RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy78
(523 letters)
>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 = 245 bits (628), Expect = 2e-71
Identities = 102/237 (43%), Positives = 146/237 (61%), Gaps = 5/237 (2%)
Query: 289 VPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLK 348
VP + VL YT +GYRV+ALA + L + + R+ +E +L FLG I+ EN LK
Sbjct: 599 VPSDYQEVLKSYTREGYRVLALAYKELPKLTLQKAQDLSRDAVESNLTFLGFIVFENPLK 658
Query: 349 PQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKV 408
P T+ VIKELK A ++ VMITGDN TA+ VA+ECGI++P T++ A P + ++
Sbjct: 659 PDTKEVIKELKRASIRTVMITGDNPLTAVHVARECGIVNPSNTLILAEAEPPESGKPNQI 718
Query: 409 YFTV-SGVSAIQTKAKK--LNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRII 465
F V + T+ + + E+L S Y A++GK++ +++ PEL+ R++
Sbjct: 719 KFEVIDSIPFASTQVEIPYPLGQDSVEDLLASR--YHLAMSGKAFAVLQAHSPELLLRLL 776
Query: 466 VKGAIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEAESPI 522
+FARM+ DQK+ LV LQ+L Y V MCGDGANDCGAL+ A GISLSEAE+ +
Sbjct: 777 SHTTVFARMAPDQKETLVELLQKLDYTVGMCGDGANDCGALKQADVGISLSEAEASV 833
Score = 82.8 bits (205), Expect = 1e-16
Identities = 35/117 (29%), Positives = 58/117 (49%), Gaps = 3/117 (2%)
Query: 3 FQLILMVSMQIISFIIVHKFAWFEP--FVYTNAISYSCYENYAVFSISMFQYIILAITFS 60
Q +L + Q+ +H W++P V ++ N +F +S FQY+I AI S
Sbjct: 938 IQFVLHILSQVYLVFELHAQPWYKPENPVDLEKENFPNLLNTVLFFVSSFQYLITAIVNS 997
Query: 61 QGKPYRTPIYKNKLFILSIIIMTWVCIYITLIPSEFIIQFLQL-RFPPNMQFPLIVI 116
+G P+R PIYKNK F+ +I + + + L P + + LQ+ P + L+V
Sbjct: 998 KGPPFREPIYKNKPFVYLLITGLGLLLVLLLDPHPLLGKILQIVPLPQEFRSKLLVW 1054
Score = 74.3 bits (183), Expect = 6e-14
Identities = 41/105 (39%), Positives = 52/105 (49%), Gaps = 32/105 (30%)
Query: 180 ILRGRSLWDIVIKSLDIITIVIPPALPATMTVGKLYALTRLKKYNISCINSRVINLMTVG 239
I GR L I+++SLDIITIV+PPALPA +++G +L RLKK I C +
Sbjct: 389 IKDGRPLGKIILRSLDIITIVVPPALPAELSIGINNSLARLKKKGIFCTSP--------- 439
Query: 240 KLYALTRLKKYNISCINSRVINVSGSINCVCFDKMFESTGWTLEE 284
R IN +G I+ CFDK TG TL E
Sbjct: 440 -----FR-------------INFAGKIDVCCFDK----TG-TLTE 461
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 160 bits (408), Expect = 4e-42
Identities = 64/229 (27%), Positives = 106/229 (46%), Gaps = 57/229 (24%)
Query: 289 VPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLK 348
+ + E +G RV+A+A + L + ++IE DL FLGL +E+ +
Sbjct: 494 GLRTLEEAVKELASEGLRVLAVAYKKLDRAEKDDEV----DEIESDLVFLGLTGIEDPPR 549
Query: 349 PQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKV 408
+ I+EL++A +KV MITGD+++TAI++AKECGI E+ +
Sbjct: 550 EDVKEAIEELREAGIKVWMITGDHVETAIAIAKECGIEAEAESAL--------------- 594
Query: 409 YFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIVKG 468
+ G + + D E + ++ +
Sbjct: 595 -----------------------------------VIDGAELDALSD---EELAELVEEL 616
Query: 469 AIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSE 517
++FAR+S +QK ++V LQ+ G+ VAM GDG ND AL+AA GI++
Sbjct: 617 SVFARVSPEQKARIVEALQKSGHVVAMTGDGVNDAPALKAADVGIAMGG 665
>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 = 113 bits (285), Expect = 8e-27
Identities = 71/269 (26%), Positives = 105/269 (39%), Gaps = 78/269 (28%)
Query: 178 YEILRGRSLWDIVIKSLDIITIVIPPALPATMTVGKLYALTRLKKYNISCINSRVI---- 233
S++ ++++L ++ IV+PPALPA +TV RL K I N +
Sbjct: 179 IRGWDPNSIFKALLRALIVLVIVVPPALPAAVTVALAVGDARLAKKGILVRNLNALEELG 238
Query: 234 ---------------NLMTVGKLYALTRLKKYNISCINSRVINVSGS-----INCVCF-D 272
N MT+ +Y K + S N S + +
Sbjct: 239 KVDYLCSDKTGTLTKNKMTLQGVYIDG--GKEDNSSSLVACDNNYLSGDPMEKALLKSAE 296
Query: 273 KMFESTGWTLEEP----------------------------MKFVPENIVSVLS------ 298
+ ++ E +K PE I+ +
Sbjct: 297 LVGKADKGNKEYKILDVFPFSSVLKRMSVIVETPDGSDLLFVKGAPEFILERCNNYEEKY 356
Query: 299 -EYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLKPQTEGVIKE 357
E QG RV+A AS+ ++E DLEFLGLI E+ L+P + I+E
Sbjct: 357 LELARQGLRVLAFASK----------------ELEDDLEFLGLITFEDPLRPDAKETIEE 400
Query: 358 LKDARVKVVMITGDNIQTAISVAKECGII 386
LK A +KVVMITGDN+ TA ++AKE GI
Sbjct: 401 LKAAGIKVVMITGDNVLTAKAIAKELGID 429
Score = 67.7 bits (166), Expect = 5e-12
Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLS 516
+FAR+S +QK Q+V LQ+ G+ VAM GDG ND AL+ A GI++
Sbjct: 430 VFARVSPEQKLQIVEALQKKGHIVAMTGDGVNDAPALKKADVGIAMG 476
>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 = 89.8 bits (223), Expect = 8e-19
Identities = 65/238 (27%), Positives = 102/238 (42%), Gaps = 59/238 (24%)
Query: 282 LEEPMKFVPENIVSVLSEY-TEQGYRVIALASR--TLSIEDYKHLNYMKREDIEKDLEFL 338
L + MK I+SV+ E T + R +ALA + E+ + E IE DL F+
Sbjct: 473 LTDKMK---NTILSVIKEMGTTKALRCLALAFKDIPDPREEDLLSDPANFEAIESDLTFI 529
Query: 339 GLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAV 398
G++ + + +P+ I++ + A ++V+MITGDN +TA ++ + GI P E V S
Sbjct: 530 GVVGMLDPPRPEVADAIEKCRTAGIRVIMITGDNKETAEAICRRIGIFSPDEDVTFKS-- 587
Query: 399 PGGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMP 458
TG+ + D+M
Sbjct: 588 ----------------------------------------------FTGREF----DEMG 597
Query: 459 ELIPRIIVKGA-IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
R + A +F+R+ K +LV LQ+ G VAM GDG ND AL+ A GI++
Sbjct: 598 PAKQRAACRSAVLFSRVEPSHKSELVELLQEQGEIVAMTGDGVNDAPALKKADIGIAM 655
>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 = 78.2 bits (193), Expect = 4e-15
Identities = 64/247 (25%), Positives = 104/247 (42%), Gaps = 38/247 (15%)
Query: 297 LSEYTEQGYRVIALASRTLSIEDYKHLN--------YMKRED---------IEKDLEFLG 339
L Y +G R + +A R LS E+Y+ N + + IEKDL LG
Sbjct: 565 LENYASEGLRTLCIAYRELSEEEYEEWNEEYNEASTALTDREEKLDVVAESIEKDLILLG 624
Query: 340 LIILENRLKPQTEGV---IKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVS 396
+E++L+ EGV I+ L+ A +K+ ++TGD ++TAI++ C ++ + ++
Sbjct: 625 ATAIEDKLQ---EGVPETIELLRQAGIKIWVLTGDKVETAINIGYSCRLLSRNMEQIVIT 681
Query: 397 AVPGGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQ 456
+ L V L + E SG + GKS D+
Sbjct: 682 S--DSLDATRSVE---------AAIKFGLEGTSEEFNNLGDSGNVALVIDGKSLGYALDE 730
Query: 457 MPE---LIPRIIVKGAIFARMSSDQKQQLVLELQQ-LGYYVAMCGDGANDCGALRAAHAG 512
E L + K I R+S QK +V +++ G GDGAND ++ A G
Sbjct: 731 ELEKEFLQLALKCKAVICCRVSPSQKADVVRLVKKSTGKTTLAIGDGANDVSMIQEADVG 790
Query: 513 ISLSEAE 519
+ +S E
Sbjct: 791 VGISGKE 797
>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 = 78.0 bits (192), Expect = 5e-15
Identities = 59/235 (25%), Positives = 96/235 (40%), Gaps = 74/235 (31%)
Query: 281 TLEEPMKFVPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGL 340
TL + + + I +E G RVIA AS + L FLGL
Sbjct: 482 TLTQQQR---DVIQEEAAEMASAGLRVIAFASGPEKGQ----------------LTFLGL 522
Query: 341 IILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPG 400
+ + + +P + + L V+++MITGD+ +TA+S+A+ G+
Sbjct: 523 VGINDPPRPGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGM--------------- 567
Query: 401 GLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPEL 460
SKT + SG K + Q+ ++
Sbjct: 568 --------------------------PSKTSQS---VSGE-------KLDAMDDQQLSQI 591
Query: 461 IPRIIVKGAIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
+P++ A+FAR S + K ++V LQ+ G VAM GDG ND AL+ A G+++
Sbjct: 592 VPKV----AVFARASPEHKMKIVKALQKRGDVVAMTGDGVNDAPALKLADIGVAM 642
>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 = 73.0 bits (179), Expect = 2e-13
Identities = 64/250 (25%), Positives = 99/250 (39%), Gaps = 65/250 (26%)
Query: 269 VCFDKMFESTGWTLEEPMKFVPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKR 328
VC K F TL E K + + +E QG RVIA+A++TL + + +
Sbjct: 446 VCTHKRFGGAVVTLSESEK---SELQDMTAEMNRQGIRVIAVATKTLKVGE----ADFTK 498
Query: 329 EDIEKDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDP 388
D E+ L G + + K T+ I L + V ++TGDN I A+ C
Sbjct: 499 TD-EEQLIIEGFLGFLDPPKESTKEAIAALFKNGINVKVLTGDN---EIVTARIC----- 549
Query: 389 GETVVDVSAVPGGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGK 448
+E+G+ + + + G
Sbjct: 550 -------------------------------------------QEVGIDANDF---LLGA 563
Query: 449 SWELIRDQMPELIPRIIVKGAIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRA 508
E + D E + R + K IFAR++ QK +++ L++ G+ V GDG ND ALR
Sbjct: 564 DIEELSD---EELARELRKYHIFARLTPMQKSRIIGLLKKAGHTVGFLGDGINDAPALRK 620
Query: 509 AHAGISLSEA 518
A GIS+ A
Sbjct: 621 ADVGISVDTA 630
>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 = 70.8 bits (173), Expect = 8e-13
Identities = 56/246 (22%), Positives = 104/246 (42%), Gaps = 52/246 (21%)
Query: 281 TLEEPMKFVPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNY----MKREDIEKDLE 336
LE+ + E I++ + +G RV+A AS++ D + R E DLE
Sbjct: 580 PLEDCDR---ELIIANMESLAAEGLRVLAFASKSFDKADNNDDQLKNETLNRATAESDLE 636
Query: 337 FLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVS 396
FLGLI + + + ++ G +++ A + V M+TGD +TA ++A+E GII P
Sbjct: 637 FLGLIGIYDPPRNESAGAVEKCHQAGINVHMLTGDFPETAKAIAQEVGIIPPNF------ 690
Query: 397 AVPGGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQ 456
+E + +TG ++ + D+
Sbjct: 691 ------------------------------IHDRDEIMD------SMVMTGSQFDALSDE 714
Query: 457 MPELIPRIIVKGAIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLS 516
+ + + + + AR + K +++ L + + AM GDG ND +L+ A+ GI++
Sbjct: 715 EVDDLKALCL---VIARCAPQTKVKMIEALHRRKAFCAMTGDGVNDSPSLKMANVGIAMG 771
Query: 517 EAESPI 522
S +
Sbjct: 772 INGSDV 777
>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 = 68.6 bits (168), Expect = 4e-12
Identities = 57/220 (25%), Positives = 95/220 (43%), Gaps = 60/220 (27%)
Query: 296 VLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLKPQTEGVI 355
V+ R I LA R + E++ +++ K L +G++ +++ L+P +
Sbjct: 537 VIEPLASDALRTICLAYRDFAPEEFP-----RKDYPNKGLTLIGVVGIKDPLRPGVREAV 591
Query: 356 KELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKVYFTVSGV 415
+E + A + V M+TGDNI TA ++A+ CGI+ G
Sbjct: 592 QECQRAGITVRMVTGDNIDTAKAIARNCGILTF-------------------------GG 626
Query: 416 SAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIVKGAIFARMS 475
A++ K +F L+ ++M ++P++ V AR S
Sbjct: 627 LAMEGK--------------------EFR------SLVYEEMDPILPKLRV----LARSS 656
Query: 476 SDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
KQ LVL L+ +G VA+ GDG ND AL+ A G S+
Sbjct: 657 PLDKQLLVLMLKDMGEVVAVTGDGTNDAPALKLADVGFSM 696
>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 = 65.6 bits (160), Expect = 4e-11
Identities = 62/223 (27%), Positives = 99/223 (44%), Gaps = 38/223 (17%)
Query: 304 GYRVIALASRTLSIEDYKHLNYMKREDIE---KDLEFLGLIILENRLKPQTEGVIKELKD 360
G RV+ L E + +D+ +L F+GLI + + + + + +
Sbjct: 523 GERVLGFCHLYLPDEQFPEGFQFDTDDVNFPTDNLCFVGLISMIDPPRAAVPDAVGKCRS 582
Query: 361 ARVKVVMITGDNIQTAISVAKECGIIDPG-ETVVDVSAVPGGLKECPKVYFTVSGVSAIQ 419
A +KV+M+TGD+ TA ++AK GII G ETV D++A ++ VS V+
Sbjct: 583 AGIKVIMVTGDHPITAKAIAKGVGIISEGNETVEDIAA---------RLNIPVSQVNPRD 633
Query: 420 TKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIVKGA--IFARMSSD 477
KA ++ S ++D E + I+ +FAR S
Sbjct: 634 AKACVVHGSD-----------------------LKDMTSEQLDEILKYHTEIVFARTSPQ 670
Query: 478 QKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEAES 520
QK +V Q+ G VA+ GDG ND AL+ A G+++ A S
Sbjct: 671 QKLIIVEGCQRQGAIVAVTGDGVNDSPALKKADIGVAMGIAGS 713
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 62.0 bits (151), Expect = 5e-10
Identities = 51/216 (23%), Positives = 79/216 (36%), Gaps = 60/216 (27%)
Query: 299 EYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLKPQTEGVIKEL 358
Y G+RV+ +A+R + + + E+DL G + + K I L
Sbjct: 506 AYNADGFRVLLVATREIPGGESRAQ---YSTADERDLVIRGFLTFLDPPKESAAPAIAAL 562
Query: 359 KDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKVYFTVSGVSAI 418
++ V V ++TGDN I AK C
Sbjct: 563 RENGVAVKVLTGDN---PIVTAKIC----------------------------------- 584
Query: 419 QTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIVKGAIFARMSSDQ 478
E+GL G + G E + D + R + + +FA+++ Q
Sbjct: 585 -------------REVGLEPGE---PLLGTEIEAMDD---AALAREVEERTVFAKLTPLQ 625
Query: 479 KQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGIS 514
K +++ LQ G+ V GDG ND ALR A GIS
Sbjct: 626 KSRVLKALQANGHTVGFLGDGINDAPALRDADVGIS 661
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 61.6 bits (150), Expect = 6e-10
Identities = 61/230 (26%), Positives = 89/230 (38%), Gaps = 66/230 (28%)
Query: 291 ENIVSVLSEYTEQGYRVIALASRTL--SIEDYKHLNYMKREDIEKDLEFLGLIILENRLK 348
I V QG RV+A+A++ L DY+ R D E DL G I + K
Sbjct: 500 RRIKRVTDTLNRQGLRVVAVATKYLPAREGDYQ------RAD-ESDLILEGYIAFLDPPK 552
Query: 349 PQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKV 408
T +K LK + V V ++TGD+ A AK C
Sbjct: 553 ETTAPALKALKASGVTVKILTGDSELVA---AKVCH------------------------ 585
Query: 409 YFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIVKG 468
E+GL +G + G E + D + + +
Sbjct: 586 ------------------------EVGLDAGEV---LIGSDIETLSDDE---LANLAERT 615
Query: 469 AIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
+FAR++ K+++V L++ G+ V GDG ND ALRAA GIS+ A
Sbjct: 616 TLFARLTPMHKERIVTLLKREGHVVGFMGDGINDAPALRAADIGISVDGA 665
>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 = 60.0 bits (146), Expect = 2e-09
Identities = 58/232 (25%), Positives = 87/232 (37%), Gaps = 69/232 (29%)
Query: 287 KFVPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENR 346
K + E + + E +GYR + +A R D E FLGL+ L +
Sbjct: 399 KEIEEKVEEKVDELASRGYRALGVA----------------RTDEEGRWHFLGLLPLFDP 442
Query: 347 LKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECP 406
+ T+ I+ + V+V M+TGD AI AKE
Sbjct: 443 PRHDTKETIERARHLGVEVKMVTGD--HLAI--AKE------------------------ 474
Query: 407 KVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVTGKSWELIRDQMPELIPRIIV 466
T LGL + Y V K RD +P + ++
Sbjct: 475 -----------------------TARRLGLGTNIYTADVLLKG--DNRDDLPSGLGEMVE 509
Query: 467 KGAIFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
FA + + K ++V LQ+ G+ V M GDG ND AL+ A GI+++ A
Sbjct: 510 DADGFAEVFPEHKYEIVEILQKRGHLVGMTGDGVNDAPALKKADVGIAVAGA 561
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 58.8 bits (143), Expect = 4e-09
Identities = 24/57 (42%), Positives = 37/57 (64%)
Query: 331 IEKDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIID 387
+ D + +G+I L + L+P + I LK +KVVM+TGDN +TA ++AKE GI +
Sbjct: 522 VAVDGKLVGVIALADELRPDAKEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDE 578
Score = 52.2 bits (126), Expect = 5e-07
Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
+ A + + K ++V ELQ G VAM GDG ND AL AA GI++
Sbjct: 579 VRAELLPEDKAEIVRELQAEGRKVAMVGDGINDAPALAAADVGIAMGSG 627
>gnl|CDD|216069 pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This
family is structurally different from the alpha/beta
hydrolase family (pfam00561). This family includes
L-2-haloacid dehalogenase, epoxide hydrolases and
phosphatases. The structure of the family consists of
two domains. One is an inserted four helix bundle, which
is the least well conserved region of the alignment,
between residues 16 and 96 of Pseudomonas sp.
(S)-2-haloacid dehalogenase 1. The rest of the fold is
composed of the core alpha/beta domain. Those members
with the characteristic DxD triad at the N-terminus are
probably phosphatidylglycerolphosphate (PGP)
phosphatases involved in cardiolipin biosynthesis in the
mitochondria.
Length = 187
Score = 55.4 bits (133), Expect = 6e-09
Identities = 42/184 (22%), Positives = 67/184 (36%), Gaps = 33/184 (17%)
Query: 266 INCVCFDKMFESTGWTLEEPMKFVP--ENIVSVLSEYTEQGYRVIALASRTLSIEDYKHL 323
I V FD G TL + VP E ++ + E+
Sbjct: 1 IKAVVFDL----DG-TLTDGEPVVPEAEALLEAAAALGVAIVIAAGENLTKEGREELVRR 55
Query: 324 NYMKREDIEK----------------DLEFLGLIILENRLKPQTEGVIKELKDARVKVVM 367
++ E+ DL LGLI L + L P +KELK+A +K+ +
Sbjct: 56 LLLRALAGEELLEELLRAGATVVAVLDLVVLGLIALTDPLYPGAREALKELKEAGIKLAI 115
Query: 368 ITGDNIQTAISVAKECGIIDPGETVVDVSAVPGGLKECPKVYFTVSGVSAIQTKAKKLNY 427
+TGDN TA ++A+ G+ D + V G + PK++ ++L
Sbjct: 116 LTGDNRLTANAIARLLGLFDALVSADLYGLVGVGKPD-PKIFELA---------LEELGV 165
Query: 428 SKTE 431
E
Sbjct: 166 KPEE 169
Score = 28.4 bits (63), Expect = 6.3
Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 9/78 (11%)
Query: 436 LSSGAYKFAVTGKSWELIRDQMPELIPRIIVKGAIFARMSSDQKQQLVLELQQLGYY--- 492
L+ A + D + + + + L L++LG
Sbjct: 116 LTGDNRLTANAIARLLGLFDAL------VSADLYGLVGVGKPDPKIFELALEELGVKPEE 169
Query: 493 VAMCGDGANDCGALRAAH 510
V M GDG ND A +AA
Sbjct: 170 VLMVGDGVNDIPAAKAAG 187
>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 = 52.7 bits (127), Expect = 3e-07
Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
+ A + D K L+ +LQ+ G VAM GDG ND AL A GI++
Sbjct: 456 VRAEVLPDDKAALIKKLQEKGKVVAMVGDGINDAPALAQADVGIAIGAG 504
Score = 49.6 bits (119), Expect = 3e-06
Identities = 24/54 (44%), Positives = 37/54 (68%)
Query: 332 EKDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGI 385
+ E G++ L ++LKP+ + VI+ LK ++ VM+TGDN +TA +VAKE GI
Sbjct: 400 AVNGELAGVLALADQLKPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGI 453
>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 = 50.7 bits (122), Expect = 1e-06
Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
+ A + + K +V ELQ+ G VAM GDG ND AL AA GI++
Sbjct: 427 VHAELLPEDKLAIVKELQEEGGVVAMVGDGINDAPALAAADVGIAMGAG 475
Score = 50.7 bits (122), Expect = 1e-06
Identities = 25/56 (44%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 331 IEKDLEFLGLIILENRLKPQTEGVIKELKDA-RVKVVMITGDNIQTAISVAKECGI 385
+ D E LG+I L ++L+P+ + I LK A +K+VM+TGDN A +VA E GI
Sbjct: 369 VAVDGELLGVIALRDQLRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGI 424
>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 = 48.5 bits (116), Expect = 7e-06
Identities = 23/56 (41%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 331 IEKDLEFLGLIILENRLKPQTEGVIKELKDARV-KVVMITGDNIQTAISVAKECGI 385
+ +D +LG I+L + +P I ELK + KVVM+TGD A VA+E GI
Sbjct: 347 VARDGTYLGYILLSDEPRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGI 402
Score = 40.8 bits (96), Expect = 0.002
Identities = 20/51 (39%), Positives = 30/51 (58%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEAES 520
+ A + + K ++V EL++ VAM GDG ND AL AA GI++ + S
Sbjct: 405 VHAELLPEDKLEIVKELREKYGPVAMVGDGINDAPALAAADVGIAMGASGS 455
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 46.1 bits (110), Expect = 3e-05
Identities = 22/53 (41%), Positives = 33/53 (62%)
Query: 333 KDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGI 385
++ + LGLI L++ L+ I ELK +K VM+TGDN + A ++A E GI
Sbjct: 555 RNDDVLGLIALQDTLRADARQAISELKALGIKGVMLTGDNPRAAAAIAGELGI 607
Score = 34.2 bits (79), Expect = 0.21
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 479 KQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
K + V EL Q +AM GDG ND A++AA GI++
Sbjct: 618 KVKAVTELNQH-APLAMVGDGINDAPAMKAASIGIAM 653
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 44.9 bits (107), Expect = 8e-05
Identities = 22/57 (38%), Positives = 35/57 (61%)
Query: 331 IEKDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIID 387
+ ++ LG+I L++ +KP + EL+ +K VMITGDN TA ++A E G+ D
Sbjct: 432 VVENGRILGVIYLKDIVKPGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDD 488
Score = 37.6 bits (88), Expect = 0.016
Identities = 16/37 (43%), Positives = 21/37 (56%)
Query: 479 KQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
K L+ + Q G VAM GDG ND AL A G+++
Sbjct: 498 KLALIRQEQAEGRLVAMTGDGTNDAPALAQADVGVAM 534
>gnl|CDD|237437 PRK13582, thrH, phosphoserine phosphatase; Provisional.
Length = 205
Score = 42.6 bits (101), Expect = 2e-04
Identities = 18/37 (48%), Positives = 20/37 (54%)
Query: 477 DQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGI 513
D K+Q V L+ LGY V GD ND L A AGI
Sbjct: 131 DGKRQAVKALKSLGYRVIAAGDSYNDTTMLGEADAGI 167
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 44.1 bits (104), Expect = 2e-04
Identities = 57/248 (22%), Positives = 110/248 (44%), Gaps = 32/248 (12%)
Query: 297 LSEYTEQGYRVIALASRTLSIEDYK--HLNY------------MKRE---DIEKDLEFLG 339
L Y+ G R + + R L+ +++ H ++ + R+ ++E +L LG
Sbjct: 660 LHTYSSLGLRTLVVGMRELNDSEFEQWHFSFEAASTALIGRAALLRKVASNVENNLTILG 719
Query: 340 LIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVP 399
+E++L+ I+ L+ A +KV ++TGD +TAIS+ ++ T + +++
Sbjct: 720 ASAIEDKLQQGVPEAIESLRTAGIKVWVLTGDKQETAISIGYSSKLLTNKMTQIIINS-- 777
Query: 400 GGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGLSSGAYKFAVT----GKSWELIRD 455
+ C K S A+ K S + G SS A V G S + D
Sbjct: 778 NSKESCRK-----SLEDALVMSKKLTTVSGISQNTGGSSAAASDPVALIIDGTSLVYVLD 832
Query: 456 -QMPELIPRIIVKGAIF--ARMSSDQKQQLVLELQQLGYYVAMC-GDGANDCGALRAAHA 511
++ E + ++ K ++ R++ QK +V ++ + + GDGAND ++ A
Sbjct: 833 SELEEQLFQLASKCSVVLCCRVAPLQKAGIVALVKNRTSDMTLAIGDGANDVSMIQMADV 892
Query: 512 GISLSEAE 519
G+ +S E
Sbjct: 893 GVGISGQE 900
>gnl|CDD|162723 TIGR02137, HSK-PSP, phosphoserine phosphatase/homoserine
phosphotransferase bifunctional protein. This protein
is has been characterized as both a phosphoserine
phosphatase and a phosphoserine:homoserine
phosphotransferase. In Pseudomonas aeruginosa, where the
characterization was done, a second phosphoserine
phosphatase (SerB) and a second homoserine kinase (thrB)
are found, but in Fibrobacter succinogenes neither are
present. This enzyme is a member of the haloacid
dehalogenase (HAD) superfamily, specifically part of
subfamily IB by virtue of the presence of an alpha
helical domain in between motifs I and II of the HAD
domain. The closest homologs to this family are
monofunctional phosphoserine phosphatases (TIGR00338).
Length = 203
Score = 41.5 bits (97), Expect = 3e-04
Identities = 19/47 (40%), Positives = 23/47 (48%)
Query: 476 SDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEAESPI 522
D K+Q V+ + L Y V GD ND L AHAGI E+ I
Sbjct: 130 KDPKRQSVIAFKSLYYRVIAAGDSYNDTTMLSEAHAGILFHAPENVI 176
>gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. This model
describes the P-type ATPase subunit of the complex
responsible for translocating potassium ions across
biological membranes in microbes. In E. coli and other
species, this complex consists of the proteins KdpA,
KdpB, KdpC and KdpF. KdpB is the ATPase subunit, while
KdpA is the potassium-ion translocating subunit. The
function of KdpC is unclear, although cit has been
suggested to couple the ATPase subunit to the
ion-translocating subunit , while KdpF serves to
stabilize the complex. The potassium P-type ATPases have
been characterized as Type IA based on a phylogenetic
analysis which places this clade closest to the
heavy-metal translocating ATPases (Type IB). Others
place this clade closer to the Na+/K+ antiporter type
(Type IIC) based on physical characteristics. This model
is very clear-cut, with a strong break between trusted
hits and noise. All members of the seed alignment, from
Clostridium, Anabaena and E. coli are in the
characterized table. One sequence above trusted,
OMNI|NTL01TA01282, is apparently mis-annotated in the
primary literature, but properly annotated by TIGR
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 675
Score = 42.2 bits (99), Expect = 7e-04
Identities = 19/54 (35%), Positives = 31/54 (57%)
Query: 334 DLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIID 387
D G+I L++ +K + +L+ +K +MITGDN TA ++A E G+ D
Sbjct: 434 DNRIYGVIYLKDIVKGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDD 487
Score = 32.9 bits (75), Expect = 0.51
Identities = 17/45 (37%), Positives = 25/45 (55%)
Query: 472 ARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLS 516
A + + K L+ + Q G VAM GDG ND AL A G++++
Sbjct: 490 AEATPEDKIALIRQEQAEGKLVAMTGDGTNDAPALAQADVGVAMN 534
>gnl|CDD|226572 COG4087, COG4087, Soluble P-type ATPase [General function
prediction only].
Length = 152
Score = 39.1 bits (91), Expect = 0.001
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 470 IFARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGI 513
+FA + K +++ EL++ V M G+GAND ALR A GI
Sbjct: 73 VFAGADPEMKAKIIRELKKRYEKVVMVGNGANDILALREADLGI 116
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 41.3 bits (98), Expect = 0.001
Identities = 24/58 (41%), Positives = 35/58 (60%), Gaps = 6/58 (10%)
Query: 333 KDLEFLGLIILENRLKPQTEGV---IKELKDARVKVVMITGDNIQTAISVAKECGIID 387
+D LG+I L++ +KP G+ EL+ +K VMITGDN TA ++A E G+ D
Sbjct: 432 EDNRVLGVIYLKDIVKP---GIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDD 486
Score = 36.3 bits (85), Expect = 0.038
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 479 KQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGI 513
K L+ + Q G VAM GDG ND AL A G+
Sbjct: 496 KLALIRQEQAEGRLVAMTGDGTNDAPALAQADVGV 530
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 39.9 bits (94), Expect = 0.002
Identities = 12/54 (22%), Positives = 22/54 (40%)
Query: 180 ILRGRSLWDIVIKSLDIITIVIPPALPATMTVGKLYALTRLKKYNISCINSRVI 233
RG + ++++L ++ P ALP + + RL K I N +
Sbjct: 167 FFRGGDFLEALLRALAVLVAACPEALPLAVPLALAVGAGRLAKKGILVKNLSAL 220
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 40.9 bits (96), Expect = 0.002
Identities = 18/39 (46%), Positives = 22/39 (56%)
Query: 477 DQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISL 515
D K + + LQ G VAM GDG ND AL A GI++
Sbjct: 699 DGKAEAIKRLQSQGRQVAMVGDGINDAPALAQADVGIAM 737
Score = 35.5 bits (82), Expect = 0.077
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 347 LKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGI 385
L+ + ++ L A ++VM+TGDN TA ++AKE GI
Sbjct: 651 LRSDSVAALQRLHKAGYRLVMLTGDNPTTANAIAKEAGI 689
>gnl|CDD|240621 cd01620, Ala_dh_like, Alanine dehydrogenase and related
dehydrogenases. Alanine dehydrogenase/Transhydrogenase,
such as the hexameric L-alanine dehydrogenase of
Phormidium lapideum, contain 2 Rossmann fold-like
domains linked by an alpha helical region. Related
proteins include Saccharopine Dehydrogenase (SDH),
bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme,
N(5)-(carboxyethyl)ornithine synthase, and Rubrum
transdehydrogenase. Alanine dehydrogenase (L-AlaDH)
catalyzes the NAD-dependent conversion of pyrucate to
L-alanine via reductive amination. Transhydrogenases
found in bacterial and inner mitochondrial membranes
link NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matirx side. DI contains 2
domains with Rossmann folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with one dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
classical Rossmann domains.
Length = 317
Score = 38.2 bits (89), Expect = 0.009
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 8/99 (8%)
Query: 304 GYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRLKPQTEGVIKELKDARV 363
G +A + + L Y +E+ K +E LG L Q E + KELK +
Sbjct: 174 GLGAAKIAKKLGANV----LVYDIKEEKLKGVETLGGSRLR---YSQKEELEKELKQTDI 226
Query: 364 KVVMITGDNIQTAISVAKE-CGIIDPGETVVDVSAVPGG 401
+ I D + I + +E G + G +VD++A GG
Sbjct: 227 LINAILVDGPRAPILIMEELVGPMKRGAVIVDLAADQGG 265
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 37.0 bits (85), Expect = 0.025
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 338 LGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGI 385
LG+I L++ +K +EL++ ++ VM TGDN TA ++AKE G+
Sbjct: 433 LGVIYLKDVIKDGLVERFRELREMGIETVMCTGDNELTAATIAKEAGV 480
Score = 34.7 bits (79), Expect = 0.14
Identities = 17/47 (36%), Positives = 26/47 (55%)
Query: 472 ARMSSDQKQQLVLELQQLGYYVAMCGDGANDCGALRAAHAGISLSEA 518
A + K ++ E Q G+ VAM GDG ND AL A+ G++++
Sbjct: 485 AECKPEDKINVIREEQAKGHIVAMTGDGTNDAPALAEANVGLAMNSG 531
>gnl|CDD|221729 pfam12710, HAD, haloacid dehalogenase-like hydrolase.
Length = 122
Score = 33.7 bits (77), Expect = 0.056
Identities = 12/57 (21%), Positives = 22/57 (38%)
Query: 331 IEKDLEFLGLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIID 387
+ D L L+ + + + ++ VV+++G VAK GI D
Sbjct: 10 TDSDTALLLLLEALAEDRRLGLLGLSDAEELLELVVIVSGSPEPLVRPVAKALGIDD 66
Score = 31.8 bits (72), Expect = 0.28
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 464 IIVKGAIFARMSSDQKQQLVLELQQL--GYYVAMCGDGANDCGALR 507
++V G + ++ + K + L Q Y V GD +D AL+
Sbjct: 77 VLVDGRLTGKLDGEGKAAALKRLAQKIGRYPVVAVGDSISDLPALK 122
>gnl|CDD|119389 cd01427, HAD_like, Haloacid dehalogenase-like hydrolases. The
haloacid dehalogenase-like (HAD) superfamily includes
L-2-haloacid dehalogenase, epoxide hydrolase,
phosphoserine phosphatase, phosphomannomutase,
phosphoglycolate phosphatase, P-type ATPase, and many
others, all of which use a nucleophilic aspartate in
their phosphoryl transfer reaction. All members possess
a highly conserved alpha/beta core domain, and many also
possess a small cap domain, the fold and function of
which is variable. Members of this superfamily are
sometimes referred to as belonging to the DDDD
superfamily of phosphohydrolases.
Length = 139
Score = 33.1 bits (76), Expect = 0.13
Identities = 21/95 (22%), Positives = 39/95 (41%), Gaps = 3/95 (3%)
Query: 342 ILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGG 401
I E L P + +KELK+ +K+ + T + + + + +E G+ D + V+ + G
Sbjct: 20 IEELELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSN---GA 76
Query: 402 LKECPKVYFTVSGVSAIQTKAKKLNYSKTEEELGL 436
PK + G K + LG+
Sbjct: 77 AIYYPKEGLFLGGGPFDIGKPNPDKLLAALKLLGV 111
>gnl|CDD|112146 pfam03317, ELF, ELF protein. This is a family of hypothetical
proteins from cereal crops.
Length = 284
Score = 31.2 bits (70), Expect = 1.1
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 11/63 (17%)
Query: 74 LFILSIIIMTWVCIYITLIPSEFIIQFLQLR--------FPPNMQFPLIVIYLAICNFVL 125
+F I I ++ Y L+P I+ L PP +Q P + +LA NF L
Sbjct: 62 IFFFKISICRFISFYRILLP---ILHLFGLLTCASFLITLPPEIQDPQALAHLAGLNFYL 118
Query: 126 SLF 128
SL+
Sbjct: 119 SLY 121
>gnl|CDD|217269 pfam02887, PK_C, Pyruvate kinase, alpha/beta domain. As well as
being found in pyruvate kinase this family is found as
an isolated domain in some bacterial proteins.
Length = 117
Score = 29.8 bits (68), Expect = 1.1
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 373 IQTAISVAKECGIIDPGETVVDVSAVPGG 401
I A+ +AK+ G++ G+ VV + VP G
Sbjct: 77 IAEALRMAKDAGLVKKGDLVVVTAGVPVG 105
>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell
wall biogenesis [Cell envelope biogenesis, outer
membrane].
Length = 439
Score = 31.4 bits (71), Expect = 1.4
Identities = 13/149 (8%), Positives = 45/149 (30%), Gaps = 19/149 (12%)
Query: 2 FFQLILMVSMQIISFIIVHKFAWFEPFVYTNAISYSCYENYAVFSISMFQYIILAITFSQ 61
L ++ +++ + + + + + + + + +L +
Sbjct: 307 ILLLFSLLLPLLLTLL------FLLSIIPSLLLILLSGLLALLLANVILAAFLLILLIPP 360
Query: 62 GKPYRTPIYKNKLFILSIIIMTWVCIYITLIPSEFIIQFLQLRFPPNMQFPLIVIYLAIC 121
L + +++ + +T I + + + F +VI+ I
Sbjct: 361 L-----------LALFALLQLGVF--LVTTKGLRLIAKLVVYLLVILIIFLPLVIWPLIL 407
Query: 122 NFVLSLFIENFIIHYLLMIKFKRWSNDYK 150
L+L L++++K +
Sbjct: 408 ILNLTLLKTVSWRTLNLVVEWKTLRGIQR 436
>gnl|CDD|211993 TIGR04270, Rama_corrin_act, methylamine methyltransferase corrinoid
protein reductive activase. Members of this family
occur as paralogs in species capable of generating
methane from mono-, di-, and tri-methylamine. Members
include RamA (Reductive Activation of Methyltransfer,
Amines) from Methanosarcina barkeri MS (DSM 800). Member
proteins have two C-terminal motifs with four Cys each,
likely to bind one 4Fe-4S cluster per motif.
Length = 535
Score = 31.3 bits (71), Expect = 1.4
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 330 DIEKDLEFLGLIILENRLKPQ-------TEGVIKELKDARVKVVMITGDNIQTAISVAKE 382
D+E + F ++L+ +KP G KE + R ITG + AI + E
Sbjct: 217 DLEPEGGFWRNMVLDEEMKPVPGPLVDPRTGEFKESGNPR-PAKGITGTGVIAAIYLGIE 275
Query: 383 CGIIDP 388
CG+I+
Sbjct: 276 CGLIEL 281
>gnl|CDD|240151 cd05024, S-100A10, S-100A10: A subgroup of the S-100A10 domain
found in proteins similar to S100A10. S100A10 is a
member of the S100 family of EF-hand superfamily of
calcium-binding proteins. Note that the S-100 hierarchy,
to which this S-100A10 group belongs, contains only
S-100 EF-hand domains, other EF-hands have been modeled
separately. S100 proteins are expressed exclusively in
vertebrates, and are implicated in intracellular and
extracellular regulatory activities. A unique feature of
S100A10 is that it contains mutation in both of the
calcium binding sites, making it calcium insensitive.
S100A10 has been detected in brain, heart,
gastrointestinal tract, kidney, liver, lung, spleen,
testes, epidermis, aorta, and thymus. Structural data
supports the homo- and hetero-dimeric as well as
hetero-tetrameric nature of the protein. S100A10 has
multiple binding partners in its calcium free state and
is therefore involved in many diverse biological
functions.
Length = 91
Score = 29.0 bits (65), Expect = 1.6
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 5/42 (11%)
Query: 324 NYMKREDIEK--DLEFLGLIILENRLKPQT-EGVIKELKDAR 362
NY+ R+D++K + EF L+N+ P + ++K+L D R
Sbjct: 22 NYLNRDDLQKLMEKEFSEF--LKNQNDPMAVDKIMKDLDDCR 61
>gnl|CDD|233018 TIGR00551, nadB, L-aspartate oxidase. L-aspartate oxidase is the B
protein, NadB, of the quinolinate synthetase complex.
Quinolinate synthetase makes a precursor of the pyridine
nucleotide portion of NAD. This model identifies
proteins that cluster as L-aspartate oxidase (a
flavoprotein difficult to separate from the set of
closely related flavoprotein subunits of succinate
dehydrogenase and fumarate reductase) by both UPGMA and
neighbor-joining trees. The most distant protein
accepted as an L-aspartate oxidase (NadB), that from
Pyrococcus horikoshii, not only clusters with other NadB
but is just one gene away from NadA [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 488
Score = 30.2 bits (68), Expect = 2.9
Identities = 14/48 (29%), Positives = 17/48 (35%)
Query: 439 GAYKFAVTGKSWELIRDQMPELIPRIIVKGAIFARMSSDQKQQLVLEL 486
GAY G + EL PR IV AI M + L+
Sbjct: 247 GAYLVDRDGTRFMADFHPRGELAPRDIVARAIDHEMKRGGADCVFLDA 294
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 30.1 bits (68), Expect = 3.5
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 68 PIYKNKLFILSIIIMTWVCIYITLIP--SEFIIQFLQLRFPPNMQFPLIVIYLAICNFVL 125
K KL +L+I+++ + L+P II L ++ L+++ LA+ VL
Sbjct: 9 KYLKYKLLLLAILLLLLSALLSLLLPLLIGRIIDALLADLGELLELLLLLLLLALLGGVL 68
Query: 126 SLFIENFIIHYL 137
+++++ L
Sbjct: 69 R-ALQSYLGSRL 79
>gnl|CDD|173004 PRK14538, PRK14538, putative bifunctional signaling protein/50S
ribosomal protein L9; Provisional.
Length = 838
Score = 30.2 bits (68), Expect = 3.6
Identities = 22/102 (21%), Positives = 39/102 (38%), Gaps = 11/102 (10%)
Query: 70 YKNKLFILSIIIMTWVCIYITLIPSEFIIQFLQLRFPPNMQFPLIVIYLAICNFVLSLFI 129
+K K +++I+I+ + I++ Q+ N I NF+ + +
Sbjct: 7 HKTKFIVIAIVIVVLILIFLCFDLQNIQEIIEQINQLTNNSGMRKKIIFFTFNFLGKIIL 66
Query: 130 ENFIIHYLLMIKFKRWSNDYKSCKYIGIENELDSNYMWPKLS 171
II +LL IK K I+ + +W KLS
Sbjct: 67 AILIISFLLNIK-----------KNAQIKRLQNKLSLWSKLS 97
>gnl|CDD|183025 PRK11188, rrmJ, 23S rRNA methyltransferase J; Provisional.
Length = 209
Score = 29.3 bits (66), Expect = 3.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 385 IIDPGETVVDVSAVPGG 401
+ PG TVVD+ A PGG
Sbjct: 48 LFKPGMTVVDLGAAPGG 64
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 29.9 bits (68), Expect = 4.2
Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 10/53 (18%)
Query: 74 LFILSIIIMTWVCIYITLIPSEFIIQFLQLRFPPNMQFPLIVIYLAICNFVLS 126
IL+ +++ V + + L+ LR + L IC F+L
Sbjct: 1 ALILTDLLLVLVALALALL----------LRDELSASLWSGAQLLTICVFILF 43
>gnl|CDD|232927 TIGR00338, serB, phosphoserine phosphatase SerB. Phosphoserine
phosphatase catalyzes the reaction 3-phospho-serine +
H2O = L-serine + phosphate. It catalyzes the last of
three steps in the biosynthesis of serine from
D-3-phosphoglycerate. Note that this enzyme acts on free
phosphoserine, not on phosphoserine residues of
phosphoproteins [Amino acid biosynthesis, Serine
family].
Length = 219
Score = 29.2 bits (66), Expect = 4.4
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 495 MCGDGANDCGALRAAHAGI 513
GDGAND ++AA GI
Sbjct: 173 AVGDGANDLSMIKAAGLGI 191
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 29.6 bits (67), Expect = 4.6
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 288 FVPENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDIEKDLEFLGLIILENRL 347
+PE +VS L +G R I A +E+ K L ++ + +LEF+G +
Sbjct: 34 IIPEAVVSELEAQANRG-REIGFAG----LEELKKL-RDLADEGKIELEFVGERPTLEEI 87
Query: 348 KPQTEGVIKELKD---ARVKVVMITGDNIQTAISVAK 381
K G I + ++T D +Q ++ AK
Sbjct: 88 KRAKSGEIDAMIREVALEYGATLVTSDRVQRDVARAK 124
>gnl|CDD|184475 PRK14047, PRK14047, putative methyltransferase; Provisional.
Length = 310
Score = 29.3 bits (66), Expect = 5.1
Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 24/101 (23%)
Query: 308 IALASRTL------SIEDYKHLNYMKREDIEKDLEFLGLIILE-NRLKPQTEGVIKELKD 360
I LA R + SI + + +K+ DI+ I+L N + +G ++ L+
Sbjct: 119 IGLADRAIYNSINMSIHE-SEIEALKQSDIDSS------IVLGFNAMDSSLKGRMEMLET 171
Query: 361 ARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGG 401
G + + +A +CGI + ++D S P G
Sbjct: 172 G-------GGLLEKGLLEIADDCGITNI---LIDPSITPMG 202
>gnl|CDD|211800 TIGR03253, oxalate_frc, formyl-CoA transferase. This enzyme,
formyl-CoA transferase, transfers coenzyme A from
formyl-CoA to oxalate. It forms a pathway, together with
oxalyl-CoA decarboxylase, for oxalate degradation;
decarboxylation by the latter gene regenerates
formyl-CoA. The two enzymes typically are encoded by a
two-gene operon [Cellular processes, Detoxification].
Length = 415
Score = 29.4 bits (66), Expect = 5.1
Identities = 22/96 (22%), Positives = 30/96 (31%), Gaps = 21/96 (21%)
Query: 139 MIKFKRWSNDYKSCKYIGIENELDSNYMWPKLSS---DPE----PNYEILRGRSLWDIVI 191
++K K W D + Y I+ W ++ PE P Y R
Sbjct: 253 ILKCKGWETDPNAYVYFTIQAN-----NWEQICDMIGKPEWITDPAYATPEAR-----QP 302
Query: 192 KSLDIITIVIPPALPATMTVGKLYALTRLKKYNISC 227
K DI + T T K L +Y I C
Sbjct: 303 KLNDIFAFI----ETYTATKDKFEVTEWLNQYGIPC 334
>gnl|CDD|223720 COG0647, NagD, Predicted sugar phosphatases of the HAD superfamily
[Carbohydrate transport and metabolism].
Length = 269
Score = 29.1 bits (66), Expect = 6.0
Identities = 23/104 (22%), Positives = 41/104 (39%), Gaps = 12/104 (11%)
Query: 339 GLIILENRLKPQTEGVIKELKDARVKVVMITGDNIQTAISVA---KECGIID-PGETVVD 394
G++ N P +K LK A V+ +T ++ ++ VA G +D + +V
Sbjct: 17 GVLYRGNEAIPGAAEALKRLKAAGKPVIFLTNNSTRSREVVAARLSSLGGVDVTPDDIVT 76
Query: 395 VSAVP-----GGLKECPKVYFTVSGVSAIQTKAKKLNYSKTEEE 433
S K KVY V G ++ + + + +EE
Sbjct: 77 -SGDATADYLAKQKPGKKVY--VIGEEGLKEELEGAGFELVDEE 117
>gnl|CDD|173361 PTZ00066, PTZ00066, pyruvate kinase; Provisional.
Length = 513
Score = 29.0 bits (65), Expect = 6.7
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 6/54 (11%)
Query: 354 VIKELKDAR-VKVVMI-----TGDNIQTAISVAKECGIIDPGETVVDVSAVPGG 401
V+K L AR V ++ T I+ AI++AKE G+++ G++ + V V
Sbjct: 446 VVKSLSVARGVTTYVVNSFQGTDVVIRNAIALAKERGLVESGDSAIAVHGVKEE 499
>gnl|CDD|238178 cd00288, Pyruvate_Kinase, Pyruvate kinase (PK): Large allosteric
enzyme that regulates glycolysis through binding of the
substrate, phosphoenolpyruvate, and one or more
allosteric effectors. Like other allosteric enzymes, PK
has a high substrate affinity R state and a low affinity
T state. PK exists as several different isozymes,
depending on organism and tissue type. In mammals,
there are four PK isozymes: R, found in red blood cells,
L, found in liver, M1, found in skeletal muscle, and M2,
found in kidney, adipose tissue, and lung. PK forms a
homotetramer, with each subunit containing three
domains. The T state to R state transition of PK is
more complex than in most allosteric enzymes, involving
a concerted rotation of all 3 domains of each monomer in
the homotetramer.
Length = 480
Score = 29.2 bits (66), Expect = 6.7
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 10/43 (23%)
Query: 359 KDARVKVVMITGDNIQTAISVAKECGIIDPGETVVDVSAVPGG 401
DAR+K A++VAKE G++ G+ VV V P G
Sbjct: 436 TDARLKA----------AVNVAKEKGLLKKGDLVVVVQGWPVG 468
>gnl|CDD|234570 PRK00009, PRK00009, phosphoenolpyruvate carboxylase; Reviewed.
Length = 911
Score = 29.3 bits (67), Expect = 6.9
Identities = 28/117 (23%), Positives = 40/117 (34%), Gaps = 30/117 (25%)
Query: 306 RVIALASRTLSIEDYKHLNYMKREDIEKDLEFLG--------LIILENRLKPQTEGVIKE 357
+A +R L + DY L+ E EK FL LI T + E
Sbjct: 418 DAVAELTRYLGLGDYASLS----EA-EK-QAFLLRELNSRRPLIPPNWEYSELTSKELAE 471
Query: 358 LKDARVKVVMITGDNI--QTAISVA-------------KECGIIDPGETVVDVSAVP 399
AR +++ G IS+A KE G++DP + VP
Sbjct: 472 FLAAR-RLIAEFGAEAIGAYIISMAETVSDVLEVLLLLKEAGLLDPAAARAPLPVVP 527
>gnl|CDD|226874 COG4468, GalT, Galactose-1-phosphate uridyltransferase
[Carbohydrate transport and metabolism].
Length = 503
Score = 28.6 bits (64), Expect = 9.2
Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 320 YKHLNYMKREDIEKDLEFLGLIILENRLKPQTEGVIKELKDARVKVV 366
++ ++++K+E+I +E +GL IL RLK + E V + L + K+
Sbjct: 389 HQEVHHIKKENIGL-IEVMGLAILPGRLKEELEEVAEYLLGEKKKIN 434
>gnl|CDD|214792 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM.
This superfamily contains MoaA, NifB, PqqE,
coproporphyrinogen III oxidase, biotin synthase and MiaB
families, and includes a representative in the
eukaryotic elongator subunit, Elp-3. Some members of the
family are methyltransferases.
Length = 216
Score = 28.1 bits (63), Expect = 9.2
Identities = 27/138 (19%), Positives = 49/138 (35%), Gaps = 32/138 (23%)
Query: 290 PENIVSVLSEYTEQGYRVIALASRTLSIEDYKHLNYMKREDI------EKDLEFLGLIIL 343
E +V + E+G + + + + L+ + E++ L I +
Sbjct: 32 LEALVREIELLAEKGEKEGLVGTVFIGGGTPTLLSPEQLEELLEAIREILGLAKDVEITI 91
Query: 344 ENRLKPQTEGVIKELKDARVKVV-----------------MITGDNIQTAISVAKECGII 386
E R TE +++ LK+A V V T +++ A+ + +E G I
Sbjct: 92 ETRPDTLTEELLEALKEAGVNRVSLGVQSGDDEVLKAINRGHTVEDVLEAVELLREAGPI 151
Query: 387 D---------PGETVVDV 395
PGET D
Sbjct: 152 KVSTDLIVGLPGETEEDF 169
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 28.7 bits (65), Expect = 9.7
Identities = 18/65 (27%), Positives = 25/65 (38%), Gaps = 12/65 (18%)
Query: 347 LKPQTEGVIKELKDARVKVVMI------TGDNIQTAISVAKECGIIDP----GET-VVDV 395
+ PQT I K A V +V+ N +E G++ P G+ V V
Sbjct: 92 VMPQTIEAINHAKAAGVPIVVAINKIDKPEANPDKVKQELQEYGLV-PEEWGGDVIFVPV 150
Query: 396 SAVPG 400
SA G
Sbjct: 151 SAKTG 155
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
0.324 0.139 0.413
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,018,655
Number of extensions: 2747269
Number of successful extensions: 4053
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3993
Number of HSP's successfully gapped: 199
Length of query: 523
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 422
Effective length of database: 6,457,848
Effective search space: 2725211856
Effective search space used: 2725211856
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 61 (27.2 bits)