RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8074
(376 letters)
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 286 bits (734), Expect = 8e-89
Identities = 122/246 (49%), Positives = 157/246 (63%), Gaps = 10/246 (4%)
Query: 40 EKSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLI 99
+ + LQ KL++LA IG G AVL ++L +++ + D A F+ H I
Sbjct: 272 DSTPLQEKLSELAGLIGKFGMGSAVLLFLVLSLRYVFRIIR-GDGRDTEEDAQTFLDHFI 330
Query: 100 IGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLT 159
I VT++VVAVPEGLPLAVT++LAYS+KKMMKDNNLVRHL ACETMG+ATAICSDKTGTLT
Sbjct: 331 IAVTIVVVAVPEGLPLAVTIALAYSMKKMMKDNNLVRHLAACETMGSATAICSDKTGTLT 390
Query: 160 TNRMTVVQSYICEVLSKTTPKFSSLPSNVGNLIVQAISINS-AYTSRIMPPDEPTELPKQ 218
N M+VVQ YI E ++P +V N++V+ IS+NS + +
Sbjct: 391 QNVMSVVQGYIGEQRFNVRDVLRNVPKHVRNILVEGISLNSSSEEVV-----DRGGKRAF 445
Query: 219 VGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGYRLFT 278
+G+KTECALL F L L ++YQ R EE + ++Y FNS RK MS V+ GG YR F
Sbjct: 446 IGSKTECALLDFGLLLLRDYQEVR---AEEKVVKIYPFNSERKFMSVVVKHSGGKYREFR 502
Query: 279 KGASEI 284
KGASEI
Sbjct: 503 KGASEI 508
Score = 90.2 bits (224), Expect = 2e-19
Identities = 39/74 (52%), Positives = 47/74 (63%), Gaps = 3/74 (4%)
Query: 292 LPKQVGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGY 351
+G+KTECALL F L L ++YQ R EE + ++Y FNS RK MS V+ GG Y
Sbjct: 442 KRAFIGSKTECALLDFGLLLLRDYQEVR---AEEKVVKIYPFNSERKFMSVVVKHSGGKY 498
Query: 352 RLFTKGASEIVLKN 365
R F KGASEIVLK
Sbjct: 499 REFRKGASEIVLKP 512
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 155 bits (394), Expect = 1e-41
Identities = 73/248 (29%), Positives = 108/248 (43%), Gaps = 27/248 (10%)
Query: 38 KKEKSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRH 97
K+ K+ LQ KL KL + + L V+ + + +
Sbjct: 255 KEVKTPLQRKLNKLGKFLLVLALVLGALVFVVGLFRG--------GNGLLES-------- 298
Query: 98 LIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGT 157
+ + + V AVPEGLP VT++LA ++M KDN +VR L+A ET+G+ ICSDKTGT
Sbjct: 299 FLTALALAVAAVPEGLPAVVTIALALGAQRMAKDNAIVRSLNAIETLGSVDVICSDKTGT 358
Query: 158 LTTNRMTVVQSYICEVLSKTTPKFSSLPSNVGNLIVQAISINSAYTSRIMPPDEPTELPK 217
LT N+MTV + YI K + + ++ +
Sbjct: 359 LTQNKMTVKKIYINGGGKDIDDKDLKDSPALLRFL---LAAALCNSVTPEKNGW-----Y 410
Query: 218 QVGNKTECALLGFVLALGKNYQTWRDDIPEEM-LTRVYTFNSVRKSMSTVIPRQGGGYRL 276
Q G+ TE AL+ F A + + E + F+S RK MS ++ G Y L
Sbjct: 411 QAGDPTEGALVEF--AEKLGFSLDLSGLEVEYPILAEIPFDSERKRMSVIVKTDEGKYIL 468
Query: 277 FTKGASEI 284
F KGA E+
Sbjct: 469 FVKGAPEV 476
Score = 52.7 bits (127), Expect = 2e-07
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 294 KQVGNKTECALLGFVLALGKNYQTWRDDIPEEM-LTRVYTFNSVRKSMSTVIPRQGGGYR 352
Q G+ TE AL+ F A + + E + F+S RK MS ++ G Y
Sbjct: 410 YQAGDPTEGALVEF--AEKLGFSLDLSGLEVEYPILAEIPFDSERKRMSVIVKTDEGKYI 467
Query: 353 LFTKGASEIVLK 364
LF KGA E++L+
Sbjct: 468 LFVKGAPEVILE 479
>gnl|CDD|233438 TIGR01494, ATPase_P-type, ATPase, P-type (transporting), HAD
superfamily, subfamily IC. The P-type ATPases are a
large family of trans-membrane transporters acting on
charged substances. The distinguishing feature of the
family is the formation of a phosphorylated intermediate
(aspartyl-phosphate) during the course of the reaction.
Another common name for these enzymes is the E1-E2
ATPases based on the two isolable conformations: E1
(unphosphorylated) and E2 (phosphorylated). Generally,
P-type ATPases consist of only a single subunit
encompassing the ATPase and ion translocation pathway,
however, in the case of the potassium (TIGR01497) and
sodium/potassium (TIGR01106) varieties, these functions
are split between two subunits. Additional small
regulatory or stabilizing subunits may also exist in
some forms. P-type ATPases are nearly ubiquitous in life
and are found in numerous copies in higher organisms (at
least 45 in Arabidopsis thaliana, for instance ).
Phylogenetic analyses have revealed that the P-type
ATPase subfamily is divided up into groups based on
substrate specificities and this is represented in the
various subfamily and equivalog models that have been
made: IA (K+) TIGR01497, IB (heavy metals) TIGR01525,
IIA1 (SERCA-type Ca++) TIGR01116, IIA2 (PMR1-type Ca++)
TIGR01522, IIB (PMCA-type Ca++) TIGR01517, IIC (Na+/K+,
H+/K+ antiporters) TIGR01106, IID (fungal-type Na+ and
K+) TIGR01523, IIIA (H+) TIGR01647, IIIB (Mg++)
TIGR01524, IV (phospholipid, flippase) TIGR01652 and V
(unknown specificity) TIGR01657. The crystal structure
of one calcium-pumping ATPase and an analysis of the
fold of the catalytic domain of the P-type ATPases have
been published. These reveal that the catalytic core of
these enzymes is a haloacid dehalogenase(HAD)-type
aspartate-nucleophile hydrolase. The location of the
ATP-binding loop in between the first and second HAD
conserved catalytic motifs defines these enzymes as
members of subfamily I of the HAD superfamily (see also
TIGR01493, TIGR01509, TIGR01549, TIGR01544 and
TIGR01545). Based on these classifications, the P-type
ATPase _superfamily_ corresponds to the IC subfamily of
the HAD superfamily.
Length = 543
Score = 135 bits (342), Expect = 2e-35
Identities = 67/246 (27%), Positives = 99/246 (40%), Gaps = 48/246 (19%)
Query: 40 EKSVLQAKLTKLAIQIG-YAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHL 98
++ LQ+K +L I +A+ + L I+ W N + L
Sbjct: 146 TRTPLQSKRDRLENFIFILFLLLLALAVFLYLFIRG-----------WDP---NSIFKAL 191
Query: 99 IIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTL 158
+ + VLV+ VP LP AVT++LA ++ K LVR+L+A E +G +CSDKTGTL
Sbjct: 192 LRALIVLVIVVPPALPAAVTVALAVGDARLAKKGILVRNLNALEELGKVDYLCSDKTGTL 251
Query: 159 TTNRMTVVQSYICEVLSKTTPKFSSLPSNVGNLIVQAISINSAYTSRIMPPDEPTELPKQ 218
T N+MT+ YI + + +
Sbjct: 252 TKNKMTLQGVYIDGGKEDNSSSLVAC-----------------------------DNNYL 282
Query: 219 VGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGYRLFT 278
G+ E ALL +GK E + V+ F+SV K MS ++ G LF
Sbjct: 283 SGDPMEKALLKSAELVGKAD----KGNKEYKILDVFPFSSVLKRMSVIVETPDGSDLLFV 338
Query: 279 KGASEI 284
KGA E
Sbjct: 339 KGAPEF 344
Score = 53.1 bits (128), Expect = 1e-07
Identities = 24/94 (25%), Positives = 35/94 (37%), Gaps = 4/94 (4%)
Query: 276 LFTKGASEIPPDEPTELPKQVGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNS 335
+ + G+ E ALL +GK E + V+ F+S
Sbjct: 263 IDGGKEDNSSSLVACDNNYLSGDPMEKALLKSAELVGKAD----KGNKEYKILDVFPFSS 318
Query: 336 VRKSMSTVIPRQGGGYRLFTKGASEIVLKNYGNI 369
V K MS ++ G LF KGA E +L+ N
Sbjct: 319 VLKRMSVIVETPDGSDLLFVKGAPEFILERCNNY 352
>gnl|CDD|233277 TIGR01116, ATPase-IIA1_Ca, sarco/endoplasmic reticulum
calcium-translocating P-type ATPase. This model
describes the P-type ATPase responsible for
translocating calcium ions across the endoplasmic
reticulum membrane of eukaryotes , and is of particular
importance in the sarcoplasmic reticulum of skeletal and
cardiac muscle in vertebrates. These pumps transfer Ca2+
from the cytoplasm to the lumen of the endoplasmic
reticulum. In humans and mice, at least, there are
multiple isoforms of the SERCA pump with overlapping but
not redundant functions. Defects in SERCA isoforms are
associated with diseases in humans. The calcium P-type
ATPases have been characterized as Type IIA based on a
phylogenetic analysis which distinguishes this group
from the Type IIB PMCA calcium pump modelled by
TIGR01517. A separate analysis divides Type IIA into
sub-types, SERCA and PMR1 the latter of which is
modelled by TIGR01522 [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 917
Score = 103 bits (258), Expect = 7e-24
Identities = 78/284 (27%), Positives = 122/284 (42%), Gaps = 50/284 (17%)
Query: 36 DHKKEKSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEF- 94
++E + LQ KL + L+ VI +I C+ +VI + +
Sbjct: 185 AAEQEDTPLQKKLDEFGEL----------LSKVIGLI--CILVWVINIGHFNDPALGGGW 232
Query: 95 ----VRHLIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAI 150
+ + I V + V A+PEGLP +T LA +KM K N +VR L + ET+G T I
Sbjct: 233 IQGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRKMAKKNAIVRKLPSVETLGCTTVI 292
Query: 151 CSDKTGTLTTNRMTVVQSYICEVLSKTTPKFS---SLPSNVGNLIVQAISINSAYTSRI- 206
CSDKTGTLTTN+M+V + + S + +F + + G +I + + +
Sbjct: 293 CSDKTGTLTTNQMSVCKVVALDPSSSSLNEFCVTGTTYAPEGGVIKDDGPVAGGQDAGLE 352
Query: 207 -------------MPPDEPTELPKQVGNKTECALLGFVLALGKNYQTWRDDIP------- 246
+ +E + ++VG TE AL V +G T
Sbjct: 353 ELATIAALCNDSSLDFNERKGVYEKVGEATEAALKVLVEKMG-LPATKNGVSSKRRPALG 411
Query: 247 -----EEMLTRVYT--FNSVRKSMSTVIPRQGGGYRLFTKGASE 283
+ ++ T F+ RKSMS V+ + G +LF KGA E
Sbjct: 412 CNSVWNDKFKKLATLEFSRDRKSMS-VLCKPSTGNKLFVKGAPE 454
Score = 36.3 bits (84), Expect = 0.027
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 16/84 (19%)
Query: 295 QVGNKTECALLGFVLALGKNYQTWRDDIP------------EEMLTRVYT--FNSVRKSM 340
+VG TE AL V +G T + ++ T F+ RKSM
Sbjct: 377 KVGEATEAALKVLVEKMG-LPATKNGVSSKRRPALGCNSVWNDKFKKLATLEFSRDRKSM 435
Query: 341 STVIPRQGGGYRLFTKGASEIVLK 364
S V+ + G +LF KGA E VL+
Sbjct: 436 S-VLCKPSTGNKLFVKGAPEGVLE 458
>gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
golgi membrane of fungi and animals , and is of
particular importance in the sarcoplasmic reticulum of
skeletal and cardiac muscle in vertebrates. The calcium
P-type ATPases have been characterized as Type IIA based
on a phylogenetic analysis which distinguishes this
group from the Type IIB PMCA calcium pump modelled by
TIGR01517. A separate analysis divides Type IIA into
sub-types, SERCA and PMR1 the former of which is
modelled by TIGR01116.
Length = 884
Score = 101 bits (253), Expect = 3e-23
Identities = 74/257 (28%), Positives = 116/257 (45%), Gaps = 35/257 (13%)
Query: 38 KKEKSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRH 97
+K K+ LQ + L Q+ + V+ V+ LV + K W +
Sbjct: 232 EKPKTPLQKSMDLLGKQLSLV--SFGVIGVICLV-------GWFQGKDW--------LEM 274
Query: 98 LIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGT 157
I V++ V A+PEGLP+ VT++LA V +M K +VR L + ET+G+ ICSDKTGT
Sbjct: 275 FTISVSLAVAAIPEGLPIIVTVTLALGVLRMSKKRAIVRKLPSVETLGSVNVICSDKTGT 334
Query: 158 LTTNRMTVVQSYICEVLSK-----TTPKFSSLPSNVGNLIV-QAISINSAYTSRIMPPDE 211
LT N MTV + + + L + +F + + L ++++ + + +
Sbjct: 335 LTKNHMTVTKIWTSDGLHTMLNAVSLNQFGEVIVDGDVLHGFYTVAVSRILEAGNLCNNA 394
Query: 212 P--TELPKQVGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRV--YTFNSVRKSMST-V 266
E +GN T+ AL+ ++ G D E RV F+S RK M+
Sbjct: 395 KFRNEADTLLGNPTDVALIELLMKFGL-------DDLRETYIRVAEVPFSSERKWMAVKC 447
Query: 267 IPRQGGGYRLFTKGASE 283
+ RQ F KGA E
Sbjct: 448 VHRQDRSEMCFMKGAYE 464
Score = 32.5 bits (74), Expect = 0.44
Identities = 25/72 (34%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 296 VGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRV--YTFNSVRKSMST-VIPRQGGGYR 352
+GN T+ AL+ ++ G D E RV F+S RK M+ + RQ
Sbjct: 404 LGNPTDVALIELLMKFGL-------DDLRETYIRVAEVPFSSERKWMAVKCVHRQDRSEM 456
Query: 353 LFTKGASEIVLK 364
F KGA E VLK
Sbjct: 457 CFMKGAYEQVLK 468
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 88.0 bits (219), Expect = 3e-20
Identities = 34/106 (32%), Positives = 49/106 (46%), Gaps = 17/106 (16%)
Query: 38 KKEKSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRH 97
K K+ LQ L KLA + +A+L +I + +F+
Sbjct: 134 KSAKTPLQRLLDKLAKILVPIVLALAILVFLIWFFRG-----------------GDFLEA 176
Query: 98 LIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACET 143
L+ + VLV A PE LPLAV L+LA ++ K LV++L A ET
Sbjct: 177 LLRALAVLVAACPEALPLAVPLALAVGAGRLAKKGILVKNLSALET 222
>gnl|CDD|130176 TIGR01106, ATPase-IIC_X-K, sodium or proton efflux -- potassium
uptake antiporter, P-type ATPase, alpha subunit. This
model describes the P-type ATPases responsible for the
exchange of either protons or sodium ions for potassium
ions across the plasma membranes of eukaryotes. Unlike
most other P-type ATPases, members of this subfamily
require a beta subunit for activity. This model
encompasses eukaryotes and consists of two functional
types, a Na/K antiporter found widely distributed in
eukaryotes and a H/K antiporter found only in
vertebrates. The Na+ or H+/K+ antiporter P-type ATPases
have been characterized as Type IIC based on a published
phylogenetic analysis. Sequences from Blastocladiella
emersonii (GP|6636502, GP|6636502 and PIR|T43025), C.
elegans (GP|2315419, GP|6671808 and PIR|T31763) and
Drosophila melanogaster (GP|7291424) score below trusted
cutoff, apparently due to long branch length (excessive
divergence from the last common ancestor) as evidenced
by a phylogenetic tree. Experimental evidence is needed
to determine whether these sequences represent ATPases
with conserved function. Aside from fragments, other
sequences between trusted and noise appear to be
bacterial ATPases of unclear lineage, but most likely
calcium pumps [Energy metabolism, ATP-proton motive
force interconversion].
Length = 997
Score = 88.3 bits (219), Expect = 6e-19
Identities = 72/218 (33%), Positives = 104/218 (47%), Gaps = 40/218 (18%)
Query: 94 FVRHLIIGVTVL---------VVA-VPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACET 143
F+ LI+G T L +VA VPEGL VT+ L + K+M + N LV++L+A ET
Sbjct: 281 FILSLILGYTWLEAVIFLIGIIVANVPEGLLATVTVCLTLTAKRMARKNCLVKNLEAVET 340
Query: 144 MGNATAICSDKTGTLTTNRMTVVQSY----ICEVLSKTTPKFSSLPSNVGNLIVQAISIN 199
+G+ + ICSDKTGTLT NRMTV + I E + TT S + + + A+S
Sbjct: 341 LGSTSTICSDKTGTLTQNRMTVAHMWFDNQIHE--ADTTEDQSGVSFDKSSATWLALSRI 398
Query: 200 SAYTSR--IMPPDEPTELPKQ--VGNKTECALLGFV-LALGKNYQTWRD------DIPEE 248
+ +R E + K+ G+ +E ALL + L LG + R+ +IP
Sbjct: 399 AGLCNRAVFKAGQENVPILKRAVAGDASESALLKCIELCLG-SVMEMRERNPKVVEIP-- 455
Query: 249 MLTRVYTFNSVRK---SMSTVIPRQGGGYRLFTKGASE 283
FNS K S+ + + L KGA E
Sbjct: 456 -------FNSTNKYQLSIHENEDPRDPRHLLVMKGAPE 486
>gnl|CDD|222006 pfam13246, Hydrolase_like2, Putative hydrolase of sodium-potassium
ATPase alpha subunit. This is a putative hydrolase of
the sodium-potassium ATPase alpha subunit.
Length = 91
Score = 78.8 bits (195), Expect = 2e-18
Identities = 31/85 (36%), Positives = 41/85 (48%), Gaps = 4/85 (4%)
Query: 282 SEIPPDEPTELPKQVGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMS 341
++ +E + +G+ TE ALL F LG + + R P FNS RK MS
Sbjct: 6 AKFGENEEKNGGEIIGDPTESALLVFAEKLGIDVEELRARYP---RVAEIPFNSERKRMS 62
Query: 342 TVI-PRQGGGYRLFTKGASEIVLKN 365
TV GYRLF KGA E +L+
Sbjct: 63 TVHKLEDDDGYRLFVKGAPERILER 87
Score = 70.7 bits (174), Expect = 2e-15
Identities = 30/78 (38%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 208 PPDEPTELPKQVGNKTECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVI 267
+E + +G+ TE ALL F LG + + R P FNS RK MSTV
Sbjct: 9 GENEEKNGGEIIGDPTESALLVFAEKLGIDVEELRARYP---RVAEIPFNSERKRMSTVH 65
Query: 268 -PRQGGGYRLFTKGASEI 284
GYRLF KGA E
Sbjct: 66 KLEDDDGYRLFVKGAPER 83
>gnl|CDD|233506 TIGR01647, ATPase-IIIA_H, plasma-membrane proton-efflux P-type
ATPase. This model describes the plasma membrane proton
efflux P-type ATPase found in plants, fungi, protozoa,
slime molds and archaea. The best studied representative
is from yeast.
Length = 754
Score = 68.5 bits (168), Expect = 2e-12
Identities = 32/124 (25%), Positives = 57/124 (45%), Gaps = 14/124 (11%)
Query: 48 LTKLAIQIG-YAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLIIGVTVLV 106
L K+ +IG + I VL ++ LV+ F F L + +LV
Sbjct: 199 LQKILSKIGLFLIVLIGVLVLIELVVLFFG-------------RGESFREGLQFALVLLV 245
Query: 107 VAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTNRMTVV 166
+P +P +++++A ++ K +V L A E + +CSDKTGTLT N++++
Sbjct: 246 GGIPIAMPAVLSVTMAVGAAELAKKKAIVTRLTAIEELAGMDILCSDKTGTLTLNKLSID 305
Query: 167 QSYI 170
+
Sbjct: 306 EILP 309
>gnl|CDD|233445 TIGR01511, ATPase-IB1_Cu, copper-(or silver)-translocating P-type
ATPase. This model describes the P-type ATPase
primarily responsible for translocating copper ions
accross biological membranes. These transporters are
found in prokaryotes and eukaryotes. This model
encompasses those species which pump copper ions out of
cells or organelles (efflux pumps such as CopA of
Escherichia coli ) as well as those which pump the ion
into cells or organelles either for the purpose of
supporting life in extremely low-copper environments
(for example CopA of Enterococcus hirae ) or for the
specific delivery of copper to a biological complex for
which it is a necessary component (for example FixI of
Bradyrhizobium japonicum, or CtaA and PacS of
Synechocystis). The substrate specificity of these
transporters may, to a varying degree, include silver
ions (for example, CopA from Archaeoglobus fulgidus).
Copper transporters from this family are well known as
the genes which are mutated in two human disorders of
copper metabolism, Wilson's and Menkes' diseases. The
sequences contributing to the seed of this model are all
experimentally characterized. The copper P-type ATPases
have been characterized as Type IB based on a
phylogenetic analysis which combines the
copper-translocating ATPases with the
cadmium-translocating species. This model and that
describing the cadmium-ATPases (TIGR01512) are well
separated, and thus we further type the copper-ATPases
as IB1 (and the cadmium-ATPases as IB2). Several
sequences which have not been characterized
experimentally fall just below the cutoffs for both of
these models. A sequence from Enterococcus faecalis
scores very high against this model, but yet is
annotated as an "H+/K+ exchanging ATPase". BLAST of this
sequence does not hit anything else annotated in this
way. This error may come from the characterization paper
published in 1987. Accession GP|7415611 from
Saccharomyces cerevisiae appears to be mis-annotated as
a cadmium resistance protein. Accession
OMNI|NTL01HS00542 from Halobacterium which scores above
trusted for this model is annotated as
"molybdenum-binding protein" although no evidence can be
found for this classification [Cellular processes,
Detoxification, Transport and binding proteins, Cations
and iron carrying compounds].
Length = 572
Score = 67.3 bits (165), Expect = 4e-12
Identities = 45/139 (32%), Positives = 64/139 (46%), Gaps = 14/139 (10%)
Query: 43 VLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLIIGV 102
V QA+ +K IQ A V++ I + TFVI W +FV L + V
Sbjct: 188 VRQAQQSKAPIQ-RLADKVAGYFVPVVIAI--ALITFVI----WL-ILGADFVFALEVAV 239
Query: 103 TVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTNR 162
TVL++A P L LA +A + K+ L++ DA E N + DKTGTLT +
Sbjct: 240 TVLIIACPCALGLATPTVIAVATGLAAKNGVLIKDGDALERAANIDTVVFDKTGTLTQGK 299
Query: 163 MTVV------QSYICEVLS 175
TV +S E+L+
Sbjct: 300 PTVTDVHVFGESDRDELLA 318
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 63.6 bits (155), Expect = 6e-11
Identities = 52/189 (27%), Positives = 75/189 (39%), Gaps = 48/189 (25%)
Query: 105 LVVAV---PEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTN 161
L VAV PE LP+ VT +LA K+ K +V+ LDA + G +C+DKTGTLT +
Sbjct: 326 LSVAVGLTPEMLPMIVTSTLARGAVKLSKQKVIVKRLDAIQNFGAMDILCTDKTGTLTQD 385
Query: 162 RMTVVQSYICEVLSKTTPKFSSLPSNVGNLIVQAISINSAYTSRIMPPDEPTELPKQVGN 221
++ VL T ++ + +NS Y Q G
Sbjct: 386 KI---------VLENHTDISG----KTSERVLHSAWLNSHY---------------QTGL 417
Query: 222 KT-------ECALLGFVLALGKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGY 274
K E +L +Q D+IP F+ R+ MS V+ +
Sbjct: 418 KNLLDTAVLEGVDEESARSLASRWQK-IDEIP---------FDFERRRMSVVVAENTEHH 467
Query: 275 RLFTKGASE 283
+L KGA E
Sbjct: 468 QLICKGALE 476
Score = 31.6 bits (72), Expect = 0.71
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 15/58 (25%)
Query: 316 QTWR--DDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGYRLFTKGASEIVLKNYGNICR 371
W+ D+IP F+ R+ MS V+ ++L KGA E +L N+C
Sbjct: 439 SRWQKIDEIP---------FDFERRRMSVVVAENTEHHQLICKGALEEIL----NVCS 483
>gnl|CDD|130586 TIGR01523, ATPase-IID_K-Na, potassium and/or sodium efflux P-type
ATPase, fungal-type. Initially described as a calcium
efflux ATPase , more recent work has shown that the S.
pombe CTA3 gene is in fact a potassium ion efflux pump.
This model describes the clade of fungal P-type ATPases
responsible for potassium and sodium efflux. The degree
to which these pumps show preference for sodium or
potassium varies. This group of ATPases has been
classified by phylogentic analysis as type IID. The
Leishmania sequence (GP|3192903), which falls between
trusted and noise in this model, may very well turn out
to be an active potassium pump.
Length = 1053
Score = 62.7 bits (152), Expect = 1e-10
Identities = 37/127 (29%), Positives = 61/127 (48%), Gaps = 19/127 (14%)
Query: 44 LQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLIIGVT 103
L KL+KLA+ + IA++ +I++ F ++ I +
Sbjct: 275 LHRKLSKLAVILFC----IAIIFAIIVM---AAHKFDVDK------------EVAIYAIC 315
Query: 104 VLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTNRM 163
+ + +PE L +++++A M K N +VR LDA E +G ICSDKTGT+T +M
Sbjct: 316 LAISIIPESLIAVLSITMAMGAANMSKRNVIVRKLDALEALGAVNDICSDKTGTITQGKM 375
Query: 164 TVVQSYI 170
Q +I
Sbjct: 376 IARQIWI 382
>gnl|CDD|233447 TIGR01525, ATPase-IB_hvy, heavy metal translocating P-type ATPase.
This model encompasses two equivalog models for the
copper and cadmium-type heavy metal transporting P-type
ATPases (TIGR01511 and TIGR01512) as well as those
species which score ambiguously between both models. For
more comments and references, see the files on TIGR01511
and 01512.
Length = 556
Score = 60.7 bits (148), Expect = 5e-10
Identities = 36/127 (28%), Positives = 55/127 (43%), Gaps = 10/127 (7%)
Query: 41 KSVLQAKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLII 100
+ V +A+ +K IQ A + +L I TFV+ R
Sbjct: 150 ELVEEAQSSKAPIQ-RLADRIASYYVPAVLAIALL--TFVV---WLALGALGALYR---- 199
Query: 101 GVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTT 160
+ VLVVA P L LA +++ ++ + L++ DA E + + DKTGTLTT
Sbjct: 200 ALAVLVVACPCALGLATPVAILVAIGVAARRGILIKGGDALEKLAKVKTVVFDKTGTLTT 259
Query: 161 NRMTVVQ 167
+ TVV
Sbjct: 260 GKPTVVD 266
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 58.0 bits (141), Expect = 4e-09
Identities = 28/122 (22%), Positives = 53/122 (43%), Gaps = 12/122 (9%)
Query: 46 AKLTKLAIQIGYAGSTIAVLTVVILVIQFCVKTFVIEDKSWKNTYANEFVRHLIIGVTVL 105
A + +LA ++ ++ V V+++ TF + W ++ L + VL
Sbjct: 316 APIQRLADRV----ASYFVPVVLVIAAL----TFAL----WPLFGGGDWETALYRALAVL 363
Query: 106 VVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTNRMTV 165
V+A P L LA ++ + + + L++ +A E + + DKTGTLT + V
Sbjct: 364 VIACPCALGLATPTAILVGIGRAARRGILIKGGEALERLAKVDTVVFDKTGTLTEGKPEV 423
Query: 166 VQ 167
Sbjct: 424 TD 425
>gnl|CDD|130587 TIGR01524, ATPase-IIIB_Mg, magnesium-translocating P-type ATPase.
This model describes the magnesium translocating P-type
ATPase found in a limited number of bacterial species
and best described in Salmonella typhimurium, which
contains two isoforms. These transporters are active in
low external Mg2+ concentrations and pump the ion into
the cytoplasm. The magnesium ATPases have been
classified as type IIIB by a phylogenetic analysis
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 867
Score = 55.6 bits (134), Expect = 2e-08
Identities = 47/188 (25%), Positives = 81/188 (43%), Gaps = 43/188 (22%)
Query: 102 VTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTN 161
+ V V PE LP+ V+ +LA M K +V+ L A + G +C+DKTGTLT +
Sbjct: 291 LAVAVGLTPEMLPMIVSSNLAKGAINMSKKKVIVKELSAIQNFGAMDILCTDKTGTLTQD 350
Query: 162 RMTVVQSYICEVLSKTTPKFSSLPSNVGNLIVQAISINSAYTSRIMPPDEPTELPKQVG- 220
++ ++ +I + +T+ + +++ +NS + Q G
Sbjct: 351 KI-ELEKHI-DSSGETSER-----------VLKMAWLNSYF---------------QTGW 382
Query: 221 -NKTECALLGFV--LALGKNYQTW--RDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGYR 275
N + A+L + A + W D+IP F+ R+ +S V+ + R
Sbjct: 383 KNVLDHAVLAKLDESAARQTASRWKKVDEIP---------FDFDRRRLSVVVENRAEVTR 433
Query: 276 LFTKGASE 283
L KGA E
Sbjct: 434 LICKGAVE 441
>gnl|CDD|211664 TIGR01512, ATPase-IB2_Cd, heavy
metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase.
This model describes the P-type ATPase primarily
responsible for translocating cadmium ions (and other
closely-related divalent heavy metals such as cobalt,
mercury, lead and zinc) across biological membranes.
These transporters are found in prokaryotes and plants.
Experimentally characterized members of the seed
alignment include: SP|P37617 from E. coli, SP|Q10866
from Mycobacterium tuberculosis and SP|Q59998 from
Synechocystis PCC6803. The cadmium P-type ATPases have
been characterized as Type IB based on a phylogenetic
analysis which combines the copper-translocating ATPases
with the cadmium-translocating species. This model and
that describing the copper-ATPases (TIGR01511) are well
separated, and thus we further type the copper-ATPases
as IB1 and the cadmium-ATPases as IB2. Several sequences
which have not been characterized experimentally fall
just below trusted cutoff for both of these models
(SP|Q9CCL1 from Mycobacterium leprae, GP|13816263 from
Sulfolobus solfataricus, OMNI|NTL01CJ01098 from
Campylobacter jejuni, OMNI|NTL01HS01687 from
Halobacterium sp., GP|6899169 from Ureaplasma
urealyticum and OMNI|HP1503 from Helicobacter pylori)
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 536
Score = 55.0 bits (133), Expect = 3e-08
Identities = 31/118 (26%), Positives = 49/118 (41%), Gaps = 11/118 (9%)
Query: 101 GVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTT 160
+ +LVVA P L ++ + ++ + L++ A E + + DKTGTLTT
Sbjct: 200 ALVLLVVASPCALVISAPAAYLSAISAAARHGILIKGGAALEALAKIKTVAFDKTGTLTT 259
Query: 161 NRMTVVQSYICEVLS--KTTPKFSSLPSNVGNLIVQAISINSAYTSRIMPPDEPTELP 216
R VV EVL + SS P + +AI Y + + E+P
Sbjct: 260 GRPKVVDVVPAEVLRLAAAAEQASSHP------LARAI---VDYARKRENVESVEEVP 308
>gnl|CDD|233509 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase,
flippase. This model describes the P-type ATPase
responsible for transporting phospholipids from one
leaflet of bilayer membranes to the other. These ATPases
are found only in eukaryotes.
Length = 1057
Score = 53.5 bits (129), Expect = 1e-07
Identities = 57/265 (21%), Positives = 91/265 (34%), Gaps = 65/265 (24%)
Query: 79 FVIEDKSWKNTYANEFVRHLIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNL---- 134
+ I + A + + + +P + L V+L L SV+ +++L
Sbjct: 281 WYIRLDVSERNAAANGFFSFLTFLILFSSLIP--ISLYVSLELVKSVQAYFINSDLQMYH 338
Query: 135 --------VRHLDACETMGNATAICSDKTGTLTTNRMTVVQ------SYIC---EVLSKT 177
VR + E +G I SDKTGTLT N M + SY E+
Sbjct: 339 EKTDTPASVRTSNLNEELGQVEYIFSDKTGTLTQNIMEFKKCSIAGVSYGDGFTEIKDGI 398
Query: 178 TPKFSSLPSNVGNLIVQAISIN--------SAYTSRIMPP-------------------- 209
+ S N +++V++ T++
Sbjct: 399 RERLGSYVENENSMLVESKGFTFVDPRLVDLLKTNKPNAKRINEFFLALALCHTVVPEFN 458
Query: 210 -DEPTELPKQVGNKTECAL------LGFVLALGKNYQTWRDDIPEEMLTRVYT------F 256
D P E+ Q + E AL +GFV + ++ I T+ Y F
Sbjct: 459 DDGPEEITYQAASPDEAALVKAARDVGFVF-FERTPKSISLLIEMHGETKEYEILNVLEF 517
Query: 257 NSVRKSMSTVIPRQGGGYRLFTKGA 281
NS RK MS ++ G +L KGA
Sbjct: 518 NSDRKRMSVIVRNPDGRIKLLCKGA 542
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 47.3 bits (113), Expect = 1e-05
Identities = 25/61 (40%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 105 LVVAV---PEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTN 161
L VAV PE LP+ V+ +LA M + +V+ L+A + G +C+DKTGTLT +
Sbjct: 324 LAVAVGLTPEMLPMIVSSNLAKGAIAMARRKVVVKRLNAIQNFGAMDVLCTDKTGTLTQD 383
Query: 162 R 162
R
Sbjct: 384 R 384
>gnl|CDD|233513 TIGR01657, P-ATPase-V, P-type ATPase of unknown pump specificity
(type V). These P-type ATPases form a distinct clade
but the substrate of their pumping activity has yet to
be determined. This clade has been designated type V in.
Length = 1054
Score = 45.0 bits (107), Expect = 4e-05
Identities = 38/232 (16%), Positives = 80/232 (34%), Gaps = 32/232 (13%)
Query: 67 VVILVIQFCVKTFVIEDKSWKNTYANEF-VRHLIIGVT-VLVVAVPEGLPLAVTLSLAYS 124
V+ +I F + + + +I+ ++ + VP LP +++ + S
Sbjct: 374 AVLALIGFIY--------TIIELIKDGRPLGKIILRSLDIITIVVPPALPAELSIGINNS 425
Query: 125 VKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTTNRMTVVQSYICEVLSKTTPKFSSL 184
+ ++ K G C DKTGTLT + + + + +
Sbjct: 426 LARLKKKGIFCTSPFRINFAGKIDVCCFDKTGTLTEDGLDLRGVQGLSGNQEFLKIVTED 485
Query: 185 PSNVGNLIVQAISINSAYTSRIMPPDEPTELPKQVGNKTECALLGFV-----------LA 233
S ++ +A++ + T ++ + VG+ + +
Sbjct: 486 SSLKPSITHKALATCHSLT-KLE--GKL------VGDPLDKKMFEATGWTLEEDDESAEP 536
Query: 234 LGKNYQTWRDDIPEEM-LTRVYTFNSVRKSMSTVIPRQGGG-YRLFTKGASE 283
DD P+E+ + R + F+S + MS ++ F KGA E
Sbjct: 537 TSILAVVRTDDPPQELSIIRRFQFSSALQRMSVIVSTNDERSPDAFVKGAPE 588
Score = 29.3 bits (66), Expect = 4.4
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 329 RVYTFNSVRKSMSTVIPRQGGG-YRLFTKGASEIVL 363
R + F+S + MS ++ F KGA E +
Sbjct: 556 RRFQFSSALQRMSVIVSTNDERSPDAFVKGAPETIQ 591
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 45.1 bits (107), Expect = 5e-05
Identities = 40/128 (31%), Positives = 59/128 (46%), Gaps = 10/128 (7%)
Query: 41 KSVLQAKLTKLAI-QIGYAGSTIAVLTVV-ILVIQFCVKTFVIEDKSWKNTYANEFVRHL 98
+ V QA+ +K I Q+ S + V VV I ++ + F A + V L
Sbjct: 417 RMVRQAQSSKPEIGQLADKISAVFVPVVVVIALVSAAIWYFF--------GPAPQIVYTL 468
Query: 99 IIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTL 158
+I TVL++A P L LA +S+ V + + LVR DA + + DKTGTL
Sbjct: 469 VIATTVLIIACPCALGLATPMSIISGVGRAAEFGVLVRDADALQRASTLDTLVFDKTGTL 528
Query: 159 TTNRMTVV 166
T + VV
Sbjct: 529 TEGKPQVV 536
>gnl|CDD|183265 PRK11660, PRK11660, putative transporter; Provisional.
Length = 568
Score = 34.5 bits (80), Expect = 0.078
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 83 DKSWKNTY-ANEFVRHLIIGVTVLVVAVPEGLPLAV 117
D WK Y A F R LI G+TV ++A+P + LA+
Sbjct: 17 DACWKEKYTAARFTRDLIAGITVGIIAIPLAMALAI 52
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 34.1 bits (78), Expect = 0.13
Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 10/81 (12%)
Query: 93 EFVRHLIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNL----------VRHLDACE 142
E ++ V V + +P L +++ L M++D+ + R L+ E
Sbjct: 389 EIFFTFLMSVIVFQIMIPISLYISMELVRVGQAYFMIRDDQMYDEASNSRFQCRALNINE 448
Query: 143 TMGNATAICSDKTGTLTTNRM 163
+G + SDKTGTLT N+M
Sbjct: 449 DLGQIKYVFSDKTGTLTENKM 469
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 33.0 bits (76), Expect = 0.24
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 101 GVTVLVVAVPEGL----PLAVTLSLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTG 156
G+T+L++ P L P A+T LA + ++ L++ A E +G T + DKTG
Sbjct: 390 GLTLLLIGCPCALVISTPAAITSGLAAAARR----GALIKGGAALEQLGRVTTVAFDKTG 445
Query: 157 TLT 159
TLT
Sbjct: 446 TLT 448
>gnl|CDD|233554 TIGR01739, tegu_FGAM_synt, herpesvirus tegument
protein/v-FGAM-synthase. This model describes a family
of large proteins of herpesvirues. The protein is
described variably as tegument protein or
phosphoribosylformylglycinamidine synthase
(FGAM-synthase). Most of the length of the protein shows
homology to eukaryotic FGAM-synthase. Functional
characterizations were not verified during construction
of this model.
Length = 1202
Score = 31.2 bits (71), Expect = 1.2
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 115 LAVTLSLAYSVKKMMKDNNLVRHLDACETMGNA----TAICSDKTGTLTTNRMTVVQSYI 170
L+VT S V ++KD L D CE +G + +A S + + M++V S
Sbjct: 640 LSVTWSPTDHVYSLLKDA-LRACKDFCEELGVSFTVTSAASSPTQDSGSAPFMSIVFSAS 698
Query: 171 CEVL---SKTTPKFSSLPSNVGNLIVQAISINSAYTS 204
C VL K TP S G+ ++ +S++ +YT
Sbjct: 699 CPVLLSAKKITPDLKS----HGSHLI-WLSLHPSYTL 730
>gnl|CDD|236758 PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA;
Provisional.
Length = 413
Score = 30.9 bits (70), Expect = 1.3
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 19/66 (28%)
Query: 235 GKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQGGGYRLFTKGASEIPPDEPTELPK 294
G NY T+R+ I +EM+ N VR+ ++ I P E L K
Sbjct: 104 GLNYNTYRNQIRKEMIISEVRNNEVRRRIT-------------------ILPQEVDSLAK 144
Query: 295 QVGNKT 300
Q+GN+
Sbjct: 145 QIGNQN 150
Score = 30.1 bits (68), Expect = 1.9
Identities = 13/36 (36%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 312 GKNYQTWRDDIPEEMLTRVYTFNSVRKSMSTVIPRQ 347
G NY T+R+ I +EM+ N VR+ + T++P++
Sbjct: 104 GLNYNTYRNQIRKEMIISEVRNNEVRRRI-TILPQE 138
>gnl|CDD|222879 PHA02563, PHA02563, DNA polymerase; Provisional.
Length = 630
Score = 29.4 bits (66), Expect = 4.1
Identities = 16/94 (17%), Positives = 30/94 (31%), Gaps = 9/94 (9%)
Query: 188 VGNLIVQAISINSAYTSRIMPPDEPTELPKQVGNK-TECALLG-FVLALGKNYQTWRDDI 245
+ V +NS Y + P P K E ++ G ++ + +
Sbjct: 254 IEEGYV--YDVNSLYPYVMYNAKLPYGEPFYEKGKPAELKPDPLYIYNYGALFKLKKGYV 311
Query: 246 PEEMLTRV-----YTFNSVRKSMSTVIPRQGGGY 274
P++ML ++ + V K G Y
Sbjct: 312 PDDMLIQIKSNLDFNGRLVLKVGIVKYVNSGNEY 345
>gnl|CDD|223646 COG0573, PstC, ABC-type phosphate transport system, permease
component [Inorganic ion transport and metabolism].
Length = 310
Score = 28.7 bits (65), Expect = 5.5
Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 18/94 (19%)
Query: 45 QAKLTKLAIQIGYAGSTIAVLTVVILVI-----------QFCVKTFVIEDKSWKNTYANE 93
+ + KL + +A + I VL ++++++ +F + F + W T A
Sbjct: 14 RKRKEKLFKALLFAAAVIVVLALLLILVFLLIEAIPAFQKFGLSLFFLFGTEWNPTNAQP 73
Query: 94 -------FVRHLIIGVTVLVVAVPEGLPLAVTLS 120
LI + L++AVP G+ A+ LS
Sbjct: 74 QYGALPPIAGTLITSLIALLIAVPVGIGTAIFLS 107
>gnl|CDD|237294 PRK13186, lpxC, UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine
deacetylase; Reviewed.
Length = 295
Score = 28.2 bits (64), Expect = 7.8
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 80 VIEDKSWKNT----YANEFVRH 97
V++D N + +EFVRH
Sbjct: 214 VLDDDRVLNPEGLRFEDEFVRH 235
>gnl|CDD|221170 pfam11696, DUF3292, Protein of unknown function (DUF3292). This
eukaryotic family of proteins has no known function.
Length = 641
Score = 28.2 bits (63), Expect = 8.7
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 6 APATGNSHLANIPVVHEE-REPAAEKPDREDDHKKEKSVLQAKLTKLAIQIGYAGSTIA 63
+PA+ + N+ EE + AA +P+ +EK+ K + +G+ T A
Sbjct: 419 SPASIDHKQLNLGASEEEIDQAAAPEPEAPVAEAEEKAEPPKKKGWGSRILGFFKGTTA 477
>gnl|CDD|215348 PLN02646, PLN02646, argininosuccinate lyase.
Length = 474
Score = 28.2 bits (63), Expect = 8.7
Identities = 24/95 (25%), Positives = 44/95 (46%), Gaps = 12/95 (12%)
Query: 87 KNTYANEFVR---HLIIGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKDNNLVRHLDACET 143
KN E VR +IG V V+A+ +GLP A Y+ + + +D + D+ +T
Sbjct: 298 KNPDPMELVRGKSARVIGDLVTVLALCKGLPTA------YN-RDLQEDKEPL--FDSVDT 348
Query: 144 MGNATAICSDKTGTLTTNRMTVVQSYICEVLSKTT 178
+ + + ++ +T N + +S +L TT
Sbjct: 349 VSDMLEVATEFAQNITFNPERIKKSLPAGMLDATT 383
>gnl|CDD|220974 pfam11085, YqhR, Conserved membrane protein YqhR. This family is
conserved in the Bacillaceae family of the Firmicutes.
The function is not known.
Length = 174
Score = 27.3 bits (61), Expect = 9.1
Identities = 14/86 (16%), Positives = 31/86 (36%), Gaps = 10/86 (11%)
Query: 31 PDREDDHKKEKSVLQAKLTKLAIQIGYAG----STIAVLTVVILVIQ----FCVKTFVIE 82
+ ++ ++ K T I G+ G S I L + + + F +
Sbjct: 3 SEEQEKLEQNKREKPMSFTGRVIITGFVGGVFWSLIGYLAYIFNFTEISPNMILLPFALG 62
Query: 83 DKSWKNTYANEFVRHLIIGVTVLVVA 108
+ WK + + ++IG+ + A
Sbjct: 63 E--WKKGWLGNVISIVLIGLISIGAA 86
>gnl|CDD|217024 pfam02417, Chromate_transp, Chromate transporter. Members of this
family probably act as chromate transporters. Members of
this family are found in both bacteria and
archaebacteria. The proteins are composed of one or two
copies of this region. The alignment contains two
conserved motifs, FGG and PGP.
Length = 169
Score = 27.1 bits (61), Expect = 9.6
Identities = 23/92 (25%), Positives = 34/92 (36%), Gaps = 21/92 (22%)
Query: 49 TKLAIQIGY-----AGSTIAVLTVV----ILVIQFCVKTFVIEDKSWKNTYANEFVRHLI 99
LA IGY G+ +A L +L++ +K + +V+ +
Sbjct: 59 INLATFIGYRLAGFLGALVATLGFFLPSFLLILLLAP--------LYKRFKDSPWVQAFL 110
Query: 100 IGVTVLVVAVPEGLPLAVTLSLAYSVKKMMKD 131
GV VV GL LA +SLA K
Sbjct: 111 AGVKPAVV----GLILAAAISLAKKAVKDPLS 138
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
0.317 0.132 0.383
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,629,679
Number of extensions: 1748525
Number of successful extensions: 1479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1460
Number of HSP's successfully gapped: 55
Length of query: 376
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 278
Effective length of database: 6,590,910
Effective search space: 1832272980
Effective search space used: 1832272980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.8 bits)