--------KGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKG 460
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 31.2 bits (71), Expect = 0.34
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 153 YRRGYLLYGPPGCGKSSFITALAGEL--EFGICV 184
RR +L GP G GKS AL E +FG V
Sbjct: 1 QRRPIVLSGPSGVGKSHIKKALLDEYPEKFGYSV 34
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 31.5 bits (71), Expect = 0.36
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 128 VADRILTDIKQFVADPAWYLDRGIPYRRGYLLY--GPPGCGKSSFITALAGEL 178
+ + + ++ W + + +L GP GCGKS+ + L+ EL
Sbjct: 23 IHKKKIAEVDH------WLKAVFLESNKQLILLLTGPSGCGKSTTVKVLSKEL 69
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 31.1 bits (71), Expect = 0.37
Identities = 10/19 (52%), Positives = 10/19 (52%)
Query: 157 YLLYGPPGCGKSSFITALA 175
YL GP G GK ALA
Sbjct: 17 YLFAGPEGVGKELLALALA 35
>gnl|CDD|172730 PRK14242, PRK14242, phosphate transporter ATP-binding protein;
Provisional.
Length = 253
Score = 31.3 bits (71), Expect = 0.38
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 20/66 (30%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSII 210
+ L GP GCGKS+F+ L +R+N L+ A I
Sbjct: 29 FEQNQVTALIGPSGCGKSTFLRCL--------------------NRMNDLIPGARVEGEI 68
Query: 211 LLEDID 216
LL+ +
Sbjct: 69 LLDGEN 74
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 31.7 bits (72), Expect = 0.38
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELE 179
R LL GPP GK++ + ALAG+L+
Sbjct: 192 RMTLLLGPPSSGKTTLLLALAGKLD 216
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 31.5 bits (72), Expect = 0.39
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 159 LYGPPGCGKSSFITALAGELE 179
L GP GCGK++ + + G+L+
Sbjct: 350 LIGPNGCGKTTLLKLMLGQLQ 370
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 31.5 bits (72), Expect = 0.40
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 152 PYRRGYLLYGPPGCGKSSFITALAGEL 178
R ++L G PG GKS+ + + E
Sbjct: 28 GANRIFILKGGPGTGKSTLMKKIGEEF 54
Score = 28.4 bits (64), Expect = 3.4
Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 9/41 (21%)
Query: 153 YRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLT 193
+ Y L G PG GKS+ + +A E ERG
Sbjct: 213 VKNRYFLKGRPGTGKSTMLKKIAKAAE---------ERGFD 244
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 157
Score = 30.7 bits (70), Expect = 0.41
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GKS+ + A+AG L+
Sbjct: 32 GPNGSGKSTLLRAIAGLLK 50
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 31.5 bits (72), Expect = 0.42
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 6/46 (13%)
Query: 53 FMELIDSLSTN----PYFG--AGFGLFGLGAGAAILRKARTLALKQ 92
F +ID++S P AGFGLF + AG + R A LA ++
Sbjct: 42 FGRIIDAISGKGDIFPLLAAWAGFGLFNIIAGVLVARHADRLAHRR 87
Score = 28.0 bits (63), Expect = 6.1
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 3 FMELIDSLSTN----PYFG--AGFGLFGLGAGAAILR 33
F +ID++S P AGFGLF + AG + R
Sbjct: 42 FGRIIDAISGKGDIFPLLAAWAGFGLFNIIAGVLVAR 78
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and repair].
Length = 226
Score = 30.6 bits (70), Expect = 0.47
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 159 LYGPPGCGKSSFITAL---AGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSIILLEDI 215
L+G G GKS + A A E L L+E D +L Q ++ L+D+
Sbjct: 43 LWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQADP---EVLEGLEQADLVCLDDV 99
Query: 216 DA 217
+A
Sbjct: 100 EA 101
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 30.1 bits (68), Expect = 0.50
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNH 199
L+ G PG GK++ LA L + E GL +
Sbjct: 2 LITGTPGSGKTTLAKELAERLGD-VLRDLAKENGLVLELDEE 42
>gnl|CDD|213180 cd03213, ABCG_EPDR, Eye pigment and drug resistance transporter
subfamily G of the ATP-binding cassette superfamily.
ABCG transporters are involved in eye pigment (EP)
precursor transport, regulation of lipid-trafficking
mechanisms, and pleiotropic drug resistance (DR). DR is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. Compared to other members of the
ABC transporter subfamilies, the ABCG transporter family
is composed of proteins that have an ATP-binding
cassette domain at the N-terminus and a TM
(transmembrane) domain at the C-terminus.
Length = 194
Score = 30.6 bits (70), Expect = 0.51
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GKS+ + ALAG
Sbjct: 42 GPSGAGKSTLLNALAGRRT 60
>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase. The full-length
GTPase protein is required for the complete activity of
the protein of interacting with the 50S ribosome and
binding of both adenine and guanine nucleotides, with a
preference for guanine nucleotide.
Length = 117
Score = 29.6 bits (67), Expect = 0.52
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 159 LYGPPGCGKSSFITALAGE 177
L G P GKS+ I AL G
Sbjct: 4 LVGRPNVGKSTLINALTGA 22
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 30.9 bits (71), Expect = 0.54
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GK++F LAG L+
Sbjct: 372 GPNGIGKTTFAKLLAGVLK 390
>gnl|CDD|215612 PLN03169, PLN03169, chalcone synthase family protein; Provisional.
Length = 391
Score = 30.8 bits (70), Expect = 0.54
Identities = 16/43 (37%), Positives = 17/43 (39%), Gaps = 9/43 (20%)
Query: 14 PYFGAGFGLFGLGAGAAILRKGKFRPGRESLPPPNVSMPFMEL 56
PY G LFG GA A I+ P P PF EL
Sbjct: 210 PYDLVGAALFGDGAAAVIIGAD---------PIPVSESPFFEL 243
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 30.8 bits (70), Expect = 0.57
Identities = 11/32 (34%), Positives = 14/32 (43%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
L +L GPPG GK+ A+ EL
Sbjct: 98 LVEFFERGENLVLLGPPGVGKTHLAIAIGNEL 129
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 29.9 bits (68), Expect = 0.64
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 159 LYGPPGCGKSSFITALAGE 177
++G P GKSS + AL G+
Sbjct: 2 IFGRPNVGKSSLLNALLGQ 20
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyzes the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalyzed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family contains the
N-terminal region of the protein.
Length = 231
Score = 30.1 bits (69), Expect = 0.71
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGI 182
LLYGPPG GK++ +A E+ I
Sbjct: 54 LLYGPPGLGKTTLANIIANEMGVNI 78
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 30.0 bits (68), Expect = 0.78
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 161 GPPGCGKSSFITAL 174
GPPG GKS+ I +L
Sbjct: 46 GPPGVGKSTLIRSL 59
>gnl|CDD|213206 cd03239, ABC_SMC_head, The SMC head domain belongs to the
ATP-binding cassette superfamily. The structural
maintenance of chromosomes (SMC) proteins are essential
for successful chromosome transmission during
replication and segregation of the genome in all
organisms. SMCs are generally present as single proteins
in bacteria, and as at least six distinct proteins in
eukaryotes. The proteins range in size from
approximately 110 to 170 kDa, and each has five distinct
domains: amino- and carboxy-terminal globular domains,
which contain sequences characteristic of ATPases, two
coiled-coil regions separating the terminal domains ,
and a central flexible hinge. SMC proteins function
together with other proteins in a range of chromosomal
transactions, including chromosome condensation,
sister-chromatid cohesion, recombination, DNA repair,
and epigenetic silencing of gene expression.
Length = 178
Score = 30.0 bits (68), Expect = 0.80
Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 8/81 (9%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSI---ILLEDIDA 217
GP G GKS+ + A+ F + R + L A NS I +
Sbjct: 29 GPNGSGKSNIVDAIC----FVLGGKAAKLRRGSLLFLAGGGVKAGINSASVEITFDKS-Y 83
Query: 218 AFVTREESSQGLEDIDAAFVT 238
V + + Q L + +
Sbjct: 84 FLVLQGKVEQILSGGEKSLSA 104
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 30.2 bits (68), Expect = 0.81
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 158 LLYGPPGCGKSSFITAL 174
L+YGP G GK++ + A+
Sbjct: 23 LIYGPNGSGKTTILDAI 39
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 30.3 bits (69), Expect = 0.83
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGI 182
LLYGPPG GK++ +A E+ +
Sbjct: 34 LLYGPPGLGKTTLAHIIANEMGVNL 58
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 29.6 bits (67), Expect = 1.00
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 157 YLLYGPPGCGKSSFITALAG 176
L+YGPPG GK+S L
Sbjct: 6 VLIYGPPGIGKTSLAKTLPP 25
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds including
sugars, ions, peptides, and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 202
Score = 29.5 bits (67), Expect = 1.1
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
L+ G PG G S+ + ALA E
Sbjct: 37 LVLGRPGSGCSTLLKALANRTE 58
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 29.8 bits (68), Expect = 1.1
Identities = 19/41 (46%), Positives = 22/41 (53%), Gaps = 8/41 (19%)
Query: 158 LLYGPPGCGKSSFITALAGELEFG------ICVLNLS-ERG 191
L GPPG GK++ ALA EL +G LN S ERG
Sbjct: 42 LFAGPPGTGKTTAALALAREL-YGEDWRENFLELNASDERG 81
>gnl|CDD|172756 PRK14268, PRK14268, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 258
Score = 30.0 bits (67), Expect = 1.1
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 16/58 (27%)
Query: 133 LTDIKQFVADPA--------WYLDR--------GIPYRRGYLLYGPPGCGKSSFITAL 174
+T+ Q VA P WY ++ IP L GP GCGKS+FI L
Sbjct: 1 MTEGVQNVAQPQIKVENLNLWYGEKQALKNVSMQIPKNSVTALIGPSGCGKSTFIRCL 58
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 29.5 bits (67), Expect = 1.1
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 157 YLLYGPPGCGKSSFITALAG 176
LL GP G GKS+ + L G
Sbjct: 33 VLLIGPNGSGKSTLLKLLNG 52
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 29.8 bits (68), Expect = 1.2
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 138 QFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNL 187
+FV D L+ +L G G GK+ + ALA G VL+L
Sbjct: 128 RFVID---TLEEAPAQFPLVVLGGNTGSGKTELLQALA---NAGAQVLDL 171
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 29.6 bits (67), Expect = 1.3
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELEFGI--CVLNLSE 189
R L+ GPPG GK++ A++ EL C ++ SE
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSE 87
>gnl|CDD|172741 PRK14253, PRK14253, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 249
Score = 29.4 bits (66), Expect = 1.4
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITAL 174
IP R+ L GP GCGKS+ + L
Sbjct: 26 IPARQVTALIGPSGCGKSTLLRCL 49
>gnl|CDD|184584 PRK14238, PRK14238, phosphate transporter ATP-binding protein;
Provisional.
Length = 271
Score = 29.4 bits (66), Expect = 1.4
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 161 GPPGCGKSSFITAL 174
GP GCGKS++I L
Sbjct: 57 GPSGCGKSTYIKTL 70
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.1 bits (66), Expect = 1.5
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 157 YLLYGPPGCGKSSFITALA 175
++ G P GK++ + ALA
Sbjct: 2 IVITGGPSTGKTTLLEALA 20
>gnl|CDD|237649 PRK14254, PRK14254, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 285
Score = 29.4 bits (66), Expect = 1.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 151 IPYRRGYLLYGPPGCGKSSFI 171
IP + + GP GCGKS+F+
Sbjct: 62 IPENQVTAMIGPSGCGKSTFL 82
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 29.3 bits (65), Expect = 1.5
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNLSERG 191
++ GP G GKS+ + ALA L L L
Sbjct: 3 VIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGL 36
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 29.3 bits (66), Expect = 1.5
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GK++FI LAG L+
Sbjct: 32 GPNGIGKTTFIKMLAGVLK 50
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 29.2 bits (66), Expect = 1.6
Identities = 15/75 (20%), Positives = 23/75 (30%), Gaps = 12/75 (16%)
Query: 157 YLLYGPPGCGKSSFITALAGELEF----GICVLNLSERGLT-------DDRL-NHLLSVA 204
++YGP CGK++ + EL I L RL L
Sbjct: 23 IVVYGPRRCGKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAKRLAEALGDAL 82
Query: 205 PQNSIILLEDIDAAF 219
P+ I + +
Sbjct: 83 PKIGIAKSKLAFLSL 97
>gnl|CDD|237651 PRK14266, PRK14266, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 250
Score = 29.1 bits (65), Expect = 1.6
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 20/58 (34%)
Query: 159 LYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSIILLEDID 216
L GP GCGKS+FI L +R+N L+ I L+ +D
Sbjct: 34 LIGPSGCGKSTFIRTL--------------------NRMNDLIPGFRHEGHIYLDGVD 71
>gnl|CDD|219856 pfam08477, Miro, Miro-like protein. Mitochondrial Rho proteins
(Miro-1, and Miro-2), are atypical Rho GTPases. They
have a unique domain organisation, with tandem
GTP-binding domains and two EF hand domains (pfam00036),
that may bind calcium. They are also larger than
classical small GTPases. It has been proposed that they
are involved in mitochondrial homeostasis and apoptosis.
Length = 116
Score = 28.1 bits (63), Expect = 1.7
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 161 GPPGCGKSSFITALAGE 177
G G GKSS ++ L G
Sbjct: 6 GDKGSGKSSLLSQLVGG 22
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 29.2 bits (66), Expect = 1.7
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 157 YLLYGPPGCGKSSFITALAGELE 179
+ L GP G GK++ + LAG L+
Sbjct: 34 FGLLGPNGAGKTTLLKILAGLLK 56
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 27.1 bits (61), Expect = 1.7
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 154 RRGYLLYGPPGCGKSSFITALA 175
+G LL GP G GKS+ I A+
Sbjct: 21 PKGTLLTGPSGSGKSTLIDAIQ 42
>gnl|CDD|237646 PRK14237, PRK14237, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 29.3 bits (66), Expect = 1.8
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 20/58 (34%)
Query: 159 LYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSIILLEDID 216
L GP G GKS+++ +L +R+N + +A IL ID
Sbjct: 51 LIGPSGSGKSTYLRSL--------------------NRMNDTIDIARVTGQILYRGID 88
>gnl|CDD|226622 COG4138, BtuD, ABC-type cobalamin transport system, ATPase
component [Coenzyme metabolism].
Length = 248
Score = 29.0 bits (65), Expect = 1.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 159 LYGPPGCGKSSFITALAGELEF 180
L GP G GKS+ + +AG
Sbjct: 30 LVGPNGAGKSTLLARMAGMTSG 51
>gnl|CDD|172749 PRK14261, PRK14261, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 29.0 bits (65), Expect = 1.9
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 145 WY--------LDRGIPYRRGYLLYGPPGCGKSSFI 171
WY + IP R L GP GCGKS+ +
Sbjct: 15 WYGEKHALYDITISIPKNRVTALIGPSGCGKSTLL 49
>gnl|CDD|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated.
Length = 314
Score = 29.1 bits (66), Expect = 1.9
Identities = 18/56 (32%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 156 GYLLYGPPGCGKS----SFITALAGELEFGICVLNLSERGLTDDRLNH--LLSVAP 205
YL GP G G+ FI L + G N+ R NH LL V P
Sbjct: 28 AYLFAGPEGVGRKLAALCFIEGLLSQ---GSPSKNIRRRLE---EGNHPDLLWVEP 77
>gnl|CDD|239388 cd03114, ArgK-like, The function of this protein family is unkown.
The protein sequences are similar to the ArgK protein in
E. coli. ArgK protein is a membrane ATPase which is
required for transporting arginine, ornithine and lysine
into the cells by the arginine and ornithine (AO system)
and lysine, arginine and ornithine (LAO) transport
systems.
Length = 148
Score = 28.4 bits (64), Expect = 1.9
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 159 LYGPPGCGKSSFITALAGEL 178
+ G PG GKS+ I AL L
Sbjct: 4 ITGVPGAGKSTLIDALITAL 23
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 28.0 bits (63), Expect = 2.0
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 153 YRRGYLLYGPPGCGKSSFITALAGELE 179
+L G G GK++ + LA +L
Sbjct: 3 GAGIGVLTGESGSGKTTLLRRLARQLP 29
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 29.3 bits (65), Expect = 2.0
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 13/71 (18%)
Query: 161 GPPGCGKSSFITALA--------GELEFGICVLNLSERGLT----DDRLNHLLSVAPQNS 208
GPPG GKS+ I +L E+ I V++ R +T L+ ++ VA
Sbjct: 76 GPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRITFLECPSDLHQMIDVAKIAD 135
Query: 209 IILLEDIDAAF 219
++LL ID F
Sbjct: 136 LVLLL-IDGNF 145
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling inter-
mediates into the (bacterio)chlorophyll branch in
response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 28.6 bits (65), Expect = 2.0
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
L+ GPPG GK+ L G L
Sbjct: 26 LMIGPPGSGKTMLAKRLPGIL 46
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain I
of the ABC component of a cobalt transport family found
in bacteria, archaea, and eukaryota. The transition
metal cobalt is an essential component of many enzymes
and must be transported into cells in appropriate
amounts when needed. This ABC transport system of the
CbiMNQO family is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most of cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 211
Score = 29.0 bits (66), Expect = 2.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
L+ GP G GKS+ + L G L
Sbjct: 31 LIVGPNGSGKSTLLRLLNGLLG 52
>gnl|CDD|213257 cd03290, ABCC_SUR1_N, ATP-binding cassette domain of the
sulfonylurea receptor, subfamily C. The SUR domain 1.
The sulfonylurea receptor SUR is an ATP transporter of
the ABCC/MRP family with tandem ATPase binding domains.
Unlike other ABC proteins, it has no intrinsic transport
function, neither active nor passive, but associates
with the potassium channel proteins Kir6.1 or Kir6.2 to
form the ATP-sensitive potassium (K(ATP)) channel.
Within the channel complex, SUR serves as a regulatory
subunit that fine-tunes the gating of Kir6.x in response
to alterations in cellular metabolism. It constitutes a
major pharmaceutical target as it binds numerous drugs,
K(ATP) channel openers and blockers, capable of up- or
down-regulating channel activity.
Length = 218
Score = 28.8 bits (64), Expect = 2.1
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITALAGELE 179
IP + ++ G GCGKSS + A+ GE++
Sbjct: 24 IPTGQLTMIVGQVGCGKSSLLLAILGEMQ 52
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 28.9 bits (65), Expect = 2.1
Identities = 19/65 (29%), Positives = 22/65 (33%), Gaps = 15/65 (23%)
Query: 115 RRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITAL 174
R VV D V + L A + LL GPPG GK+ AL
Sbjct: 19 RSELEKVVVGDEEVIELALL---------ALLAGGHV------LLEGPPGVGKTLLARAL 63
Query: 175 AGELE 179
A L
Sbjct: 64 ARALG 68
>gnl|CDD|184586 PRK14240, PRK14240, phosphate transporter ATP-binding protein;
Provisional.
Length = 250
Score = 28.9 bits (65), Expect = 2.2
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+F+ L
Sbjct: 34 LIGPSGCGKSTFLRTL 49
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette transport
system involved in resistant to organic solvents. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 235
Score = 28.6 bits (65), Expect = 2.3
Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 8/46 (17%)
Query: 161 GPPGCGKSSFITALAGELE--------FGICVLNLSERGLTDDRLN 198
GP G GKS+ + + G L G + LSE L R
Sbjct: 33 GPSGSGKSTLLRLIVGLLRPDSGEVLIDGEDISGLSEAELYRLRRR 78
>gnl|CDD|220642 pfam10236, DAP3, Mitochondrial ribosomal death-associated protein
3. This is a family of conserved proteins which were
originally described as death-associated-protein-3
(DAP-3). The proteins carry a P-loop DNA-binding motif,
and induce apoptosis. DAP3 has been shown to be a
pro-apoptotic factor in the mitochondrial matrix and to
be crucial for mitochondrial biogenesis and so has also
been designated as MRP-S29 (mitochondrial ribosomal
protein subunit 29).
Length = 274
Score = 28.8 bits (65), Expect = 2.3
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 157 YLLYGPPGCGKS-SFITALAGELEFGICVLNLSE 189
++L G G GKS A+A G VL++ E
Sbjct: 26 FVLTGERGSGKSVLLAQAMAYAFTQGWIVLHVPE 59
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 28.9 bits (65), Expect = 2.3
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 3/61 (4%)
Query: 158 LLYGPPGCGKSSFITALAGELE---FGICVLNLSERGLTDDRLNHLLSVAPQNSIILLED 214
+ GP G GKS+ I L + I + + R ++ D L + + Q+ ++
Sbjct: 359 AIVGPSGSGKSTLIKLLLRLYDPTSGEILIDGIDIRDISLDSLRKRIGIVSQDPLLFSGT 418
Query: 215 I 215
I
Sbjct: 419 I 419
>gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal. Members
of this protein are L-seryl-tRNA(Sec) kinase. This
enzyme is part of a two-step pathway in Eukaryota and
Archaea for performing selenocysteine biosynthesis by
changing serine misacylated on selenocysteine-tRNA to
selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents archaeal proteins with
this activity [Protein synthesis, tRNA aminoacylation].
Length = 249
Score = 28.6 bits (64), Expect = 2.5
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 158 LLYGPPGCGKSSFITALAGEL 178
+L G PG GKS+F LA +L
Sbjct: 3 ILTGLPGVGKSTFSKELAKKL 23
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 28.9 bits (65), Expect = 2.6
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 157 YLLYGPPGCGKSSFITALAGEL 178
YLL+GP G GK + LA L
Sbjct: 25 YLLHGPAGIGKRALAERLAAAL 46
>gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can
interact with the adenoviral packaging signal and that
this interaction involves DNA sequences that have
previously been demonstrated to be required for
packaging. During the course of lytic infection, the
adenovirus major late promoter (MLP) is induced to high
levels after replication of viral DNA has started. IVa2
is a transcriptional activator of the major late
promoter.
Length = 370
Score = 28.9 bits (65), Expect = 2.6
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 158 LLYGPPGCGKSSFITAL 174
++YGP GCGKS + L
Sbjct: 91 VVYGPTGCGKSQLLRNL 107
>gnl|CDD|237422 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 258
Score = 28.6 bits (65), Expect = 2.6
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 159 LYGPPGCGKSSFITALAGELE 179
+ GP G GKS+ + AL+GEL
Sbjct: 33 ILGPNGAGKSTLLRALSGELS 53
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 28.9 bits (65), Expect = 2.8
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELEFGI--CVLNLSE 189
RG L+ GPPG GK++ +A EL + ++ SE
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSE 102
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 29.0 bits (65), Expect = 2.8
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 152 PYRRGYLLYGPPGCGKSS 169
P+ + +LYGPPG GK++
Sbjct: 173 PFPQHIILYGPPGVGKTT 190
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 28.0 bits (63), Expect = 2.8
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 158 LLYGPPGCGKSSFITALA 175
LL GPPG GKS LA
Sbjct: 3 LLVGPPGTGKSELAERLA 20
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 28.9 bits (65), Expect = 2.9
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 18/80 (22%)
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLN---HLLSVAPQNSIILL 212
YL GP G GK++ LA L E G T + + + I ++
Sbjct: 40 AYLFSGPRGVGKTTIARILAKAL--------NCENGPTAEPCGKCISCKEINEGSLIDVI 91
Query: 213 EDIDAAFVTREESSQGLEDI 232
E IDAA S+ G++DI
Sbjct: 92 E-IDAA------SNTGVDDI 104
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 28.6 bits (65), Expect = 2.9
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGI 182
LLYGPPG GK++ +A E+ I
Sbjct: 55 LLYGPPGLGKTTLANIIANEMGVNI 79
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 28.4 bits (64), Expect = 2.9
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 159 LYGPPGCGKSSFITALAGELEF 180
L G G GKS+ I AL EL
Sbjct: 169 LLGQSGVGKSTLINALLPELNQ 190
>gnl|CDD|184594 PRK14264, PRK14264, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 305
Score = 28.6 bits (64), Expect = 3.1
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITAL 174
IP + L GP GCGKS+F+ L
Sbjct: 68 IPEKSVTALIGPSGCGKSTFLRCL 91
>gnl|CDD|213260 cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of
the nitrate and sulfonate transporters. NrtD and SsuB
are the ATP-binding subunits of the bacterial ABC-type
nitrate and sulfonate transport systems, respectively.
ABC transporters are a large family of proteins involved
in the transport of a wide variety of different
compounds, like sugars, ions, peptides, and more complex
organic molecules. The nucleotide binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 220
Score = 28.2 bits (64), Expect = 3.1
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 161 GPPGCGKSSFITALAG 176
GP GCGKS+ + +AG
Sbjct: 37 GPSGCGKSTLLRIIAG 52
>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 = 28.8 bits (65), Expect = 3.1
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 159 LYGPPGCGKSSFITALAGELEFGICVLNL-SERG 191
++ G GKS+ + +A + V+ L ERG
Sbjct: 150 IFAGAGVGKSTLLGMIARGASADVNVIALIGERG 183
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 28.4 bits (64), Expect = 3.1
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 146 YLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
Y G + G + G PG GKS+ I AL EL
Sbjct: 45 YPRTGNAHVIG--ITGVPGAGKSTLIEALGREL 75
>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase. TrmE (MnmE,
ThdF, MSS1) is a 3-domain protein found in bacteria and
eukaryotes. It controls modification of the uridine at
the wobble position (U34) of tRNAs that read codons
ending with A or G in the mixed codon family boxes. TrmE
contains a GTPase domain that forms a canonical Ras-like
fold. It functions a molecular switch GTPase, and
apparently uses a conformational change associated with
GTP hydrolysis to promote the tRNA modification
reaction, in which the conserved cysteine in the
C-terminal domain is thought to function as a catalytic
residue. In bacteria that are able to survive in
extremely low pH conditions, TrmE regulates
glutamate-dependent acid resistance.
Length = 159
Score = 27.8 bits (63), Expect = 3.3
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 159 LYGPPGCGKSSFITALAGE 177
+ G P GKSS + ALAG
Sbjct: 8 IAGKPNVGKSSLLNALAGR 26
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase /
dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin that
induces shoot formation on host plants infected with the
Ti plasmid.
Length = 232
Score = 28.1 bits (63), Expect = 3.4
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 157 YLLYGPPGCGKSSFITALAGELEFGICVLN 186
YL++G GK++ ALA E + + VL+
Sbjct: 4 YLIWGATCTGKTAEAIALAKETGWPVIVLD 33
>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction
only].
Length = 322
Score = 28.5 bits (64), Expect = 3.5
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 144 AWYLDRGIPYRRGY-LLYGPPGCGKSSFITALAGE 177
+G+ R+ + G P GKS+ I L G+
Sbjct: 121 KRLKKKGLLKRKIRVGVVGYPNVGKSTLINRLLGK 155
>gnl|CDD|235281 PRK04328, PRK04328, hypothetical protein; Provisional.
Length = 249
Score = 28.1 bits (63), Expect = 3.5
Identities = 14/24 (58%), Positives = 14/24 (58%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSF 170
L GIP R LL G PG GKS F
Sbjct: 16 LYGGIPERNVVLLSGGPGTGKSIF 39
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 28.5 bits (64), Expect = 3.6
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
++ G PG G S+ + +A +
Sbjct: 91 VVLGRPGSGCSTLLKTIASNTD 112
>gnl|CDD|188099 TIGR00972, 3a0107s01c2, phosphate ABC transporter, ATP-binding
protein. This model represents the ATP-binding protein
of a family of ABC transporters for inorganic phosphate.
In the model species Escherichia coli, a constitutive
transporter for inorganic phosphate, with low affinity,
is also present. The high affinity transporter that
includes this polypeptide is induced when extracellular
phosphate concentrations are low. The proteins most
similar to the members of this family but not included
appear to be amino acid transporters [Transport and
binding proteins, Anions].
Length = 247
Score = 28.0 bits (63), Expect = 3.7
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+ + +L
Sbjct: 32 LIGPSGCGKSTLLRSL 47
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles in
homologous recombination, DNA repair, and the induction
of the SOS response. RecA couples ATP hydrolysis to DNA
strand exchange. While prokaryotes have a single RecA
protein, eukaryotes have multiple RecA homologs such as
Rad51, DMC1 and Rad55/57. Archaea have the RecA-like
homologs radA and radB.
Length = 226
Score = 27.9 bits (63), Expect = 3.9
Identities = 15/46 (32%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGL 192
L GIP R ++G G GK+ LA E L GL
Sbjct: 12 LGGGIPTGRITEIFGEFGSGKTQLCLQLAVE-----AQLPGELGGL 52
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 27.7 bits (62), Expect = 3.9
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSE 189
G PG GK++ L E G V+ L+E
Sbjct: 7 GTPGVGKTTVCKLLR---ELGYKVIELNE 32
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 28.2 bits (64), Expect = 4.0
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
+L G G GKS+ + ALA +LE
Sbjct: 168 VLAGQSGVGKSTLLNALAPDLE 189
>gnl|CDD|235150 PRK03695, PRK03695, vitamin B12-transporter ATPase; Provisional.
Length = 248
Score = 28.0 bits (63), Expect = 4.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 159 LYGPPGCGKSSFITALAGELEF 180
L GP G GKS+ + +AG L
Sbjct: 27 LVGPNGAGKSTLLARMAGLLPG 48
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase components
[Carbohydrate transport and metabolism].
Length = 338
Score = 28.0 bits (63), Expect = 4.2
Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 159 LYGPPGCGKSSFITALAGELE 179
L GP GCGKS+ + +AG LE
Sbjct: 34 LLGPSGCGKSTLLRMIAG-LE 53
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 28.4 bits (64), Expect = 4.3
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GK++F+ LAG ++
Sbjct: 374 GPNGIGKTTFVKLLAGVIK 392
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 26.2 bits (58), Expect = 4.3
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 161 GPPGCGKSSFITALAGEL-EFGICVLNLSERGLTDDRLNHLL 201
G PG GK++ A+ L G VL ++ G RL L
Sbjct: 17 GGPGTGKTATAAAIIARLLAAGRSVLVVAPTGRAARRLRERL 58
>gnl|CDD|184597 PRK14270, PRK14270, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 28.0 bits (62), Expect = 4.3
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+F+ L
Sbjct: 35 LIGPSGCGKSTFLRCL 50
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 27.5 bits (62), Expect = 4.3
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 161 GPPGCGKSSFITALAGELE 179
G G GKS+ + AL EL+
Sbjct: 42 GQSGVGKSTLLNALLPELD 60
>gnl|CDD|184593 PRK14258, PRK14258, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 261
Score = 28.1 bits (62), Expect = 4.4
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 10/53 (18%)
Query: 161 GPPGCGKSSFITAL--AGELEFGICV--------LNLSERGLTDDRLNHLLSV 203
GP GCGKS+F+ L ELE + V N+ ER + +RL +S+
Sbjct: 40 GPSGCGKSTFLKCLNRMNELESEVRVEGRVEFFNQNIYERRVNLNRLRRQVSM 92
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 27.9 bits (63), Expect = 4.4
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGI 182
LL+GPPG GK++ +A EL +
Sbjct: 56 LLFGPPGLGKTTLAHIIANELGVNL 80
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 27.9 bits (63), Expect = 4.5
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 161 GPPGCGKSSFITALA-------GELEF-GICVLNLSERGLTDDRLNHL 200
GP G GKS+ + L GE+ G + LSE+ L R +
Sbjct: 38 GPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKLRRKKI 85
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 28.0 bits (63), Expect = 4.6
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
+YG G GK++ + ELE
Sbjct: 44 FIYGKTGTGKTAVTKYVMKELE 65
>gnl|CDD|233206 TIGR00954, 3a01203, Peroxysomal Fatty Acyl CoA Transporter (FAT)
Family protei. [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 659
Score = 28.2 bits (63), Expect = 4.6
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 151 IPYRRGYLLYGPPGCGKSSFITALAG 176
+P L+ GP GCGKSS L
Sbjct: 475 VPSGNNLLICGPNGCGKSSLFRILGE 500
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 28.3 bits (63), Expect = 4.7
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GKS+ + ALAG ++
Sbjct: 101 GPSGSGKSTLLNALAGRIQ 119
>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 27.7 bits (62), Expect = 5.0
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 159 LYGPPGCGKSSFITALA-------GELEFGICVLNLSERGLTDDRLNHLLSVAPQ 206
L GP GCGKS+ + A G + G + L+ +L L++ PQ
Sbjct: 33 LIGPNGCGKSTLLKCFARLLTPQSGTVFLG----DKPISMLSSRQLARRLALLPQ 83
>gnl|CDD|181631 PRK09059, PRK09059, dihydroorotase; Validated.
Length = 429
Score = 28.1 bits (63), Expect = 5.1
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 7/35 (20%)
Query: 1 MPFMELIDSLSTNPYFGAGFGLFGLGAGAAILRKG 35
+P + LI++LST P +FGL AG L+ G
Sbjct: 350 VPLLRLIEALSTRPA-----EIFGLPAGT--LKPG 377
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 28.0 bits (63), Expect = 5.1
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 161 GPPGCGKSSFITALAGELE 179
G G GKS+ + LAGELE
Sbjct: 36 GRNGAGKSTLLKILAGELE 54
Score = 27.6 bits (62), Expect = 6.5
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 159 LYGPPGCGKSSFITALAGELE 179
+ GP G GKS+ + LAGEL
Sbjct: 353 IVGPNGAGKSTLLKLLAGELG 373
>gnl|CDD|213214 cd03247, ABCC_cytochrome_bd, ATP-binding cassette domain of CydCD,
subfamily C. The CYD subfamily implicated in cytochrome
bd biogenesis. The CydC and CydD proteins are important
for the formation of cytochrome bd terminal oxidase of
E. coli and it has been proposed that they were
necessary for biosynthesis of the cytochrome bd quinol
oxidase and for periplasmic c-type cytochromes. CydCD
were proposed to determine a heterooligomeric complex
important for heme export into the periplasm or to be
involved in the maintenance of the proper redox state of
the periplasmic space. In Bacillus subtilis, the absence
of CydCD does not affect the presence of halo-cytochrome
c in the membrane and this observation suggests that
CydCD proteins are not involved in the export of heme in
this organism.
Length = 178
Score = 27.3 bits (61), Expect = 5.2
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 159 LYGPPGCGKSSFITALAGELE--FGICVLNLSERGLTDDRLNHLLSVAPQ 206
L G G GKS+ + L G+L+ G L+ + L+ L+SV Q
Sbjct: 33 LLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSSLISVLNQ 82
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 27.2 bits (61), Expect = 5.5
Identities = 15/47 (31%), Positives = 17/47 (36%), Gaps = 4/47 (8%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVA 204
LL GPPG GK+ AL + C S L L A
Sbjct: 51 LLLGPPGVGKTHLACALGHQA----CRAGYSVLFTRTPDLVEQLKRA 93
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 28.1 bits (63), Expect = 5.5
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 157 YLLYGPPGCGKSSFI 171
YL+ GPPG GK++ +
Sbjct: 114 YLVIGPPGSGKTTLL 128
>gnl|CDD|184596 PRK14267, PRK14267, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 27.5 bits (61), Expect = 5.6
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALAGELEF 180
+D IP + L GP GCGKS+ + LE
Sbjct: 23 VDLKIPQNGVFALMGPSGCGKSTLLRTFNRLLEL 56
>gnl|CDD|224402 COG1485, COG1485, Predicted ATPase [General function prediction
only].
Length = 367
Score = 27.6 bits (62), Expect = 5.7
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 7/55 (12%)
Query: 130 DRILTDIKQFVA---DPAWYLDRGIPYRRGYLLYGPPGCGKS----SFITALAGE 177
DR+ ++ + W R RG L+G G GK+ F +L GE
Sbjct: 38 DRLYDELVAPRSARKALGWLFGRDHGPVRGLYLWGGVGRGKTMLMDLFYESLPGE 92
>gnl|CDD|130679 TIGR01618, phage_P_loop, phage nucleotide-binding protein. This
model represents an uncharacterized family of proteins
from a number of phage of Gram-positive bacteria. This
protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near
its amino end. The function of this protein is unknown
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 220
Score = 27.5 bits (61), Expect = 5.7
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 157 YLLYGPPGCGKSSFITALAG 176
YL+YG PG GK+S I L G
Sbjct: 15 YLIYGKPGTGKTSTIKYLPG 34
>gnl|CDD|222264 pfam13614, AAA_31, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 145
Score = 27.2 bits (61), Expect = 5.7
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 157 YLLYGP-PGCGKSSFITALAGELEF---GICVLNLSERG 191
+Y P G GK++F LA L + L+L E
Sbjct: 3 IGVYSPVGGEGKTTFALNLAQSLAEEGPKVLYLDLEEYS 41
>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal.
Miro2 subfamily. Miro (mitochondrial Rho) proteins have
tandem GTP-binding domains separated by a linker region
containing putative calcium-binding EF hand motifs.
Genes encoding Miro-like proteins were found in several
eukaryotic organisms. This CD represents the putative
GTPase domain in the C terminus of Miro proteins. These
atypical Rho GTPases have roles in mitochondrial
homeostasis and apoptosis. Most Rho proteins contain a
lipid modification site at the C-terminus; however, Miro
is one of few Rho subfamilies that lack this feature.
Length = 180
Score = 27.2 bits (61), Expect = 5.7
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 161 GPPGCGKSSFITALAGE 177
G G GKS+ + A G
Sbjct: 11 GAKGSGKSALLQAFLGR 27
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 223
Score = 27.5 bits (61), Expect = 5.7
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 158 LLYGPPGCGKSSFITALA 175
+ GP GCGKS+ + +A
Sbjct: 33 AITGPSGCGKSTLLKIVA 50
>gnl|CDD|206667 cd01879, FeoB, Ferrous iron transport protein B (FeoB) family.
Ferrous iron transport protein B (FeoB) subfamily. E.
coli has an iron(II) transport system, known as feo,
which may make an important contribution to the iron
supply of the cell under anaerobic conditions. FeoB has
been identified as part of this transport system. FeoB
is a large 700-800 amino acid integral membrane protein.
The N terminus contains a P-loop motif suggesting that
iron transport may be ATP dependent.
Length = 159
Score = 27.0 bits (61), Expect = 5.8
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 159 LYGPPGCGKSSFITALAG 176
L G P GK++ AL G
Sbjct: 2 LVGNPNVGKTTLFNALTG 19
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 27.8 bits (63), Expect = 5.8
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 130 DRILTDIKQFVADPAWYLDRGIPYRRGY--LLYGPPGCGKSSFITALAGE 177
+ ++ +++ +A +G R G ++ G P GKSS + AL GE
Sbjct: 193 EELIAELEALLAS----ARQGEILREGLKVVIAGRPNVGKSSLLNALLGE 238
>gnl|CDD|224042 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 27.5 bits (62), Expect = 5.9
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+ + L
Sbjct: 38 LIGPSGCGKSTLLRCL 53
>gnl|CDD|213264 cd03297, ABC_ModC_molybdenum_transporter, ATP-binding cassette
domain of the molybdenum transport system. ModC is an
ABC-type transporter and the ATPase component of a
molybdate transport system that also includes the
periplasmic binding protein ModA and the membrane
protein ModB. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 214
Score = 27.3 bits (61), Expect = 5.9
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 159 LYGPPGCGKSSFITALAG--ELEFGICVLN 186
++G G GKS+ + +AG + + G VLN
Sbjct: 28 IFGASGAGKSTLLRCIAGLEKPDGGTIVLN 57
>gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family.
Members of this family contain a single copy of the KaiC
domain (pfam06745) that occurs in two copies of the
circadian clock protein kinase KaiC itself. Members
occur primarily in thermophilic archaea and in
Thermotoga.
Length = 237
Score = 27.4 bits (61), Expect = 6.0
Identities = 14/24 (58%), Positives = 14/24 (58%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSF 170
L GIP R LL G PG GKS F
Sbjct: 14 LHGGIPERNVVLLSGGPGTGKSIF 37
>gnl|CDD|183226 PRK11607, potG, putrescine transporter ATP-binding subunit;
Provisional.
Length = 377
Score = 27.9 bits (62), Expect = 6.0
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 157 YLLYGPPGCGKSSFITALAG 176
+ L G GCGKS+ + LAG
Sbjct: 48 FALLGASGCGKSTLLRMLAG 67
>gnl|CDD|172748 PRK14260, PRK14260, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 259
Score = 27.7 bits (61), Expect = 6.1
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 161 GPPGCGKSSFITAL--AGELEFGICVLNLSE---RGLTDDRLN 198
GP GCGKS+FI L ELE + V + + + + D R+N
Sbjct: 40 GPSGCGKSTFIKTLNRISELEGPVKVEGVVDFFGQNIYDPRIN 82
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 27.9 bits (62), Expect = 6.2
Identities = 30/115 (26%), Positives = 44/115 (38%), Gaps = 39/115 (33%)
Query: 157 YLLYGPPGCGKSSFITAL-AGELEFGICVL----------NLSERGLTDD----RLNH-- 199
+L++GPPG GK+ + L ++ G+ VL NL ER D RL H
Sbjct: 176 FLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALCDQKIVRLGHPA 235
Query: 200 -------------LLSVAPQNSII--LLEDIDAAFVTRE-------ESSQGLEDI 232
L+ P+ I+ + E ID R + +GL DI
Sbjct: 236 RLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDI 290
>gnl|CDD|176102 cd05466, PBP2_LTTR_substrate, The substrate binding domain of
LysR-type transcriptional regulators (LTTRs), a member
of the type 2 periplasmic binding fold protein
superfamily. This model and hierarchy represent the the
substrate-binding domain of the LysR-type
transcriptional regulators that form the largest family
of prokaryotic transcription factor. Homologs of some of
LTTRs with similar domain organizations are also found
in the archaea and eukaryotic organisms. The LTTRs are
composed of two functional domains joined by a linker
helix involved in oligomerization: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal
substrate-binding domain, which is structurally
homologous to the type 2 periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcriptional
repressor undergoes a conformational change upon
substrate binding which in turn changes the DNA binding
affinity of the repressor. The genes controlled by the
LTTRs have diverse functional roles including amino acid
biosynthesis, CO2 fixation, antibiotic resistance,
degradation of aromatic compounds, oxidative stress
responses, nodule formation of nitrogen-fixing bacteria,
synthesis of virulence factors, toxin production,
attachment and secretion, to name a few. The structural
topology of this substrate-binding domain is most
similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis. Besides transport proteins, the PBP2
superfamily includes the substrate-binding domains from
ionotropic glutamate receptors, LysR-like
transcriptional regulators, and unorthodox sensor
proteins involved in signal transduction.
Length = 197
Score = 27.2 bits (61), Expect = 6.2
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 15/75 (20%)
Query: 174 LAGELEFGICVLNLSERGLT-----DDRL------NHLLSVAPQNSIILLEDI-DAAFVT 221
L GEL+ I L + + GL ++ L +H L+ + + L D+ D +
Sbjct: 46 LEGELDLAIVALPVDDPGLESEPLFEEPLVLVVPPDHPLA---KRKSVTLADLADEPLIL 102
Query: 222 REESSQGLEDIDAAF 236
E S +D AF
Sbjct: 103 FERGSGLRRLLDRAF 117
>gnl|CDD|237645 PRK14235, PRK14235, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 27.4 bits (61), Expect = 6.2
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 159 LYGPPGCGKSSFITAL 174
GP GCGKS+F+ L
Sbjct: 50 FIGPSGCGKSTFLRCL 65
>gnl|CDD|172761 PRK14273, PRK14273, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 254
Score = 27.3 bits (60), Expect = 6.5
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+F+ L
Sbjct: 38 LIGPSGCGKSTFLRTL 53
>gnl|CDD|219519 pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after
Kidins220/ARMS and PifA) family of predicted NTPases are
sporadically distributed across a wide phylogenetic
range in bacteria and in animals. Many of the
prokaryotic KAP NTPases are encoded in plasmids and tend
to undergo disruption to form pseudogenes. A unique
feature of all eukaryotic and certain bacterial KAP
NTPases is the presence of two or four transmembrane
helices inserted into the P-loop NTPase domain. These
transmembrane helices anchor KAP NTPases in the membrane
such that the P-loop domain is located on the
intracellular side.
Length = 301
Score = 27.4 bits (61), Expect = 6.6
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 159 LYGPPGCGKSSFITALAGELE 179
LYG G GK+SF+ L EL+
Sbjct: 25 LYGAWGSGKTSFLNLLEDELK 45
>gnl|CDD|213226 cd03259, ABC_Carb_Solutes_like, ATP-binding cassette domain of the
carbohydrate and solute transporters-like. This family
is comprised of proteins involved in the transport of
apparently unrelated solutes and proteins specific for
di- and oligosaccharides and polyols. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds, like sugars,
ions, peptides and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 213
Score = 27.1 bits (61), Expect = 6.7
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 159 LYGPPGCGKSSFITALAG 176
L GP GCGK++ + +AG
Sbjct: 31 LLGPSGCGKTTLLRLIAG 48
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine synthase,
essential for modification of some tRNAs to replace a
sulfur atom with selenium. This enzyme works with SelD,
the selenium donor protein, which also acts in
selenocysteine incorporation. Although the members of
this protein family show a fairly deep split, sequences
from both sides of the split are supported by
co-occurence with, and often proximity to, the selD gene
[Protein synthesis, tRNA and rRNA base modification].
Length = 311
Score = 27.6 bits (62), Expect = 7.0
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICVLNL 187
+L G G GK+ + ALA G VL+L
Sbjct: 131 VLGGMTGSGKTELLHALA---NAGAQVLDL 157
>gnl|CDD|218236 pfam04735, Baculo_helicase, Baculovirus DNA helicase.
Length = 1173
Score = 27.6 bits (62), Expect = 7.0
Identities = 9/12 (75%), Positives = 9/12 (75%)
Query: 159 LYGPPGCGKSSF 170
L G P CGKSSF
Sbjct: 884 LNGKPNCGKSSF 895
>gnl|CDD|219571 pfam07779, Cas1_AcylT, 10 TM Acyl Transferase domain found in
Cas1p. Cas1p protein of Cryptococcus neoformans is
required for the synthesis of O-acetylated
glucuronoxylomannans, a consitutent of the capsule, and
is critical for its virulence. The multi TM domain of
the Cas1p was unified with the 10 TM Sugar
Acyltransferase superfamily. This superfamily is
comprised of members from the OatA, MdoC, OpgC, NolL and
GumG families in addition to the Cas1p family. The Cas1p
protein has a N terminal PC-Esterase domain with the
opposing Acyl esterase activity.
Length = 496
Score = 27.8 bits (62), Expect = 7.0
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 180 FGICVLNLSERGLTDDRL-NHLLSVAPQNSIILL 212
F L + + DD L +L S N ++L
Sbjct: 327 FAFIYLKAQKYNILDDNLHPNLFSRRISNFVLLG 360
>gnl|CDD|237498 PRK13768, PRK13768, GTPase; Provisional.
Length = 253
Score = 27.1 bits (61), Expect = 7.1
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 161 GPPGCGKSSFITALAG---ELEFGICVLNL 187
G G GK++ AL+ E + + ++NL
Sbjct: 9 GTAGSGKTTLTKALSDWLEEQGYDVAIVNL 38
>gnl|CDD|172760 PRK14272, PRK14272, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 252
Score = 27.3 bits (60), Expect = 7.1
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 132 ILTDIKQFVADPAWYLDRGIPYRRGYL--LYGPPGCGKSSFITAL 174
D+ + D + + +RG + L GP GCGK++F+ A+
Sbjct: 6 SAQDVNIYYGDKQAVKNVNLDVQRGTVNALIGPSGCGKTTFLRAI 50
>gnl|CDD|130711 TIGR01650, PD_CobS, cobaltochelatase, CobS subunit. This model
describes Pseudomonas denitrificans CobS gene product,
which is a cobalt chelatase subunit that functions in
cobalamin biosynthesis. Cobalamin (vitamin B12) can be
synthesized via several pathways, including an aerobic
pathway (found in Pseudomonas denitrificans) and an
anaerobic pathway (found in P. shermanii and Salmonella
typhimurium). These pathways differ in the point of
cobalt insertion during corrin ring formation. There are
apparently a number of variations on these two pathways,
where the major differences seem to be concerned with
the process of ring contraction. Confusion regarding the
functions of enzymes found in the aerobic vs. anaerobic
pathways has arisen because nonhomologous genes in these
different pathways were given the same gene symbols.
Thus, cobS in the aerobic pathway (P. denitrificans) is
not a homolog of cobS in the anaerobic pathway (S.
typhimurium). It should be noted that E. coli
synthesizes cobalamin only when it is supplied with the
precursor cobinamide, which is a complex intermediate.
Additionally, all E. coli cobalamin synthesis genes
(cobU, cobS and cobT) were named after their Salmonella
typhimurium homologs which function in the anaerobic
cobalamin synthesis pathway. This model describes the
aerobic cobalamin pathway Pseudomonas denitrificans CobS
gene product, which is a cobalt chelatase subunit, with
a MW ~37 kDa. The aerobic pathway cobalt chelatase is a
heterotrimeric, ATP-dependent enzyme that catalyzes
cobalt insertion during cobalamin biosynthesis. The
other two subunits are the P. denitrificans CobT
(TIGR01651) and CobN (pfam02514 CobN/Magnesium
Chelatase) proteins. To avoid potential confusion with
the nonhomologous Salmonella typhimurium/E.coli cobS
gene product, the P. denitrificans gene symbol is not
used in the name of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 327
Score = 27.3 bits (60), Expect = 7.1
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 8/54 (14%)
Query: 142 DPAWYLDR--------GIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNL 187
DPA+ D+ G Y R ++ G G GKS+ I +A L + +NL
Sbjct: 44 DPAYLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNL 97
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 27.7 bits (62), Expect = 7.2
Identities = 21/67 (31%), Positives = 28/67 (41%), Gaps = 9/67 (13%)
Query: 185 LNLSERG-------LTDDRLNHLLSVAPQNSIILLEDIDAAFVTREESSQGLEDIDAAFV 237
L ERG L + HL+ VA ++ LL ++ A + GL DI A
Sbjct: 181 LQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLA-- 238
Query: 238 TREESSQ 244
EES Q
Sbjct: 239 IAEESIQ 245
>gnl|CDD|238688 cd01394, radB, RadB. The archaeal protein radB shares similarity
radA, the archaeal functional homologue to the bacterial
RecA. The precise function of radB is unclear.
Length = 218
Score = 27.0 bits (60), Expect = 7.3
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 159 LYGPPGCGKSSFITALAGE-LEFGICVLNLSERGLTDDRLNHLLSVAPQ---NSIILLED 214
+YGPPG GK++ LA E G V + GL+ +R + P+ +SII+ E
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRPERAASSIIVFEP 83
Query: 215 IDAAFVTREESSQGLEDI 232
+D F + + Q E
Sbjct: 84 MD--FNEQGRAIQETETF 99
>gnl|CDD|226573 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 261
Score = 27.1 bits (60), Expect = 7.3
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 158 LLYGPPGCGKSSFITALAGELE 179
+L G PG GK++F LA EL
Sbjct: 5 ILTGYPGSGKTTFAKELAKELR 26
>gnl|CDD|172739 PRK14251, PRK14251, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 27.3 bits (60), Expect = 7.4
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 159 LYGPPGCGKSSFITAL 174
L GP GCGKS+F+ L
Sbjct: 35 LIGPSGCGKSTFLRCL 50
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several
bacterial zeta toxin proteins. Zeta toxin is thought to
be part of a postregulational killing system in
bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 26.8 bits (60), Expect = 7.5
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 12/73 (16%)
Query: 157 YLLYGPPGCGKSSFITALAGELEFGICV-LNLSERGLTDDRLNHLLSVAPQ-NSIILLED 214
LL G PG GK+ AL EL G V ++ D L P + + +
Sbjct: 15 VLLGGQPGAGKTELARALLEELGGGNVVRIDP-------DELRTYH---PDYDELQKADP 64
Query: 215 IDAAFVTREESSQ 227
DA+ +T+ ++S+
Sbjct: 65 KDASELTQPDASR 77
>gnl|CDD|238835 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known as
thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de novo
or salvage biosynthesis of thymidine triphosphate (TTP).
Length = 200
Score = 26.8 bits (60), Expect = 7.6
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 161 GPPGCGKSSFITALAGELE 179
G G GK++ I LA LE
Sbjct: 7 GIDGAGKTTLIELLAERLE 25
>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit. DNA
polymerase III, delta subunit (EC 2.7.7.7) is required
for, along with delta' subunit, the assembly of the
processivity factor beta(2) onto primed DNA in the DNA
polymerase III holoenzyme-catalyzed reaction. The delta
subunit is also known as HolA.
Length = 161
Score = 26.8 bits (60), Expect = 7.7
Identities = 8/20 (40%), Positives = 8/20 (40%)
Query: 156 GYLLYGPPGCGKSSFITALA 175
YL GP G GK A
Sbjct: 21 AYLFSGPDGVGKLELALEFA 40
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 26.8 bits (60), Expect = 8.0
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 157 YLLYGPPGCGKSSFITALAGEL 178
++ G G GKS+ ALA L
Sbjct: 2 IVVMGVSGSGKSTVGKALAERL 23
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1
subunit/Transcription initiation factor TFIIB
[Transcription].
Length = 285
Score = 27.3 bits (61), Expect = 8.4
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 104 GSEWRPFGHPKRRR---PLNSVVLDSGVADRI 132
G EWR F RR PL + D G++ I
Sbjct: 38 GPEWRAFDERHERRVGAPLTPSIHDKGLSTII 69
>gnl|CDD|238543 cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B. This group of
recombinases includes the eukaryotic proteins RAD51,
RAD55/57 and the meiosis-specific protein DMC1, and the
archaeal proteins radA and radB. They are closely
related to the bacterial RecA group. Rad51 proteins
catalyze a similiar recombination reaction as RecA,
using ATP-dependent DNA binding activity and a
DNA-dependent ATPase. However, this reaction is less
efficient and requires accessory proteins such as
RAD55/57 .
Length = 235
Score = 27.2 bits (61), Expect = 8.4
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 147 LDRGIPYRRGYLLYGPPGCGKSSFITALA 175
L GI ++G G GK+ LA
Sbjct: 12 LGGGIETGSITEIFGEFGSGKTQLCHQLA 40
>gnl|CDD|215257 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 27.4 bits (61), Expect = 8.5
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 14 PYFGAGFGLFGLGAGAAILRKGKFRPGRESL 44
PY+ AG + L AG +L ++ +ESL
Sbjct: 173 PYYWAGLKAYDLVAGPRLLHLSRYYSAKESL 203
>gnl|CDD|184590 PRK14249, PRK14249, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 27.0 bits (59), Expect = 8.8
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 152 PYRRGYLLYGPPGCGKSSFITAL 174
P R+ + GP GCGKS+ + AL
Sbjct: 28 PERQITAIIGPSGCGKSTLLRAL 50
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 27.1 bits (60), Expect = 8.8
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 146 YLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
YL G P L GP G GK++ +A + +
Sbjct: 17 YLKSGYPVH----LRGPAGTGKTTLAMHVARKRD 46
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 27.3 bits (61), Expect = 8.9
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 159 LYGPPGCGKSSFITALAGELEFGICVLNLSERGLTD 194
L GPPG GK+S ++A L + S G+ D
Sbjct: 352 LVGPPGVGKTSLGKSIAKAL--NRKFVRFSLGGVRD 385
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 27.4 bits (61), Expect = 8.9
Identities = 30/147 (20%), Positives = 36/147 (24%), Gaps = 24/147 (16%)
Query: 14 PYFGAGFGLFGLGAGAAILRKGKFRPGRESLPPPNVSMPFMELIDSLSTNPYFGAGFGLF 73
PYF L G+G G P S P S NP A F
Sbjct: 125 PYFKRAEDLLGVGGQDLRTWHGGGGPLPVSPPR--------------SPNPIARA----F 166
Query: 74 GLGAGAAILRKARTLALKQYEGKTVM-----YTALGSEWRPFGHPKRRRPLNSVVLDSGV 128
EG S R + P +RP N +L
Sbjct: 167 IEAGEQLGFPTTPDPNGADQEGFGPYCVTICNGRRWSAARAYLKPALKRP-NLTLLTGAR 225
Query: 129 ADRILTDIKQFVADPAWYLDRGIPYRR 155
RIL + + V D G
Sbjct: 226 VRRILLEGDRAVGVEVEIGDGGTIETA 252
>gnl|CDD|203976 pfam08545, ACP_syn_III, 3-Oxoacyl-[acyl-carrier-protein (ACP)]
synthase III. This domain is found on
3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III
EC:2.3.1.180, the enzyme responsible for initiating the
chain of reactions of the fatty acid synthase in plants
and bacteria.
Length = 80
Score = 25.6 bits (57), Expect = 9.2
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 72 LFGLGAGAAILRKARTLALKQYEGKTVMYTALGS 105
LFG GAGA +L G ++ + LGS
Sbjct: 51 LFGDGAGAVVLEATEE------GGARILSSVLGS 78
>gnl|CDD|234152 TIGR03265, PhnT2, putative 2-aminoethylphosphonate ABC transporter,
ATP-binding protein. This ABC transporter ATP-binding
protein is found in a number of genomes in operon-like
contexts strongly suggesting a substrate specificity for
2-aminoethylphosphonate (2-AEP). The characterized
PhnSTUV system is absent in the genomes in which this
system is found. These genomes encode systems for the
catabolism of 2-AEP, making the need for a
2-AEP-specific transporter likely [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 353
Score = 26.9 bits (60), Expect = 9.2
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 159 LYGPPGCGKSSFITALAG 176
L GP GCGK++ + +AG
Sbjct: 35 LLGPSGCGKTTLLRIIAG 52
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 26.9 bits (60), Expect = 9.3
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 6/74 (8%)
Query: 135 DIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL--EFGICVLNLSERGL 192
+ +Q + + A + +P R L+GP G GK+S I +AG + G LN R L
Sbjct: 5 NFRQRLGNFALDANFTLPARGITALFGPSGSGKTSLINMIAGLTRPDEGRIELN--GRVL 62
Query: 193 TDDRLNHLLSVAPQ 206
D + + P+
Sbjct: 63 VDAEKG--IFLPPE 74
>gnl|CDD|237652 PRK14275, PRK14275, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 286
Score = 27.2 bits (60), Expect = 9.3
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 161 GPPGCGKSSFITAL 174
GP GCGKS+F+ A+
Sbjct: 72 GPSGCGKSTFLRAI 85
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. This class is
comprised of all BPD (Binding Protein Dependent) systems
that are largely represented in archaea and eubacteria
and are primarily involved in scavenging solutes from
the environment. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 178
Score = 26.8 bits (60), Expect = 9.3
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 159 LYGPPGCGKSSFITALAG 176
L GP G GKS+ + +AG
Sbjct: 31 LLGPSGSGKSTLLRCIAG 48
>gnl|CDD|213181 cd03214, ABC_Iron-Siderophores_B12_Hemin, ATP-binding component of
iron-siderophores, vitamin B12 and hemin transporters
and related proteins. ABC transporters, involved in the
uptake of siderophores, heme, and vitamin B12, are
widely conserved in bacteria and archaea. Only very few
species lack representatives of the siderophore family
transporters. The E. coli BtuCD protein is an ABC
transporter mediating vitamin B12 uptake. The two
ATP-binding cassettes (BtuD) are in close contact with
each other, as are the two membrane-spanning subunits
(BtuC); this arrangement is distinct from that observed
for the E. coli lipid flippase MsbA. The BtuC subunits
provide 20 transmembrane helices grouped around a
translocation pathway that is closed to the cytoplasm by
a gate region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters.
Length = 180
Score = 26.6 bits (60), Expect = 9.5
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 161 GPPGCGKSSFITALAGELE 179
GP G GKS+ + LAG L+
Sbjct: 32 GPNGAGKSTLLKTLAGLLK 50
>gnl|CDD|217025 pfam02421, FeoB_N, Ferrous iron transport protein B. Escherichia
coli has an iron(II) transport system (feo) which may
make an important contribution to the iron supply of the
cell under anaerobic conditions. FeoB has been
identified as part of this transport system. FeoB is a
large 700-800 amino acid integral membrane protein. The
N terminus contains a P-loop motif suggesting that iron
transport may be ATP dependent.
Length = 190
Score = 26.7 bits (60), Expect = 9.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 159 LYGPPGCGKSSFITALAG 176
L G P GK++ AL G
Sbjct: 5 LVGNPNVGKTTLFNALTG 22
>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau;
Validated.
Length = 563
Score = 27.0 bits (60), Expect = 9.6
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 157 YLLYGPPGCGKSSFITALA 175
Y+ GP G GK+S A A
Sbjct: 41 YIFSGPRGVGKTSSARAFA 59
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 26.8 bits (60), Expect = 9.7
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 161 GPPGCGKSSFITALAG 176
GP GCGKS+ + +AG
Sbjct: 36 GPSGCGKSTLLRLIAG 51
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 26.0 bits (58), Expect = 9.9
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 157 YLLYGPPGCGKSSFITALAGEL 178
++ GP GK++ + EL
Sbjct: 5 IVITGPRQVGKTTLLLQFLKEL 26
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.141 0.423
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,307,913
Number of extensions: 1322115
Number of successful extensions: 2111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2098
Number of HSP's successfully gapped: 287
Length of query: 244
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 150
Effective length of database: 6,768,326
Effective search space: 1015248900
Effective search space used: 1015248900
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 (21.8 bits)
S2: 58 (26.0 bits)