RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16789
(608 letters)
>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 = 632 bits (1631), Expect = 0.0
Identities = 276/502 (54%), Positives = 350/502 (69%), Gaps = 28/502 (5%)
Query: 116 LHRLLEVGCVCNNASII--GDSLLGQPTEGALLAAGMKFGLYAVNEHYVRLKEYPFSSEQ 173
+ R+LE G +CNNA D+LLG PT+ AL+ MKFGL + E Y+R+ E PFSSE+
Sbjct: 381 VSRILEAGNLCNNAKFRNEADTLLGNPTDVALIELLMKFGLDDLRETYIRVAEVPFSSER 440
Query: 174 KMMAVRVHKIGHNLPS---KRDGKMILSQSCSEYPK--------------------FQTL 210
K MAV+ K + +L C+ Y K +
Sbjct: 441 KWMAVKCVHRQDRSEMCFMKGAYEQVLK-YCTYYQKKDGKTLTLTQQQRDVIQEEAAEMA 499
Query: 211 GKGL--VAMARGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETAT 268
GL +A A G L ++GLVGI DPPRP V+E ++TL+ GV++ ++TGD QETA
Sbjct: 500 SAGLRVIAFASGPEKGQLTFLGLVGINDPPRPGVKEAVTTLITGGVRIIMITGDSQETAV 559
Query: 269 AIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVI 328
+IA +G+ + + +SG+++D M + QL Q+V V VF R +P HK+ IVKA Q G +
Sbjct: 560 SIARRLGMPSKTSQSVSGEKLDAMDDQQLSQIVPKVAVFARASPEHKMKIVKALQKRGDV 619
Query: 329 VGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYN 388
V MTGDGVND ALK ADIG+AMG+ GTDV KEAADMIL DDDF TI++AIEEGKGIF N
Sbjct: 620 VAMTGDGVNDAPALKLADIGVAMGQTGTDVAKEAADMILTDDDFATILSAIEEGKGIFNN 679
Query: 389 IRNFVRFQLSTSIAALSLIALATLLRIPNPLNAMQILWINIIMDGPPAQSLGVEPVDDDV 448
I+NF+ FQLSTS+AALSLIALATL+ PNPLNAMQILWINI+MDGPPAQSLGVEPVD DV
Sbjct: 680 IKNFITFQLSTSVAALSLIALATLMGFPNPLNAMQILWINILMDGPPAQSLGVEPVDKDV 739
Query: 449 KIQKPRNVKEPMITRALVVNVLMSASIIIVGTLYVFKREMSDNIVSKRDTTMTFTCFVFF 508
+ PR + ++T+ L+ +L+SA II+VGTL+VF REM D +++ RDTTMTFTCFVFF
Sbjct: 740 MRKPPRPRNDKILTKDLIKKILVSAIIIVVGTLFVFVREMQDGVITARDTTMTFTCFVFF 799
Query: 509 DMFNALSCRSQIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKVFQTEALTINDI 568
DMFNAL+CRSQ KSVF IG F+N+MF +AV S++GQL VIYFPPLQ VFQTEAL+I D+
Sbjct: 800 DMFNALACRSQTKSVFEIGFFSNRMFNYAVGGSIIGQLLVIYFPPLQSVFQTEALSIKDL 859
Query: 569 AFLTALTSTVFFVSEIKKAIER 590
FL +TS+V V EI+K +ER
Sbjct: 860 LFLLLITSSVCIVDEIRKKVER 881
Score = 81.4 bits (201), Expect = 5e-16
Identities = 38/93 (40%), Positives = 53/93 (56%), Gaps = 3/93 (3%)
Query: 17 EKVHGDGRNSSRIRSKPETGTLLEVGCVCNNASII--GDSLLGQPTEGALLAAGMKFGLY 74
+V DG + +LE G +CNNA D+LLG PT+ AL+ MKFGL
Sbjct: 364 GEVIVDGDVLHGFYT-VAVSRILEAGNLCNNAKFRNEADTLLGNPTDVALIELLMKFGLD 422
Query: 75 AVNEHYVRLKEYPFSSEQKMMAVRCIPKEGSSC 107
+ E Y+R+ E PFSSE+K MAV+C+ ++ S
Sbjct: 423 DLRETYIRVAEVPFSSERKWMAVKCVHRQDRSE 455
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 385 bits (990), Expect = e-123
Identities = 174/561 (31%), Positives = 274/561 (48%), Gaps = 71/561 (12%)
Query: 93 KMMAVRCIPKEGSSCDVDTRFFF----LHRLLEVGCVCNNASI--IGDSLLGQPTEGALL 146
KM + G D+D + L R L +CN+ + G G PTEGAL+
Sbjct: 363 KMTVKKIYINGGGK-DIDDKDLKDSPALLRFLLAAALCNSVTPEKNGWYQAGDPTEGALV 421
Query: 147 AAGMKFG----LYAVNEHYVRLKEYPFSSEQKMMAVRVHKIGHNLPSKRDGKMI------ 196
K G L + Y L E PF SE+K M+V + K + ++
Sbjct: 422 EFAEKLGFSLDLSGLEVEYPILAEIPFDSERKRMSV-IVK------TDEGKYILFVKGAP 474
Query: 197 --LSQSCSEYPKFQTL----------------GKGLVAMARGSNL--------------Q 224
+ + C + + L +GL +A
Sbjct: 475 EVILERCKSIGELEPLTEEGLRTLEEAVKELASEGLRVLAVAYKKLDRAEKDDEVDEIES 534
Query: 225 DLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGL--DTIHGK 282
DL ++GL GI DPPR V+E + L ++G+KV ++TGD ETA AIA G+ +
Sbjct: 535 DLVFLGLTGIEDPPREDVKEAIEELREAGIKVWMITGDHVETAIAIAKECGIEAEAESAL 594
Query: 283 VLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVAL 342
V+ G ++D +++ +L ++V ++VF RV+P K IV+A Q +G +V MTGDGVND AL
Sbjct: 595 VIDGAELDALSDEELAELVEELSVFARVSPEQKARIVEALQKSGHVVAMTGDGVNDAPAL 654
Query: 343 KKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIA 402
K AD+GIAMG +GTD KEAAD++L+DD+F TI+ A+ EG+ ++ NI+ F+ + LS ++
Sbjct: 655 KAADVGIAMGGEGTDAAKEAADIVLLDDNFATIVLAVVEGRRVYVNIKKFILYLLSKNVG 714
Query: 403 ALSLIALATLLRIPN-PLNAMQILWINIIMDGPPAQSLGVEPVDDDVKIQKPRNVKEPMI 461
+ + + +L + PL +Q+LWIN++ D PA +LGVE + DV + PR +E +
Sbjct: 715 EVLTLLIYSLFNLFFLPLTPLQLLWINLLTDSLPALALGVEDPESDVMKRPPRGPEEGLF 774
Query: 462 TRALVVNVLMSASIIIV----GTLYVFKREMSDN-----IVSKRDTTMTFTCFVFFDMFN 512
R + ++ ++ T ++ N + T FT V +
Sbjct: 775 NRKIFWRFILIIGLLSAILFILTFLLYLLGFIANTLGLDLFQALLQTTAFTVLVLIQLLL 834
Query: 513 ALSCRSQIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQ-KVFQTEALTIND--IA 569
L+ RS+ + + LF+NK A+ ++ QL +I+ PPL K+FQ L++ + IA
Sbjct: 835 TLAVRSRGRPFLSSLLFSNKYLWLALLVIIILQLLIIFLPPLNLKIFQPTPLSLFEWLIA 894
Query: 570 FLTALTSTVFFVSEIKKAIER 590
AL VSE+ K R
Sbjct: 895 IAVALLLLYIVVSELYKLKSR 915
Score = 54.6 bits (132), Expect = 1e-07
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 6/84 (7%)
Query: 20 HGDGRNSSRIRSKPETGTLLEVGCVCNNASI--IGDSLLGQPTEGALLAAGMKFG----L 73
G + ++ P L +CN+ + G G PTEGAL+ K G L
Sbjct: 374 GGKDIDDKDLKDSPALLRFLLAAALCNSVTPEKNGWYQAGDPTEGALVEFAEKLGFSLDL 433
Query: 74 YAVNEHYVRLKEYPFSSEQKMMAV 97
+ Y L E PF SE+K M+V
Sbjct: 434 SGLEVEYPILAEIPFDSERKRMSV 457
>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 = 299 bits (766), Expect = 2e-90
Identities = 173/568 (30%), Positives = 268/568 (47%), Gaps = 94/568 (16%)
Query: 116 LHRLLEVGCVCNNASIIGDSL------LGQPTEGALLAAGMKFGLYA------------- 156
L L + +CN++S+ + +G+ TE AL K GL A
Sbjct: 351 LEELATIAALCNDSSLDFNERKGVYEKVGEATEAALKVLVEKMGLPATKNGVSSKRRPAL 410
Query: 157 -----VNEHYVRLKEYPFSSEQKMMAVRVH-KIGHNLPSK-------RDGKMILSQSCSE 203
N+ + +L FS ++K M+V G+ L K IL+
Sbjct: 411 GCNSVWNDKFKKLATLEFSRDRKSMSVLCKPSTGNKLFVKGAPEGVLERCTHILNGDGRA 470
Query: 204 YP-----KFQTL--------GKGL--VAMARGSNLQ------------------DLCYMG 230
P K L K L +A+A DL ++G
Sbjct: 471 VPLTDKMKNTILSVIKEMGTTKALRCLALAFKDIPDPREEDLLSDPANFEAIESDLTFIG 530
Query: 231 LVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGL----DTIHGKVLSG 286
+VG+ DPPRP V + + +G++V ++TGD +ETA AI +G+ + + K +G
Sbjct: 531 VVGMLDPPRPEVADAIEKCRTAGIRVIMITGDNKETAEAICRRIGIFSPDEDVTFKSFTG 590
Query: 287 DQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKAD 346
+ D+M + + S +F RV P HK +V+ Q G IV MTGDGVND ALKKAD
Sbjct: 591 REFDEMGPAKQRAACRSAVLFSRVEPSHKSELVELLQEQGEIVAMTGDGVNDAPALKKAD 650
Query: 347 IGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSL 406
IGIAMG GT+V KEA+DM+L DD+F TI+AA+EEG+ I+ N++ F+R+ +S++I +
Sbjct: 651 IGIAMG-SGTEVAKEASDMVLADDNFATIVAAVEEGRAIYNNMKQFIRYMISSNIGEVVC 709
Query: 407 IALATLLRIPNPLNAMQILWINIIMDGPPAQSLGVEPVDDDVKIQKPRNVKEPMITRALV 466
I L L IP L +Q+LW+N++ DG PA +LG P D D+ + PR EP+IT L
Sbjct: 710 IFLTAALGIPEGLIPVQLLWVNLVTDGLPATALGFNPPDKDIMWKPPRRPDEPLITGWLF 769
Query: 467 VNVLMSASIIIVGTLYVF---------KREMSDNIVSKRD---------------TTMTF 502
L+ + + T+ F D+ + D T++
Sbjct: 770 FRYLVVGVYVGLATVGGFVWWYLLTHFTGCDEDSFTTCPDFEDPDCYVFEGKQPARTISL 829
Query: 503 TCFVFFDMFNALSCRSQIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKVFQTEA 562
+ V +MFNAL+ S+ +S+ + + NK + A+C S+ ++Y P L ++F
Sbjct: 830 SVLVVIEMFNALNALSEDQSLLRMPPWVNKWLIGAICLSMALHFLILYVPFLSRIFGVTP 889
Query: 563 LTINDIAFLTALTSTVFFVSEIKKAIER 590
L++ D + L+ V V E+ K R
Sbjct: 890 LSLTDWLMVLKLSLPVILVDEVLKFFSR 917
Score = 32.1 bits (73), Expect = 0.99
Identities = 26/114 (22%), Positives = 44/114 (38%), Gaps = 26/114 (22%)
Query: 17 EKVHGDGRNSSRIRSKPETGTLLEVGCVCNNASIIGDSL------LGQPTEGALLAAGMK 70
+ DG + + E L + +CN++S+ + +G+ TE AL K
Sbjct: 335 GVIKDDGPVAGGQDAGLEE--LATIAALCNDSSLDFNERKGVYEKVGEATEAALKVLVEK 392
Query: 71 FGLYA------------------VNEHYVRLKEYPFSSEQKMMAVRCIPKEGSS 106
GL A N+ + +L FS ++K M+V C P G+
Sbjct: 393 MGLPATKNGVSSKRRPALGCNSVWNDKFKKLATLEFSRDRKSMSVLCKPSTGNK 446
>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 = 231 bits (592), Expect = 7e-66
Identities = 145/476 (30%), Positives = 239/476 (50%), Gaps = 50/476 (10%)
Query: 137 LGQPTEGALLAAGMKFG---LYAVNEHYVRLKEYPFSSEQKMMAVRVHKIGHNLPSKRDG 193
+G TE ALL G+ E V +K YPF+SE+K M+V V G R G
Sbjct: 446 IGSKTECALLDFGLLLLRDYQEVRAEEKV-VKIYPFNSERKFMSVVVKHSGGKYREFRKG 504
Query: 194 -KMILSQSCSEY---------------PKFQTLGKGLVAMA-RGSNL--QDLCY------ 228
I+ + C + + + + L + A R L +D
Sbjct: 505 ASEIVLKPCRKRLDSNGEATPISDDDKDRCADVIEPLASDALRTICLAYRDFAPEEFPRK 564
Query: 229 ---------MGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTI 279
+G+VGI DP RP VRE + ++G+ V++VTGD +TA AIA G+ T
Sbjct: 565 DYPNKGLTLIGVVGIKDPLRPGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGILTF 624
Query: 280 HGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDG 339
G + G + + ++ ++ + V R +P K +V + G +V +TGDG ND
Sbjct: 625 GGLAMEGKEFRSLVYEEMDPILPKLRVLARSSPLDKQLLVLMLKDMGEVVAVTGDGTNDA 684
Query: 340 VALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLST 399
ALK AD+G +MG GT+V KEA+D+IL+DD+F +I+ A++ G+ ++ NIR F++FQL+
Sbjct: 685 PALKLADVGFSMGISGTEVAKEASDIILLDDNFASIVRAVKWGRNVYDNIRKFLQFQLTV 744
Query: 400 SIAALSLIALATLLRIPNPLNAMQILWINIIMDGPPAQSLGVEPVDDDVKIQKPRNVKEP 459
++ A+ L + + + +PL A+Q+LW+N+IMD A +L EP + + +KP P
Sbjct: 745 NVVAVILTFVGSCISSTSPLTAVQLLWVNLIMDTLAALALATEPPTEALLDRKPIGRNAP 804
Query: 460 MITRALVVNVLMSAS--IIIVGTLY-----VFKREMSDNIVSKRDT---TMTFTCFVFFD 509
+I+R++ N+L A +++ L +F D I S + T+ F FV
Sbjct: 805 LISRSMWKNILGQAGYQLVVTFILLFAGGSIFDVSGPDEITSHQQGELNTIVFNTFVLLQ 864
Query: 510 MFNALSCRSQIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKVFQTEALTI 565
+FN ++ R + GLF N++F+ + + Q+ ++ F F T +L+I
Sbjct: 865 LFNEINARKLYERNVFEGLFKNRIFVTIMGFTFGFQVIIVEF--GGSFFSTVSLSI 918
Score = 30.5 bits (69), Expect = 3.3
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 56 LGQPTEGALLAAGMKFG---LYAVNEHYVRLKEYPFSSEQKMMAVRCIPKEGS 105
+G TE ALL G+ E V +K YPF+SE+K M+V G
Sbjct: 446 IGSKTECALLDFGLLLLRDYQEVRAEEKV-VKIYPFNSERKFMSVVVKHSGGK 497
>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 = 194 bits (495), Expect = 8e-53
Identities = 132/436 (30%), Positives = 210/436 (48%), Gaps = 69/436 (15%)
Query: 223 LQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVG------- 275
+LC++GL+ + DPPR V + + +G+KV +VTGD TA AIA VG
Sbjct: 554 TDNLCFVGLISMIDPPRAAVPDAVGKCRSAGIKVIMVTGDHPITAKAIAKGVGIISEGNE 613
Query: 276 ------------LDTIHGK-----VLSGDQIDQMTEHQLQQVVNSVT--VFYRVTPRHKL 316
+ ++ + V+ G + MT QL +++ T VF R +P+ KL
Sbjct: 614 TVEDIAARLNIPVSQVNPRDAKACVVHGSDLKDMTSEQLDEILKYHTEIVFARTSPQQKL 673
Query: 317 TIVKAFQANGVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTII 376
IV+ Q G IV +TGDGVND ALKKADIG+AMG G+DV K+AADMIL+DD+F +I+
Sbjct: 674 IIVEGCQRQGAIVAVTGDGVNDSPALKKADIGVAMGIAGSDVSKQAADMILLDDNFASIV 733
Query: 377 AAIEEGKGIFYNIRNFVRFQLSTSIAALSLIALATLLRIPNPLNAMQILWINIIMDGPPA 436
+EEG+ IF N++ + + L+++I ++ + + IP PL + IL I++ D PA
Sbjct: 734 TGVEEGRLIFDNLKKSIAYTLTSNIPEITPFLIFIIANIPLPLGTITILCIDLGTDMVPA 793
Query: 437 QSLGVEPVDDDVKIQKPRN------VKEPMITRA-------------LVVNVLMSASIII 477
SL E + D+ ++PRN V E +I+ A V+++ + +
Sbjct: 794 ISLAYEKAESDIMKRQPRNPKTDKLVNERLISMAYGQIGMIQALGGFFTYFVILAENGFL 853
Query: 478 VGTLYVFKREMSDNIVS------------KRDTTMTFTCF-VFF------DMFNALSCRS 518
L + + D ++ ++ + FTC FF + + C++
Sbjct: 854 PLHLVGLRVQWDDRWINDLEDSYGQEWTYEQRKYVEFTCHTAFFVSIVVVQWADLIICKT 913
Query: 519 QIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKVFQTEALTIN--DIAFLTALTS 576
+ SVF G NK+ +F + F+ Y P + + L AF +L
Sbjct: 914 RRNSVFQQG-MKNKILIFGLFEETALAAFLSYCPGMGVALRMYPLKPTWWFCAFPYSL-- 970
Query: 577 TVFFVSEIKKAIERIC 592
+F EI+K I R
Sbjct: 971 LIFVYDEIRKLIIRRN 986
>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 = 184 bits (468), Expect = 6e-51
Identities = 101/304 (33%), Positives = 149/304 (49%), Gaps = 40/304 (13%)
Query: 128 NASIIGDSLLGQPTEGALL-AAGMKFGLYAVNEHYVRLKEYPFSSEQKMMAVRVHKIGHN 186
+ + L G P E ALL +A + N+ Y L +PFSS K M+V V +
Sbjct: 274 LVACDNNYLSGDPMEKALLKSAELVGKADKGNKEYKILDVFPFSSVLKRMSVIVETPDGS 333
Query: 187 LPSKRDG-----KMILSQSCSEYPKFQTLGKGLVAMARGSNLQDLCYMGLVGICDPPRPH 241
G + +Y + G ++A A DL ++GL+ DP RP
Sbjct: 334 DLLFVKGAPEFILERCNNYEEKYLELARQGLRVLAFASKELEDDLEFLGLITFEDPLRPD 393
Query: 242 VRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVV 301
+E + L +G+KV ++TGD TA AIA +G+D
Sbjct: 394 AKETIEELKAAGIKVVMITGDNVLTAKAIAKELGID------------------------ 429
Query: 302 NSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKE 361
VF RV+P KL IV+A Q G IV MTGDGVND ALKKAD+GIAMG K
Sbjct: 430 ----VFARVSPEQKLQIVEALQKKGHIVAMTGDGVNDAPALKKADVGIAMG------AKA 479
Query: 362 AADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSLIALATLLRIPNPLNA 421
AAD++L+DDD + I+ A++EG+ IF NI++ + + ++ ++ + L L ++ + P+ A
Sbjct: 480 AADIVLLDDDLSAIVKAVKEGRKIFSNIKSNIFWAIAYNLILIPLALLLIVIILLLPMLA 539
Query: 422 MQIL 425
L
Sbjct: 540 ALAL 543
Score = 38.1 bits (89), Expect = 0.013
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 15/80 (18%)
Query: 35 TGTL----LEVGCVCN----------NASIIGDSLLGQPTEGALL-AAGMKFGLYAVNEH 79
TGTL + + V + + L G P E ALL +A + N+
Sbjct: 248 TGTLTKNKMTLQGVYIDGGKEDNSSSLVACDNNYLSGDPMEKALLKSAELVGKADKGNKE 307
Query: 80 YVRLKEYPFSSEQKMMAVRC 99
Y L +PFSS K M+V
Sbjct: 308 YKILDVFPFSSVLKRMSVIV 327
>gnl|CDD|216063 pfam00689, Cation_ATPase_C, Cation transporting ATPase, C-terminus.
Members of this families are involved in Na+/K+, H+/K+,
Ca++ and Mg++ transport. This family represents 5
transmembrane helices.
Length = 175
Score = 169 bits (431), Expect = 1e-49
Identities = 70/175 (40%), Positives = 100/175 (57%), Gaps = 2/175 (1%)
Query: 416 PNPLNAMQILWINIIMDGPPAQSLGVEPVDDDVKIQKPRNVKEPMITRALVVNVLMSASI 475
P PL +QILWIN++ DG PA +LG EP + D+ + PR KEP+ +R L+ +L+ +
Sbjct: 1 PLPLTPIQILWINLVTDGLPALALGFEPPEPDLMKRPPRKPKEPLFSRKLLRRILLQGLL 60
Query: 476 IIVGTLYVFKREMS--DNIVSKRDTTMTFTCFVFFDMFNALSCRSQIKSVFTIGLFTNKM 533
I + TL VF + S TM F V +FNAL+ RS +S+F IGLF+NK+
Sbjct: 61 IAIVTLLVFFLGLLGFGISESGLAQTMAFNTLVLSQLFNALNARSLRRSLFKIGLFSNKL 120
Query: 534 FLFAVCASVVGQLFVIYFPPLQKVFQTEALTINDIAFLTALTSTVFFVSEIKKAI 588
L AV S++ QL +IY P LQ VF T L++ + L V V E++K +
Sbjct: 121 LLLAVLLSLLLQLLIIYVPGLQAVFGTTPLSLEQWLIVLGLALVVLLVVELRKLL 175
>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 = 179 bits (454), Expect = 2e-47
Identities = 153/611 (25%), Positives = 248/611 (40%), Gaps = 133/611 (21%)
Query: 108 DVDTRFFFLHRLLEVGCVCNNASIIGDS------LLGQPTEGALLAAGMKFGL------- 154
D+D F +LLE + N A++ D G PTE A+ KF L
Sbjct: 441 DIDMDLF--IKLLETAALANIATVFKDDATDCWKAHGDPTEIAIHVFAKKFDLPHNALTG 498
Query: 155 --------------------YAVNEHYVRLKEYPFSSEQKMMAVRVHKIGHNLP------ 188
+ + + E+PF SE K MA +++ H
Sbjct: 499 EEDLLKSNENDQSSLSQHNEKPGSAQFEFIAEFPFDSEIKRMAS-IYEDNHGETYNIYAK 557
Query: 189 ----------SKRDGKMILSQSCSEYPKFQTLGKGLVAMA-------------------- 218
S +GK + S E + + + ++A
Sbjct: 558 GAFERIIECCSSSNGKDGVKISPLEDCDRELIIANMESLAAEGLRVLAFASKSFDKADNN 617
Query: 219 ----------RGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETAT 268
R + DL ++GL+GI DPPR + Q+G+ V ++TGD ETA
Sbjct: 618 DDQLKNETLNRATAESDLEFLGLIGIYDPPRNESAGAVEKCHQAGINVHMLTGDFPETAK 677
Query: 269 AIASMVGL----------DTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTI 318
AIA VG+ + + V++G Q D +++ ++ + V R P+ K+ +
Sbjct: 678 AIAQEVGIIPPNFIHDRDEIMDSMVMTGSQFDALSDEEVDDLKALCLVIARCAPQTKVKM 737
Query: 319 VKAFQANGVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAA 378
++A MTGDGVND +LK A++GIAMG G+DV K+A+D++L DD+F +I+ A
Sbjct: 738 IEALHRRKAFCAMTGDGVNDSPSLKMANVGIAMGINGSDVAKDASDIVLSDDNFASILNA 797
Query: 379 IEEGKGIFYNIRNFVRFQLSTSIAALSLIALATLLRIPN-----PLNAMQILWINIIMDG 433
IEEG+ +F NI FV L+ ++A L+ + R N PL+ ++ILW +I
Sbjct: 798 IEEGRRMFDNIMKFVLHLLAENVAEAILLIIGLAFRDENGKSVFPLSPVEILWCIMITSC 857
Query: 434 PPAQSLGVEPVDDDVKIQKPRNVKEPMITRALVVNVLMSASIIIVGTLYVFKREM----S 489
PA LG+E D+ + P + + + + L++++ + L F + S
Sbjct: 858 FPAMGLGLEKAAPDLMDRLPHDNEVGIFQKELIIDMFAYGFFLGGSCLASFTGILYGFGS 917
Query: 490 DNI---------VSKRD---------TTMTFTCFV-----------FFDMFNALSCRSQI 520
N+ D TMTF + FF++ S
Sbjct: 918 GNLGHDCDAHYHAGCNDVFKARSAAFATMTFCALILAVEVKDFDNSFFNLHGIPDGDSNF 977
Query: 521 KSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPL-QKVFQTEALTINDIAFLTALTSTVF 579
K F + NK +A+ + V IY P + VF+ + + + A T F
Sbjct: 978 KEFFH-SIVENKFLAWAIAFAAVSAFPTIYIPVINDDVFKHKPIGA-EWGLAAAATIAFF 1035
Query: 580 FVSEIKKAIER 590
F +EI K +R
Sbjct: 1036 FGAEIWKCGKR 1046
>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 = 142 bits (361), Expect = 9e-36
Identities = 77/231 (33%), Positives = 114/231 (49%), Gaps = 11/231 (4%)
Query: 207 FQTLGKGLVAMARGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQET 266
++ LG VA GL+ + DPPR +E + GV+VK+VTGD
Sbjct: 417 YRALG---VARTDEEGRWHFL--GLLPLFDPPRHDTKETIERARHLGVEVKMVTGDHLAI 471
Query: 267 ATAIASMVGLDT--IHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQA 324
A A +GL T VL L ++V F V P HK IV+ Q
Sbjct: 472 AKETARRLGLGTNIYTADVLLKGDNRDDLPSGLGEMVEDADGFAEVFPEHKYEIVEILQK 531
Query: 325 NGVIVGMTGDGVNDGVALKKADIGIAMGKQG-TDVCKEAADMILVDDDFNTIIAAIEEGK 383
G +VGMTGDGVND ALKKAD+GIA+ G TD + AAD++L + + I+ AI E +
Sbjct: 532 RGHLVGMTGDGVNDAPALKKADVGIAV--AGATDAARSAADIVLTEPGLSVIVDAILESR 589
Query: 384 GIFYNIRNFVRFQLSTSIAALSLIALATLLRIPNPLNAMQILWINIIMDGP 434
IF ++++V ++++ +I + L L+ + ++ I I+ DG
Sbjct: 590 KIFQRMKSYVIYRIAETIRIVFFFGLLILILNFY-FPPIMVVIIAILNDGT 639
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 135 bits (343), Expect = 2e-33
Identities = 79/234 (33%), Positives = 124/234 (52%), Gaps = 13/234 (5%)
Query: 224 QDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKV 283
DL G + DPP+ + L SGV VK++TGD + A + VGLD G+V
Sbjct: 537 SDLILEGYIAFLDPPKETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD--AGEV 594
Query: 284 LSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALK 343
L G I+ +++ +L + T+F R+TP HK IV + G +VG GDG+ND AL+
Sbjct: 595 LIGSDIETLSDDELANLAERTTLFARLTPMHKERIVTLLKREGHVVGFMGDGINDAPALR 654
Query: 344 KADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAA 403
ADIGI++ D+ +EAAD+IL++ + + EG+ F N+ +++ S++
Sbjct: 655 AADIGISV-DGAVDIAREAADIILLEKSLMVLEEGVIEGRRTFANMLKYIKMTASSNFGN 713
Query: 404 L--SLIALATLLRIPNPLNAMQILWINIIMDGPPAQSLGVEPVD--DDVKIQKP 453
+ L+A A L + P+ + +L N++ D S P D DD +IQKP
Sbjct: 714 VFSVLVASAFLPFL--PMLPLHLLIQNLLYD----VSQVAIPFDNVDDEQIQKP 761
>gnl|CDD|225127 COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 713
Score = 131 bits (332), Expect = 5e-32
Identities = 69/218 (31%), Positives = 102/218 (46%), Gaps = 39/218 (17%)
Query: 206 KFQTLGKGLVAMARGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQE 265
++ GK +V +A L G++ + D RP +E ++ L G+KV ++TGD +
Sbjct: 511 ALESEGKTVVFVAVDGKLV-----GVIALADELRPDAKEAIAALKALGIKVVMLTGDNRR 565
Query: 266 TATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQAN 325
TA AIA +G+D + ++L P K IV+ QA
Sbjct: 566 TAEAIAKELGIDEVRAELL---------------------------PEDKAEIVRELQAE 598
Query: 326 GVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGI 385
G V M GDG+ND AL AD+GIAMG GTDV EAAD++L+ DD + + AI+ +
Sbjct: 599 GRKVAMVGDGINDAPALAAADVGIAMGS-GTDVAIEAADVVLMRDDLSAVPEAIDLSRAT 657
Query: 386 FYNIR-NFVRFQLSTSIAALSLIALATLLRIPNPLNAM 422
I+ N + + A+ L A L P A
Sbjct: 658 RRIIKQNLF-WAFGYNAIAIPLAAGGLL----TPWIAA 690
>gnl|CDD|237914 PRK15122, PRK15122, magnesium-transporting ATPase; Provisional.
Length = 903
Score = 128 bits (323), Expect = 7e-31
Identities = 77/215 (35%), Positives = 118/215 (54%), Gaps = 17/215 (7%)
Query: 225 DLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVL 284
DL G + DPP+ ++ L ++GV VK++TGD I VGL+ G+ L
Sbjct: 538 DLVIRGFLTFLDPPKESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLEP--GEPL 595
Query: 285 SGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKK 344
G +I+ M + L + V TVF ++TP K ++KA QANG VG GDG+ND AL+
Sbjct: 596 LGTEIEAMDDAALAREVEERTVFAKLTPLQKSRVLKALQANGHTVGFLGDGINDAPALRD 655
Query: 345 ADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEG--KG--IFYNIRNFVRFQLSTS 400
AD+GI++ G D+ KE+AD+IL++ + +EEG KG F NI ++ S++
Sbjct: 656 ADVGISV-DSGADIAKESADIILLEKS----LMVLEEGVIKGRETFGNIIKYLNMTASSN 710
Query: 401 IAAL--SLIALATLLRIP-NPLNAMQILWINIIMD 432
+ L+A A IP P+ A+ +L N++ D
Sbjct: 711 FGNVFSVLVASAF---IPFLPMLAIHLLLQNLMYD 742
>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 = 127 bits (320), Expect = 2e-30
Identities = 69/245 (28%), Positives = 126/245 (51%), Gaps = 16/245 (6%)
Query: 218 ARGSNLQ-----DLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIAS 272
++ L G +G DPP+ +E ++ L ++G+ VK++TGD + I
Sbjct: 491 VGEADFTKTDEEQLIIEGFLGFLDPPKESTKEAIAALFKNGINVKVLTGDNEIVTARICQ 550
Query: 273 MVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMT 332
VG+D L G I+++++ +L + + +F R+TP K I+ + G VG
Sbjct: 551 EVGIDA--NDFLLGADIEELSDEELARELRKYHIFARLTPMQKSRIIGLLKKAGHTVGFL 608
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNF 392
GDG+ND AL+KAD+GI++ D+ KEA+D+IL++ + + EG+ F NI +
Sbjct: 609 GDGINDAPALRKADVGISV-DTAADIAKEASDIILLEKSLMVLEEGVIEGRNTFGNILKY 667
Query: 393 VRFQLSTSIAALSLIALATLLRIPN-PLNAMQILWINIIMDGPPAQSLGVEPVD--DDVK 449
++ S++ + + +A+ IP P+ ++ +L N++ D L + P D D
Sbjct: 668 LKMTASSNFGNVFSVLVASAF-IPFLPMLSLHLLIQNLLYD---FSQLTL-PWDKMDREF 722
Query: 450 IQKPR 454
++KP
Sbjct: 723 LKKPH 727
>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 = 115 bits (289), Expect = 5e-27
Identities = 67/213 (31%), Positives = 105/213 (49%), Gaps = 39/213 (18%)
Query: 211 GKGLVAMARGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGV-KVKLVTGDGQETATA 269
GK +V +A L G++ + D RP +E ++ L ++G K+ ++TGD + A A
Sbjct: 363 GKTVVFVAVDGELL-----GVIALRDQLRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEA 417
Query: 270 IASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIV 329
+A+ +G+D +H ++L P KL IVK Q G +V
Sbjct: 418 VAAELGIDEVHAELL---------------------------PEDKLAIVKELQEEGGVV 450
Query: 330 GMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNI 389
M GDG+ND AL AD+GIAMG G+DV EAAD++L++DD +++ AI+ + I
Sbjct: 451 AMVGDGINDAPALAAADVGIAMGA-GSDVAIEAADIVLLNDDLSSLPTAIDLSRKTRRII 509
Query: 390 R-NFVRFQLSTSIAALSLIALATLLRIPNPLNA 421
+ N + + I LA +P L A
Sbjct: 510 KQNLA---WALGYNLV-AIPLAAGGLLPLWLLA 538
>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 = 109 bits (275), Expect = 4e-25
Identities = 56/207 (27%), Positives = 94/207 (45%), Gaps = 33/207 (15%)
Query: 192 DGKMILSQSCSEYPKFQTLGKGLVAMARGS----NLQDLCYMGLVGICDPPRPHVRECMS 247
+G I + + G V G+ + G++ + D +P +E +
Sbjct: 365 EGHTIQLGNEKLLGENGLKTDGEVEEGGGTTSVLVAVNGELAGVLALADQLKPEAKEVIQ 424
Query: 248 TLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVF 307
L + G++ ++TGD ++TA A+A +G++ V
Sbjct: 425 ALKRRGIEPVMLTGDNRKTAKAVAKELGIEN---------------------------VR 457
Query: 308 YRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMIL 367
V P K ++K Q G +V M GDG+ND AL +AD+GIA+G GTDV EAAD++L
Sbjct: 458 AEVLPDDKAALIKKLQEKGKVVAMVGDGINDAPALAQADVGIAIGA-GTDVAIEAADVVL 516
Query: 368 VDDDFNTIIAAIEEGKGIFYNIR-NFV 393
+ +D N + AI+ + I+ N +
Sbjct: 517 LRNDLNDVATAIDLSRKTLRRIKQNLL 543
>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 = 103 bits (260), Expect = 2e-23
Identities = 61/190 (32%), Positives = 92/190 (48%), Gaps = 29/190 (15%)
Query: 228 YMGLVGICDPPRPHVRECMSTLLQSGV-KVKLVTGDGQETATAIASMVGLDTIHGKVLSG 286
Y+G + + D PRP E ++ L G+ KV ++TGD + A +A +G+D +H ++L
Sbjct: 353 YLGYILLSDEPRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAELL-- 410
Query: 287 DQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKAD 346
P KL IVK + V M GDG+ND AL AD
Sbjct: 411 -------------------------PEDKLEIVKELREKYGPVAMVGDGINDAPALAAAD 445
Query: 347 IGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSL 406
+GIAMG G+DV E AD++L++DD + + AI + ++ V L I L L
Sbjct: 446 VGIAMGASGSDVAIETADVVLLNDDLSRLPQAIRLARRTRRIVKQNVVIAL-GIILLLIL 504
Query: 407 IALATLLRIP 416
+AL +L +
Sbjct: 505 LALFGVLPLW 514
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 89.2 bits (222), Expect = 1e-18
Identities = 58/197 (29%), Positives = 92/197 (46%), Gaps = 28/197 (14%)
Query: 229 MGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQ 288
+G++ + D +P ++E + L + G+K ++TGD TA AIA+ G+D +
Sbjct: 439 LGVIYLKDIVKPGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFIAEA----- 493
Query: 289 IDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIG 348
TP KL +++ QA G +V MTGDG ND AL +AD+G
Sbjct: 494 ----------------------TPEDKLALIRQEQAEGRLVAMTGDGTNDAPALAQADVG 531
Query: 349 IAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSLIA 408
+AM GT KEAA+M+ +D + +I +E GK + F ++ +A I
Sbjct: 532 VAM-NSGTQAAKEAANMVDLDSNPTKLIEVVEIGKQLLITRGALTTFSIANDVAKYFAII 590
Query: 409 LATLLRIPNPLNAMQIL 425
A L A+ I+
Sbjct: 591 PAMFAAAYPQLGALNIM 607
>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 = 88.8 bits (220), Expect = 2e-18
Identities = 58/196 (29%), Positives = 92/196 (46%), Gaps = 28/196 (14%)
Query: 230 GLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQI 289
G++ + D + ++E + L + G+K ++TGD + TA AIA+ G+D
Sbjct: 439 GVIYLKDIVKGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVD------------ 486
Query: 290 DQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGI 349
D + E TP K+ +++ QA G +V MTGDG ND AL +AD+G+
Sbjct: 487 DFIAE---------------ATPEDKIALIRQEQAEGKLVAMTGDGTNDAPALAQADVGV 531
Query: 350 AMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSLIAL 409
AM GT KEAA+M+ +D D +I + GK + F ++ +A I
Sbjct: 532 AM-NSGTQAAKEAANMVDLDSDPTKLIEVVHIGKQLLITRGALTTFSIANDVAKYFAIIP 590
Query: 410 ATLLRIPNPLNAMQIL 425
A L A+ I+
Sbjct: 591 AIFAAAYPQLQALNIM 606
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 83.7 bits (208), Expect = 8e-17
Identities = 51/155 (32%), Positives = 80/155 (51%), Gaps = 28/155 (18%)
Query: 229 MGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQ 288
+G++ + D +P ++E + L + G+K ++TGD TA AIA+ G+D D
Sbjct: 437 LGVIYLKDIVKPGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVD---------DF 487
Query: 289 IDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIG 348
+ + TP KL +++ QA G +V MTGDG ND AL +AD+G
Sbjct: 488 LAE------------------ATPEDKLALIRQEQAEGRLVAMTGDGTNDAPALAQADVG 529
Query: 349 IAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGK 383
+AM GT KEA +M+ +D + +I +E GK
Sbjct: 530 VAM-NSGTQAAKEAGNMVDLDSNPTKLIEVVEIGK 563
>gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional.
Length = 834
Score = 82.5 bits (204), Expect = 3e-16
Identities = 61/197 (30%), Positives = 88/197 (44%), Gaps = 37/197 (18%)
Query: 231 LVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQID 290
L+ I DP R + L ++G ++ ++TGD TA AIA G+D +V++G
Sbjct: 644 LLAIRDPLRSDSVAALQRLHKAGYRLVMLTGDNPTTANAIAKEAGID----EVIAG---- 695
Query: 291 QMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGIA 350
V P K +K Q+ G V M GDG+ND AL +AD+GIA
Sbjct: 696 -------------------VLPDGKAEAIKRLQSQGRQVAMVGDGINDAPALAQADVGIA 736
Query: 351 MGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRN-----FVRFQLSTSIAALS 405
MG G+DV E A + L+ + A+ + N++ F+ L IAA
Sbjct: 737 MGG-GSDVAIETAAITLMRHSLMGVADALAISRATLRNMKQNLLGAFIYNSLGIPIAAGI 795
Query: 406 LIAL-ATLLRIPNPLNA 421
L TLL NP+ A
Sbjct: 796 LWPFTGTLL---NPVVA 809
>gnl|CDD|236827 PRK11033, zntA, zinc/cadmium/mercury/lead-transporting ATPase;
Provisional.
Length = 741
Score = 74.3 bits (183), Expect = 9e-14
Identities = 54/180 (30%), Positives = 78/180 (43%), Gaps = 35/180 (19%)
Query: 211 GKGLVAMARGSNLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAI 270
GK +V + L++ +GL+ + D R R+ +S L G+K ++TGD A AI
Sbjct: 547 GKTVVLV-----LRNDDVLGLIALQDTLRADARQAISELKALGIKGVMLTGDNPRAAAAI 601
Query: 271 ASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVG 330
A +G+D +L D++ +TE +
Sbjct: 602 AGELGID-FRAGLLPEDKVKAVTELNQHAP----------------------------LA 632
Query: 331 MTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIR 390
M GDG+ND A+K A IGIAMG GTDV E AD L + + IE + NIR
Sbjct: 633 MVGDGINDAPAMKAASIGIAMG-SGTDVALETADAALTHNRLRGLAQMIELSRATHANIR 691
>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 = 66.1 bits (162), Expect = 2e-13
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 9/71 (12%)
Query: 124 CVCNNASII------GDSLLGQPTEGALLAAGMKFGLY--AVNEHYVRLKEYPFSSEQKM 175
+CN+A G ++G PTE ALL K G+ + Y R+ E PF+SE+K
Sbjct: 1 ALCNDAKFGENEEKNGGEIIGDPTESALLVFAEKLGIDVEELRARYPRVAEIPFNSERKR 60
Query: 176 MAVRVHKIGHN 186
M+ VHK+ +
Sbjct: 61 MST-VHKLEDD 70
Score = 61.9 bits (151), Expect = 4e-12
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 43 CVCNNASII------GDSLLGQPTEGALLAAGMKFGLY--AVNEHYVRLKEYPFSSEQKM 94
+CN+A G ++G PTE ALL K G+ + Y R+ E PF+SE+K
Sbjct: 1 ALCNDAKFGENEEKNGGEIIGDPTESALLVFAEKLGIDVEELRARYPRVAEIPFNSERKR 60
Query: 95 MAV 97
M+
Sbjct: 61 MST 63
>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 = 63.9 bits (156), Expect = 2e-10
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 3/71 (4%)
Query: 284 LSGDQIDQMTEH---QLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGV 340
+SG + H L ++++ TVF R+ P K T+V+ Q VGM GDG ND
Sbjct: 756 MSGKAFAVLQAHSPELLLRLLSHTTVFARMAPDQKETLVELLQKLDYTVGMCGDGANDCG 815
Query: 341 ALKKADIGIAM 351
ALK+AD+GI++
Sbjct: 816 ALKQADVGISL 826
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 63.6 bits (154), Expect = 2e-10
Identities = 47/173 (27%), Positives = 76/173 (43%), Gaps = 28/173 (16%)
Query: 253 GVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTP 312
G++ + TGD + TA IA G+D + P
Sbjct: 457 GIETVMCTGDNELTAATIAKEAGVDRFVAE---------------------------CKP 489
Query: 313 RHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDF 372
K+ +++ QA G IV MTGDG ND AL +A++G+AM GT KEAA++I +D +
Sbjct: 490 EDKINVIREEQAKGHIVAMTGDGTNDAPALAEANVGLAM-NSGTMSAKEAANLIDLDSNP 548
Query: 373 NTIIAAIEEGKGIFYNIRNFVRFQLSTSIAALSLIALATLLRIPNPLNAMQIL 425
++ + GK + + F ++ IA I A + +N + I+
Sbjct: 549 TKLMEVVLIGKQLLMTRGSLTTFSIANDIAKYFAILPAMFMAAMPAMNHLNIM 601
>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 = 53.0 bits (127), Expect = 4e-08
Identities = 37/127 (29%), Positives = 56/127 (44%), Gaps = 20/127 (15%)
Query: 222 NLQDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHG 281
+ DL +GL+ + DP P RE + L ++G+K+ ++TGD + TA AIA ++GL
Sbjct: 79 AVLDLVVLGLIALTDPLYPGAREALKELKEAGIKLAILTGDNRLTANAIARLLGLF---D 135
Query: 282 KVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHK--LTIVKAFQANGVIVGMTGDGVNDG 339
++S D + P K ++ V M GDGVND
Sbjct: 136 ALVSAD---------------LYGLVGVGKPDPKIFELALEELGVKPEEVLMVGDGVNDI 180
Query: 340 VALKKAD 346
A K A
Sbjct: 181 PAAKAAG 187
>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 = 47.8 bits (114), Expect = 2e-05
Identities = 41/181 (22%), Positives = 70/181 (38%), Gaps = 49/181 (27%)
Query: 224 QDLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIA------------ 271
+DL +G I D + V E + L Q+G+K+ ++TGD ETA I
Sbjct: 618 KDLILLGATAIEDKLQEGVPETIELLRQAGIKIWVLTGDKVETAINIGYSCRLLSRNMEQ 677
Query: 272 ---SMVGLDTI--------------------------HGKVLSGDQIDQMTEHQLQQ--- 299
+ LD V+ G + + +L++
Sbjct: 678 IVITSDSLDATRSVEAAIKFGLEGTSEEFNNLGDSGNVALVIDGKSLGYALDEELEKEFL 737
Query: 300 --VVNSVTVFY-RVTPRHKLTIVKAFQ-ANGVIVGMTGDGVNDGVALKKADIGIAM-GKQ 354
+ V RV+P K +V+ + + G GDG ND +++AD+G+ + GK+
Sbjct: 738 QLALKCKAVICCRVSPSQKADVVRLVKKSTGKTTLAIGDGANDVSMIQEADVGVGISGKE 797
Query: 355 G 355
G
Sbjct: 798 G 798
>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 = 40.4 bits (95), Expect = 0.001
Identities = 30/149 (20%), Positives = 53/149 (35%), Gaps = 35/149 (23%)
Query: 237 PPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLD-------TIHGKVLSGDQI 289
P E + TL + G KV +++G A + +GLD + L+G
Sbjct: 85 PLTEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFANRLEVEDGKLTGLVE 144
Query: 290 DQMTEHQ-----LQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKK 344
+ + L ++ ++P + + GDG ND +K
Sbjct: 145 GPIVDASYKGKTLLILLRK----EGISPENTV--------------AVGDGANDLSMIKA 186
Query: 345 ADIGIAMG-----KQGTDVCKEAADMILV 368
A +GIA +Q D+C D+ +
Sbjct: 187 AGLGIAFNAKPKLQQKADICINKKDLTDI 215
>gnl|CDD|223634 COG0560, SerB, Phosphoserine phosphatase [Amino acid transport and
metabolism].
Length = 212
Score = 38.4 bits (90), Expect = 0.005
Identities = 26/120 (21%), Positives = 44/120 (36%), Gaps = 14/120 (11%)
Query: 235 CDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTE 294
P E ++ L +G KV +++G IA +G+D + L D ++T
Sbjct: 75 FLRLTPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANELEIDD-GKLTG 133
Query: 295 HQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGV----IVGMTGDGVNDGVALKKADIGIA 350
+VV + + + G+ V GD ND L+ A + IA
Sbjct: 134 ----RVVGPIC----DGEGKAKALRELAAELGIPLEETVAY-GDSANDLPMLEAAGLPIA 184
>gnl|CDD|226572 COG4087, COG4087, Soluble P-type ATPase [General function
prediction only].
Length = 152
Score = 37.5 bits (87), Expect = 0.005
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 8/98 (8%)
Query: 277 DTIHGKVLSGDQIDQMTEHQLQQVVNSVT--VFYRVTPRHKLTIVKAFQANGVIVGMTGD 334
D + + SGD+ + QL + V VF P K I++ + V M G+
Sbjct: 44 DMVDIYIASGDRKGSLV--QLAEFVGIPVERVFAGADPEMKAKIIRELKKRYEKVVMVGN 101
Query: 335 GVNDGVALKKADIGIAMGKQGTDVCK---EAADMILVD 369
G ND +AL++AD+GI +Q V + AD++L +
Sbjct: 102 GANDILALREADLGICTIQQE-GVPERLLLTADVVLKE 138
>gnl|CDD|232824 TIGR00099, Cof-subfamily, Cof subfamily of IIB subfamily of
haloacid dehalogenase superfamily. This subfamily of
sequences falls within the Class-IIB subfamily
(TIGR01484) of the Haloacid Dehalogenase superfamily of
aspartate-nucleophile hydrolases. The use of the name
"Cof" as an identifier here is arbitrary and refers to
the E. coli Cof protein. This subfamily is notable for
the large number of recent paralogs in many species.
Listeria, for instance, has 12, Clostridium, Lactococcus
and Streptococcus pneumoniae have 8 each, Enterococcus
and Salmonella have 7 each, and Bacillus subtilus,
Mycoplasma, Staphylococcus and E. coli have 6 each. This
high degree of gene duplication is limited to the gamma
proteobacteria and low-GC gram positive lineages. The
profusion of genes in this subfamily is not coupled with
a high degree of divergence, so it is impossible to
determine an accurate phylogeny at the equivalog level.
Considering the relationship of this subfamily to the
other known members of the HAD-IIB subfamily
(TIGR01484), sucrose and trehalose phosphatases and
phosphomannomutase, it seems a reasonable hypothesis
that these enzymes act on phosphorylated sugars.
Possibly the diversification of genes in this subfamily
represents the diverse sugars and polysaccharides that
various bacteria find in their biological niches. The
members of this subfamily are restricted almost
exclusively to bacteria (one sequences from S. pombe
scores above trusted, while another is between trusted
and noise). It is notable that no archaea are found in
this group, the closest relations to the archaea found
here being two Deinococcus sequences [Unknown function,
Enzymes of unknown specificity].
Length = 256
Score = 37.6 bits (88), Expect = 0.012
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMI--LVDDD 371
GDG+ND L+ A G+AMG + K AD + ++D
Sbjct: 211 GDGMNDIEMLEAAGYGVAMGN-ADEELKALADYVTDSNNED 250
>gnl|CDD|223635 COG0561, Cof, Predicted hydrolases of the HAD superfamily [General
function prediction only].
Length = 264
Score = 37.4 bits (87), Expect = 0.013
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 11/64 (17%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNF 392
GD ND L+ A +G+AMG + KE AD + + G+ +
Sbjct: 212 GDSTNDIEMLEVAGLGVAMG-NADEELKELAD----------YVTTSNDEDGVAEALEKL 260
Query: 393 VRFQ 396
+ +
Sbjct: 261 LLLE 264
>gnl|CDD|219777 pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase. This
family contains haloacid dehalogenase-like hydrolase
enzymes.
Length = 254
Score = 36.8 bits (86), Expect = 0.020
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAI 379
GDG ND L+ A +G+AMG + K AAD + ++ + + A+
Sbjct: 209 GDGENDIEMLELAGLGVAMG-NASPEVKAAADYVTGSNNEDGVAKAL 254
>gnl|CDD|223620 COG0546, Gph, Predicted phosphatases [General function prediction
only].
Length = 220
Score = 36.3 bits (84), Expect = 0.026
Identities = 29/152 (19%), Positives = 59/152 (38%), Gaps = 22/152 (14%)
Query: 234 ICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMT 293
+ P V+E ++ L +G K+ +VT + + +GL ++ GD +
Sbjct: 86 LESRLFPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLADYFDVIVGGDDVPPPK 145
Query: 294 EHQLQQVVNSVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKAD---IGIA 350
P L +++ + M GD +ND +A K A +G+
Sbjct: 146 PD----------------PEPLLLLLEKLGLDPEEALMVGDSLNDILAAKAAGVPAVGVT 189
Query: 351 MGKQ-GTDVCKEAADMILVDDDFNTIIAAIEE 381
G ++ + AD+++ D ++A + E
Sbjct: 190 WGYNSREELAQAGADVVI--DSLAELLALLAE 219
>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 = 35.0 bits (81), Expect = 0.031
Identities = 26/117 (22%), Positives = 46/117 (39%), Gaps = 5/117 (4%)
Query: 238 PRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQL 297
P V+E + L + G+K+ L T + + +GLD V++ + +
Sbjct: 25 LYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSN--GAAIYYPK 82
Query: 298 QQVVNSVTVFYRVTPRH--KLTIVKAFQANGVIVGMTGDGVNDGVALKKA-DIGIAM 351
+ + F P L +K + V M GD +ND K A +G+A+
Sbjct: 83 EGLFLGGGPFDIGKPNPDKLLAALKLLGVDPEEVLMVGDSLNDIEMAKAAGGLGVAV 139
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 35.3 bits (81), Expect = 0.11
Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 213 GLVAMAR--GSNLQ-DLCYMGLVGICDPPRPHVRECMSTLLQSGVKVKLVTGDGQETATA 269
G A+ R SN++ +L +G I D + V E + +L +G+KV ++TGD QETA +
Sbjct: 699 GRAALLRKVASNVENNLTILGASAIEDKLQQGVPEAIESLRTAGIKVWVLTGDKQETAIS 758
Query: 270 I 270
I
Sbjct: 759 I 759
Score = 34.5 bits (79), Expect = 0.19
Identities = 34/123 (27%), Positives = 55/123 (44%), Gaps = 15/123 (12%)
Query: 243 RECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQI----DQMTEHQLQ 298
R+ + L K+ V+G Q T + A+ + ++ G + D E QL
Sbjct: 784 RKSLEDALVMSKKLTTVSGISQNTGGSSAAASDPVAL---IIDGTSLVYVLDSELEEQLF 840
Query: 299 QVVN--SVTVFYRVTPRHKLTIVKAFQANGVIVGMT---GDGVNDGVALKKADIGIAM-G 352
Q+ + SV + RV P K IV + MT GDG ND ++ AD+G+ + G
Sbjct: 841 QLASKCSVVLCCRVAPLQKAGIVALVKNR--TSDMTLAIGDGANDVSMIQMADVGVGISG 898
Query: 353 KQG 355
++G
Sbjct: 899 QEG 901
>gnl|CDD|233435 TIGR01488, HAD-SF-IB, Haloacid Dehalogenase superfamily, subfamily
IB, phosphoserine phosphatase-like. This model
represents a subfamily of the Haloacid Dehalogenase
superfamily of aspartate-nucleophile hydrolases.
Subfamily IA, B, C and D are distinguished from the rest
of the superfamily by the presence of a variable domain
between the first and second conserved catalytic motifs.
In subfamilies IA and IB, this domain consists of an
alpha-helical bundle. It was necessary to model these
two subfamilies separately, breaking them at a an
apparent phylogenetic bifurcation, so that the resulting
model(s) are not so broadly defined that members of
subfamily III (which lack the variable domain) are
included. Subfamily IA includes the enzyme phosphoserine
phosphatase (TIGR00338) as well as three hypothetical
equivalogs. Many members of these hypothetical
equivalogs have been annotated as PSPase-like or
PSPase-family proteins. In particular, the hypothetical
equivalog which appears to be most closely related to
PSPase contains only Archaea (while TIGR00338 contains
only eukaryotes and bacteria) of which some are
annotated as PSPases. Although this is a reasonable
conjecture, none of these sequences has sufficient
evidence for this assignment. If such should be found,
this model should be retired while the PSPase model
should be broadened to include these sequences [Unknown
function, Enzymes of unknown specificity].
Length = 177
Score = 33.5 bits (77), Expect = 0.18
Identities = 28/113 (24%), Positives = 41/113 (36%), Gaps = 12/113 (10%)
Query: 237 PPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQ 296
RP RE +S L + G+ +V+G +A +G+D + L D +T
Sbjct: 73 ALRPGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFANRLEFDDNGLLTGPI 132
Query: 297 LQQVVNSVTVFYRVTPRHKLTIVKAFQANGVI----VGMTGDGVNDGVALKKA 345
QV K ++K I + GD VND LK A
Sbjct: 133 EGQV--------NPEGECKGKVLKELLEESKITLKKIIAVGDSVNDLPMLKLA 177
>gnl|CDD|222114 pfam13416, SBP_bac_8, Bacterial extracellular solute-binding
protein. This family includes bacterial extracellular
solute-binding proteins.
Length = 281
Score = 32.7 bits (75), Expect = 0.51
Identities = 24/187 (12%), Positives = 52/187 (27%), Gaps = 53/187 (28%)
Query: 251 QSGVKVKLVTGDGQETATAIASMV------GLDTIHGKVLSGDQIDQMTEHQL------- 297
++GV VK+VT + + + + D + ++ DQ+ + + L
Sbjct: 9 ETGVTVKVVTAGSDDAVAKLKAALAAGNAPDADVV---WINADQLGTLADAGLLVDLSDL 65
Query: 298 -----------------------QQVVNSVTVFYR--VTPRHKLT----IVKAFQANGVI 328
+ ++Y + + ++ A +A
Sbjct: 66 PNLDDLPDALKAATYDGKLYGVPYAAGTTYVLYYNKDLLEKADPKTWDDLLDAAKAVKGK 125
Query: 329 VGMTGDG--------VNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIE 380
G+ + DGV G+ K+ K+ D I
Sbjct: 126 FGLPDPPSGFLLAALLADGVDFDDDGKGVEDLKKALAYLKKLKDNGKFYGTGADAIQLFA 185
Query: 381 EGKGIFY 387
+G+ Y
Sbjct: 186 DGEVAAY 192
>gnl|CDD|165021 PHA02638, PHA02638, CC chemokine receptor-like protein;
Provisional.
Length = 417
Score = 32.7 bits (74), Expect = 0.64
Identities = 31/130 (23%), Positives = 56/130 (43%), Gaps = 13/130 (10%)
Query: 460 MITRALVVNVLMSASIIIVGTLYVFKREMSDNIVSKRDTTMTFTCFVFFD--MFNALSCR 517
+ A ++ +L I + +Y+F +SD I F + FD +F C+
Sbjct: 113 LFGNAAIIMILFCKKIKTITDIYIFNLAISDLIFV---IDFPFIIYNEFDQWIFGDFMCK 169
Query: 518 SQIKSVFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKVFQT----EALTINDIAFLTA 573
I + + IG F+N MFL + + + + F I +P + ++T L I
Sbjct: 170 V-ISASYYIGFFSN-MFLITLMS--IDRYFAILYPISFQKYRTFNIGIILCIISWILSLI 225
Query: 574 LTSTVFFVSE 583
+TS +F+ E
Sbjct: 226 ITSPAYFIFE 235
>gnl|CDD|234910 PRK01158, PRK01158, phosphoglycolate phosphatase; Provisional.
Length = 230
Score = 31.5 bits (72), Expect = 0.90
Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 11/62 (17%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEEGKGIFYNIRNF 392
GD ND + A G+A+ + KEAAD + G+G+ I +
Sbjct: 180 GDSENDLEMFEVAGFGVAVA-NADEELKEAAD----------YVTEKSYGEGVAEAIEHL 228
Query: 393 VR 394
+
Sbjct: 229 LL 230
>gnl|CDD|235537 PRK05632, PRK05632, phosphate acetyltransferase; Reviewed.
Length = 684
Score = 32.0 bits (74), Expect = 1.0
Identities = 22/106 (20%), Positives = 43/106 (40%), Gaps = 21/106 (19%)
Query: 238 PRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQ--IDQMTEH 295
P P + + ++G+ V V + +TA + S +G+V D I+ + E
Sbjct: 283 PDPRIAKLCEGAFETGLPVLSVDTNTYQTALRLQSF------NGEVPVDDHERIETVLEL 336
Query: 296 ---------QLQQVVNSVTVFYRVTP---RHKLTIVKAFQANGVIV 329
L+++ + R++P R++L +A A IV
Sbjct: 337 VASHVDTDELLERLTATSERSRRLSPPAFRYQL-TERARAAKKRIV 381
>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 = 31.1 bits (70), Expect = 1.2
Identities = 25/107 (23%), Positives = 42/107 (39%), Gaps = 13/107 (12%)
Query: 243 RECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVN 302
E + L + +V +++ E + + +G T+ L D D++ +QL+Q
Sbjct: 74 VEFVDWL-RERFQVVILSDTFYEFSQPLMRQLGFPTLLCHKLEIDDSDRVVGYQLRQ--- 129
Query: 303 SVTVFYRVTPRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGI 349
K V AF++ V GD ND L +A GI
Sbjct: 130 ---------KDPKRQSVIAFKSLYYRVIAAGDSYNDTTMLSEAHAGI 167
>gnl|CDD|215479 PLN02887, PLN02887, hydrolase family protein.
Length = 580
Score = 31.8 bits (72), Expect = 1.4
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAIEE 381
GDG ND L+ A +G+A+ G + K AD+I V +D + + AI
Sbjct: 530 GDGENDIEMLQLASLGVALS-NGAEKTKAVADVIGVSNDEDGVADAIYR 577
>gnl|CDD|216670 pfam01733, Nucleoside_tran, Nucleoside transporter. This is a
family of nucleoside transporters. In mammalian cells
nucleoside transporters transport nucleoside across the
plasma membrane and are essential for nucleotide
synthesis via the salvage pathways for cells that lack
their own de novo synthesis pathways. Also in this
family is mouse and human nucleolar protein HNP36, a
protein of unknown function; although it has been
hypothesised to be a plasma membrane nucleoside
transporter.
Length = 305
Score = 30.9 bits (70), Expect = 1.8
Identities = 25/142 (17%), Positives = 47/142 (33%), Gaps = 9/142 (6%)
Query: 428 NIIMDGPPAQSLGVEPVDDDVKIQKPRNVKEPMITRALVVNVLMSASIIIVGTLYVF--- 484
+ + + D+ K Q K +T + +S +I TL VF
Sbjct: 103 ELEQVDEESSGSNLNGTFDNSKPQLENVFKPFFVTLTKFPVLALSVVLIFTVTLSVFPAP 162
Query: 485 -KREMSDNIVSKRDTTMTFTCFVFFDMFNALSCRSQIKSVFTIGLFTNKMFLFAVCASVV 543
+S ++ M CF+ F++F+ L + + F + +
Sbjct: 163 TAEVVSSLPTWEKQYFMPVLCFLLFNLFDLLG--RSLAAWFMWPGQDPRWLPVLSILRL- 219
Query: 544 GQLFVIYFPPLQKVFQTEALTI 565
LF+ F Q+ AL +
Sbjct: 220 --LFIPLFLLCNYKPQSRALPV 239
>gnl|CDD|213628 TIGR01487, Pglycolate_arch, phosphoglycolate phosphatase,
TA0175-type. This group of Archaeal sequences, now
known to be phosphoglycolate phosphatases, is most
closely related to the sucrose-phosphate phosphatases
from plants and cyanobacteria (TIGR01485). Together,
these two models comprise a subfamily model (TIGR01482).
TIGR01482, in turn, is a member of the IIB subfamily
(TIGR01484) of the Haloacid Dehalogenase (HAD)
superfamily of aspartate-nucleophile hydrolases.
Length = 215
Score = 30.1 bits (68), Expect = 2.4
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMI 366
GD ND + +A+ D KE AD +
Sbjct: 170 GDSENDIDLFRVVGFKVAVA-NADDQLKEIADYV 202
>gnl|CDD|233437 TIGR01491, HAD-SF-IB-PSPlk, HAD-superfamily, subfamily-IB
PSPase-like hydrolase, archaeal. This hypothetical
equivalog is a member of the IB subfamily (TIGR01488) of
the haloacid dehalogenase (HAD) superfamily of
aspartate-nucleophile hydrolases. The sequences modelled
by This model are all from archaeal species. The
phylogenetically closest group of sequences to these are
phosphoserine phosphatases (TIGR00338). There are no
known archaeal phosphoserine phosphatases, and no
archaea fall within TIGR00338. It is likely, then, that
This model represents the archaeal branch of the PSPase
equivalog.
Length = 201
Score = 29.9 bits (67), Expect = 2.6
Identities = 27/123 (21%), Positives = 47/123 (38%), Gaps = 14/123 (11%)
Query: 237 PPRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQ 296
R + E + L + G+K +V+G A +A + D ++ L D+ +
Sbjct: 80 SLRDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSNELVFDEKGFIQP-- 137
Query: 297 LQQVVNSVTVFYRVTPRHKLTIVKAFQ----ANGVIVGMTGDGVNDGVALKKADIGIAMG 352
RVT +K V+ + + GD ND + ADI I++G
Sbjct: 138 --------DGIVRVTFDNKGEAVERLKRELNPSLTETVAVGDSKNDLPMFEVADISISLG 189
Query: 353 KQG 355
+G
Sbjct: 190 DEG 192
>gnl|CDD|214883 smart00884, Cullin_Nedd8, Cullin protein neddylation domain. This
is the neddylation site of cullin proteins which are a
family of structurally related proteins containing an
evolutionarily conserved cullin domain. With the
exception of APC2, each member of the cullin family is
modified by Nedd8 and several cullins function in
Ubiquitin-dependent proteolysis, a process in which the
26S proteasome recognises and subsequently degrades a
target protein tagged with K48-linked poly-ubiquitin
chains. Cullins are molecular scaffolds responsible for
assembling the ROC1/Rbx1 RING-based E3 ubiquitin
ligases, of which several play a direct role in
tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like
protein, which was originally found to be conjugated to
Cdc53, a cullin component of the SCF
(Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in
Saccharomyces cerevisiae, and Nedd8 modification has now
emerged as a regulatory pathway of fundamental
importance for cell cycle control and for embryogenesis
in metazoans. The only identified Nedd8 substrates are
cullins. Neddylation results in covalent conjugation of
a Nedd8 moiety onto a conserved cullin lysine residue.
Length = 68
Score = 27.5 bits (62), Expect = 4.1
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 581 VSEIKKAIERICERKCLR 598
VS+IKK IE + ER+ L
Sbjct: 44 VSDIKKRIESLIEREYLE 61
>gnl|CDD|190565 pfam03208, PRA1, PRA1 family protein. This family includes the
PRA1 (Prenylated rab acceptor) protein which is a Rab
guanine dissociation inhibitor (GDI) displacement
factor. This family also includes the glutamate
transporter EAAC1 interacting protein GTRAP3-18.
Length = 153
Score = 28.4 bits (64), Expect = 5.9
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 523 VFTIGLFTNKMFLFAVCASVVGQLFVIYFPPLQKV--FQTEALTINDIAFLTALT-STVF 579
V + L TN + L + V LF+ + P + + F T +D L L +V
Sbjct: 52 VLLLSLLTNPLSLIVLLVLVAAWLFLYFLRPNEPLVLFGR---TFSDRQVLIGLLVVSVP 108
Query: 580 FVS 582
+
Sbjct: 109 LLF 111
>gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit TAF6
(also component of histone acetyltransferase SAGA)
[Transcription].
Length = 450
Score = 29.6 bits (66), Expect = 6.1
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 264 QETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRHKLTI 318
+ET +A +G+ I L + E+++++V + F + R LTI
Sbjct: 8 KETLKDVAESLGISNIDDDALRA--LAMDLEYRIKEVCQEASKFMVHSKRTVLTI 60
>gnl|CDD|237437 PRK13582, thrH, phosphoserine phosphatase; Provisional.
Length = 205
Score = 28.7 bits (65), Expect = 6.4
Identities = 16/38 (42%), Positives = 19/38 (50%)
Query: 312 PRHKLTIVKAFQANGVIVGMTGDGVNDGVALKKADIGI 349
P K VKA ++ G V GD ND L +AD GI
Sbjct: 130 PDGKRQAVKALKSLGYRVIAAGDSYNDTTMLGEADAGI 167
>gnl|CDD|182523 PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase;
Provisional.
Length = 272
Score = 28.8 bits (65), Expect = 6.8
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 333 GDGVNDGVALKKADIGIAMGKQGTDVCKEAADMILVDDDFNTIIAAI 379
GD ND L+ A +G+AMG D K AD+++ D+ +I I
Sbjct: 222 GDNFNDISMLEAAGLGVAMG-NADDAVKARADLVIGDNTTPSIAEFI 267
>gnl|CDD|234176 TIGR03351, PhnX-like, phosphonatase-like hydrolase. This clade of
sequences are the closest homologs to the PhnX enzyme,
phosphonoacetaldehyde (Pald) hydrolase (phosphonatase,
TIGR01422). This phosphonatase-like enzyme and PhnX
itself are members of the haloacid dehalogenase (HAD)
superfamily (pfam00702) having a a number of distinctive
features that set them apart from typical HAD enzymes.
The typical HAD N-terminal motif DxDx(T/V) here is DxAGT
and the usual conserved lysine prior to the C-terminal
motif is instead an arginine. Also distinctive of
phosphonatase, and particular to its bi-catalytic
mechanism is a conserved lysine in the variable "cap"
domain. This lysine forms a Schiff base with the
aldehyde of phosphonoacetaldehyde, providing, through
the resulting positive charge, a polarization of the C-P
bond necesary for cleavage as well as a route to the
initial product of cleavage, an ene-amine. The
conservation of these elements in this
phosphonatase-like enzyme suggests that the substrate is
also, like Pald, a 2-oxo-ethylphosphonate. Despite this,
the genomic context of members of this family are quite
distinct from PhnX, which is almost invariably
associated with the 2-aminoethylphosphonate transaminase
PhnW (TIGR02326), the source of the substrate Pald.
Members of this clade are never associated with PhnW,
but rather associate with families of FAD-dependent
oxidoreductases related to deaminating amino acid
oxidases (pfam01266) as well as zinc-dependent
dehydrogenases (pfam00107). Notably, family members from
Arthrobacter aurescens TC1 and Nocardia farcinica IFM
10152 are adjacent to the PhnCDE ABC cassette
phosphonates transporter (GenProp0236) typically found
in association with the phosphonates C-P lyase system
(GenProp0232). These observations suggest two
possibilities. First, the substrate for this enzyme
family is also Pald, the non-association with PhnW not
withstanding. Alternatively, the substrate is something
very closely related such as
hydroxyphosphonoacetaldehyde (Hpald). Hpald could come
from oxidative deamination of
1-hydroxy-2-aminoethylphosphonate (HAEP) by the
associated oxidase. HAEP would not be a substrate for
PhnW due to its high specificity for AEP. HAEP has been
shown to be a constituent of the sphingophosphonolipid
of Bacteriovorax stolpii, and presumably has other
natural sources. If Hpald is the substrate, the product
would be glycoaldehyde (hydroxyacetaldehyde), and the
associated alcohol dehydrogenase may serve to convert
this to glycol.
Length = 220
Score = 28.6 bits (64), Expect = 7.3
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 238 PRPHVRECMSTLLQSGVKVKLVTGDGQETATAIASMVG 275
P E +L SG+KV L TG ++TA + +G
Sbjct: 88 ALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLG 125
>gnl|CDD|221729 pfam12710, HAD, haloacid dehalogenase-like hydrolase.
Length = 122
Score = 27.9 bits (62), Expect = 7.5
Identities = 15/86 (17%), Positives = 34/86 (39%), Gaps = 13/86 (15%)
Query: 255 KVKLVTGDGQETATAIASMVGLDTIHGKVLSGDQIDQMTEHQLQQVVNSVTVFYRVTPRH 314
V +V+G + +A +G+D ++ V+ + L+ V+ + ++
Sbjct: 43 LVVIVSGSPEPLVRPVAKALGIDDVN--VVGTE---------LENVLVDGRLTGKLDGEG 91
Query: 315 KLTIVKAF--QANGVIVGMTGDGVND 338
K +K + V GD ++D
Sbjct: 92 KAAALKRLAQKIGRYPVVAVGDSISD 117
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 29.0 bits (65), Expect = 8.2
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 234 ICDPPRPHVRECMSTLLQSGVKV--KLVT-GDGQETATAIASMVGLDTIHGKVLSGDQID 290
I PP P R + L +GV++ L+T G+GQ + VG T+ G G Q D
Sbjct: 131 IAAPPDPMSRRMVEAPLPTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGTQCD 190
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 0.138 0.401
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 30,599,698
Number of extensions: 3043032
Number of successful extensions: 2757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2705
Number of HSP's successfully gapped: 80
Length of query: 608
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 505
Effective length of database: 6,369,140
Effective search space: 3216415700
Effective search space used: 3216415700
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: 41 (22.0 bits)
S2: 62 (27.5 bits)