RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 040022
(490 letters)
>gnl|CDD|233145 TIGR00836, amt, ammonium transporter. The Ammonium Transporter
(Amt) Family (TC 2.A.49) All functionally characterized
members of the Amt family are ammonia or ammonium uptake
transporters. Some, but not others, also transport
methylammonium. The mechanism of energy coupling, if
any, to methyl-NH2 or NH3 uptake by the AmtB protein of
E. coli is not entirely clear. NH4+ uniport driven by
the pmf, energy independent NH3 facilitation, and
NH4+/K+ antiport have been proposed as possible
transport mechanisms. In Corynebacterium glutamicum and
Arabidopsis thaliana, uptake via the Amt1 homologues of
AmtB has been reported to be driven by the pmf
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 403
Score = 434 bits (1118), Expect = e-150
Identities = 194/437 (44%), Positives = 244/437 (55%), Gaps = 45/437 (10%)
Query: 48 NTYLLFSAYLVFVMQLGFAMLCAGSVRAKNTMNIMLTNVLDAATGGLFYYLFGFAFAFG- 106
+LL +A LVF MQ GFA+L AG VR+KN +NIM+ N+LD A G L ++LFG++ AFG
Sbjct: 1 TAWLLIAAALVFFMQPGFALLYAGLVRSKNVLNIMMKNLLDFAIGSLLWWLFGYSLAFGE 60
Query: 107 -NPSNGFIGKHFFGL--------EAFPSPSFDYGYFLYQWAFAIAAAGITSGSIAERTQF 157
NP NGFIG FGL + D +FL+Q FA AA I SG++AER +F
Sbjct: 61 DNPINGFIGTGGFGLKNFLYPGKISLAGTLPDLLFFLFQMMFAAIAATIISGAVAERMKF 120
Query: 158 VAYLIYSSFLTGLVYPIVSHWFWSSDGWASPTRTDNNLLFGSGVIDFAGSGVVHMVGGIA 217
AYL++S T LVYP V+HW W GW L+ GV+DFAG GVVH+VGG+A
Sbjct: 121 SAYLLFSVLWTTLVYPPVAHWVWGGGGW----------LYKLGVLDFAGGGVVHIVGGVA 170
Query: 218 GLWGALIEGPRIGKFDHNDRPATMRGHSGTLVVLGTFLLWFGWYGFNPGSFVYILKTYGE 277
GL AL+ GPRIG+F RP +R H+ LVVLGTF+LWFGW+GFN GS
Sbjct: 171 GLAAALVLGPRIGRF---PRPVAIRPHNVPLVVLGTFILWFGWFGFNAGSA--------- 218
Query: 278 SGSYYGQWSAIGRTAITTTLAGCSAALTTLFGKRLIAGHWNVTDVCNGLLGGFAAITGGC 337
+ G A+ T LA + LT L L G + CNG+L G AIT GC
Sbjct: 219 -LAANG---TAAYAAVNTNLAAAAGGLTWLLIDWLKHGKPTLLGACNGILAGLVAITPGC 274
Query: 338 SVVDPWAAIICGFVA-AWILIGCNKLAEKFKYDDPLEAAQLHGGCGAWGVIFTGLFAKES 396
VV PW AII G VA + +KL +K K DDPL+A +HG G WG+I TGLFA
Sbjct: 275 GVVTPWGAIIIGLVAGVLCYLAVSKLKKKLKIDDPLDAFAVHGVGGIWGLIATGLFAAPK 334
Query: 397 YVNEVYPGKPGRPYGLFMGGGGKLLAAHIVQILVITGWVSVTMGTLFWLLNKLKLLRIST 456
G G +GG GK L ++ I I W V + +L+K LR+S
Sbjct: 335 VG--------GVGTGGLLGGNGKQLGVQLIGIAAIIAWAFVVTFIILKILDKTIGLRVSE 386
Query: 457 DEEMAGMDLTSHGGLAY 473
+EE G+DL HG AY
Sbjct: 387 EEEKIGLDLAEHGEFAY 403
>gnl|CDD|216185 pfam00909, Ammonium_transp, Ammonium Transporter Family.
Length = 399
Score = 391 bits (1006), Expect = e-133
Identities = 168/429 (39%), Positives = 218/429 (50%), Gaps = 35/429 (8%)
Query: 49 TYLLFSAYLVFVMQLGFAMLCAGSVRAKNTMNIMLTNVLDAATGGLFYYLFGFAFAFG-- 106
LL +A ++F MQ GFA+L +G VR+KN +NI+ N D A G L Y+ FG++ AFG
Sbjct: 2 FILLAAALVIF-MQPGFALLESGLVRSKNVLNILYKNFQDVAIGVLAYWGFGYSLAFGKR 60
Query: 107 NPSNGFIGKHFFGLEAFP-SPSFDYGYFLYQWAFAIAAAGITSGSIAERTQFVAYLIYSS 165
+GFIG D +FL+Q FA A I SG++AER +F AYL++S+
Sbjct: 61 YGFSGFIGNLGVSAAGIQWGTLPDGLFFLFQMMFAATAITIVSGAVAERIKFSAYLLFSA 120
Query: 166 FLTGLVYPIVSHWFWSSDGWASPTRTDNNLLFGSGVIDFAGSGVVHMVGGIAGLWGALIE 225
L LVYP V+HW W GW + ++DFAGS VVH+ GG AGL AL+
Sbjct: 121 LLGTLVYPPVAHWVWGEGGWLAKLGV---------LVDFAGSTVVHIFGGYAGLAAALVL 171
Query: 226 GPRIGKFDHNDRPATMRGHSGTLVVLGTFLLWFGWYGFNPGSFVYILKTYGESGSYYGQW 285
GPRIG+F + + H+ VLGTFLLWFGW+GFN GS +
Sbjct: 172 GPRIGRFTDKNEA--ITPHNLPFAVLGTFLLWFGWFGFNAGSALTANGRAR--------- 220
Query: 286 SAIGRTAITTTLAGCSAALTTLFGKRLIAGHWNVTDVCNGLLGGFAAITGGCSVVDPWAA 345
A+ T LA LT L RL G N+ + NG L G AIT C VV PW A
Sbjct: 221 ---AIAAVNTNLAAAGGGLTALLISRLKTGKPNMLGLANGALAGLVAITAACGVVTPWGA 277
Query: 346 IICGFVA-AWILIGCNKLAEKFKYDDPLEAAQLHGGCGAWGVIFTGLFAKESYVNEVYPG 404
+I G +A ++G KL EK DDPL+ +HG G WG I G+FA
Sbjct: 278 LIIGLIAGVVSVLGYKKLKEKLGIDDPLDVFPVHGVGGIWGGIAVGIFAAPYVP------ 331
Query: 405 KPGRPYGLFMGGGGKLLAAHIVQILVITGWVSVTMGTLFWLLNKLKLLRISTDEEMAGMD 464
YG +GGG K L ++ I VI + L LL LR+S +EE G+D
Sbjct: 332 -TSGIYGGLLGGGFKQLGVQLIGIAVILAYAFGVTFILGLLLGLTLGLRVSEEEEEVGLD 390
Query: 465 LTSHGGLAY 473
+ HG AY
Sbjct: 391 VAEHGETAY 399
>gnl|CDD|223083 COG0004, AmtB, Ammonia permease [Inorganic ion transport and
metabolism].
Length = 409
Score = 309 bits (793), Expect = e-101
Identities = 145/440 (32%), Positives = 206/440 (46%), Gaps = 47/440 (10%)
Query: 45 AIDNTYLLFSAYLVFVMQLGFAMLCAGSVRAKNTMNIMLTNVLDAATGGLFYYLFGFAFA 104
+ D ++L SA LV +M G A+ G VR KN +N ++ + + A L + G++ A
Sbjct: 3 SGDTAWMLLSAALVLLMTPGLALFYGGLVRKKNVLNTLMQSFVAFAIVTLLWIFVGYSLA 62
Query: 105 FGNPSNGFIGKHFF----GLEAFPSPSF----DYGYFLYQWAFAIAAAGITSGSIAERTQ 156
FG NGFIG GL + +F +Q FA + SG++AER +
Sbjct: 63 FGPDGNGFIGNLDQFFLNGLGFAAVAGGAGIPELVFFAFQMMFAAITPALISGAVAERMK 122
Query: 157 FVAYLIYSSFLTGLVYPIVSHWFWSSDGWASPTRTDNNLLFGSGVIDFAGSGVVHMVGGI 216
F AYL++S + LVYP V+HW W GW L G +DFAG VVH+ G
Sbjct: 123 FSAYLLFSVLWSTLVYPPVAHWVWGGGGW----------LALLGALDFAGGTVVHINAGF 172
Query: 217 AGLWGALIEGPRIGKFDHNDRPATMRGHSGTLVVLGTFLLWFGWYGFNPGSFVYILKTYG 276
A L AL+ G RIG +P + H+ LVVLG LLWFGW+GFN GS
Sbjct: 173 AALAAALVLGKRIGG-----KPVAIPPHNLPLVVLGAALLWFGWFGFNAGS--------- 218
Query: 277 ESGSYYGQWSAIGRTAITTTLAGCSAALTTLFGKRLIAGHWNVTDVCNGLLGGFAAITGG 336
+ A + T LA + AL + + L G ++ +G + G AIT
Sbjct: 219 ALAANGVAALA----FVNTNLAAAAGALGWMLIEWLRNGKPSLLGAASGAVAGLVAITPA 274
Query: 337 CSVVDPWAAIICGFVAAWI-LIGCNKLAEKFKYDDPLEAAQLHGGCGAWGVIFTGLFAKE 395
V PW A+I G +A I L +K DD L+ +HG G G I TG+FA
Sbjct: 275 AGFVSPWGALIIGLIAGVICYFAVKLLKKKLGVDDALDVFGVHGVGGIVGAILTGIFAAP 334
Query: 396 SYVNEVYPGKPGRPYGLFMGGGGKLLAAHIVQILVITGWVSVTMGTLFWLLNKLKLLRIS 455
+ GLF GGG L ++ +LV + V + +L + LR+S
Sbjct: 335 AVGGG---------GGLF-YGGGVQLGVQLLGVLVTIVYAFVVTFIILKVLKLIIGLRVS 384
Query: 456 TDEEMAGMDLTSHGGLAYAY 475
+EE+ G+D++ HG AY+
Sbjct: 385 EEEELEGLDISEHGESAYSE 404
>gnl|CDD|234292 TIGR03644, marine_trans_1, probable ammonium transporter, marine
subtype. Members of this protein family are well
conserved subclass of putative ammonimum transporters,
belonging to the much broader set of
ammonium/methylammonium transporter described by
TIGR00836. Species with this transporter tend to be
marine bacteria. Partial phylogenetic profiling (PPP)
picks a member of this protein family as the single
best-scoring protein vs. a reference profile for the
marine environment Genome Property for a large number of
different query genomes. This finding by PPP suggests
that this transporter family represents an important
adaptation to the marine environment.
Length = 404
Score = 225 bits (575), Expect = 9e-69
Identities = 142/444 (31%), Positives = 195/444 (43%), Gaps = 55/444 (12%)
Query: 44 YAIDNTYLLFSAYLVFVMQLGFAMLCAGSVRAKNTMNIMLTNVLDAATGGLFYYLFGFAF 103
YA+D Y L S LV M GFAML AG VR+KNT I+ N+ A + Y L G+
Sbjct: 1 YALDTFYFLISGALVMWMAAGFAMLEAGLVRSKNTTEILTKNIALFAIACIMYLLVGYNI 60
Query: 104 AFGNPS---NGFIGKHFFGLEAFPSP-----SFDYGY-----FLYQWAFAIAAAGITSGS 150
+ G +G G + D Y F +Q F A I SG+
Sbjct: 61 MYPGGGIFLGGILGSFLLGADNPVGDLIAGFEGDADYSSGSDFFFQVVFVATAMSIVSGA 120
Query: 151 IAERTQFVAYLIYSSFLTGLVYPIVSHWFWSSDGWASPTRTDNNLLFGSGVIDFAGSGVV 210
+AER + +L+++ LTG +YPI W W GW G DFAGSG+V
Sbjct: 121 VAERMKLWPFLLFAVVLTGFIYPIEGSWTWGG-GWLDDL----------GFSDFAGSGIV 169
Query: 211 HMVGGIAGLWGALIEGPRIGKFDHNDRPATMRGHSGTLVVLGTFLLWFGWYGFNPGSFVY 270
HM G A L G L+ GPR GK+ N + G + L LGTF+LW GW+GFN GS +
Sbjct: 170 HMAGAAAALAGVLLLGPRKGKYGKNGEVNPIPGSNLPLATLGTFILWMGWFGFNGGSQLA 229
Query: 271 ILKTYGESGSYYGQWSAIGRTAITTTLAGCSAALTTLFGKRLIAGHWNVTDVCNGLLGGF 330
+ S +A+ R T A A+ L +L+ G ++T V NG L G
Sbjct: 230 L--------SDVADANAVARIFANTNAAAAGGAIAALLLTKLLFGKADLTMVLNGALAGL 281
Query: 331 AAITGGCSVVDPWAAIICGFVAAWILIGCNKLAEKFKYDDPLEAAQLHGGCGAWGVIFTG 390
AIT P AA + G V I++ L +K K DDP+ A +HG G WG +
Sbjct: 282 VAITAEPLTPSPLAATLIGAVGGVIVVFSIVLLDKLKIDDPVGAISVHGVAGIWGTLVVP 341
Query: 391 LFAKESYVNEVYPGKPGRPYGLFMGGGGKLLAAHIVQILVITGWVSVTMGTLFWLLNKLK 450
+ G A ++ I WV VT ++++L
Sbjct: 342 I-----------------------TNGDASFGAQLIGAATIFAWVFVTSLIVWFILKATM 378
Query: 451 LLRISTDEEMAGMDLTSHGGLAYA 474
+R+S +EE G+D+ G AY
Sbjct: 379 GIRVSEEEEYEGLDIAECGMEAYP 402
>gnl|CDD|182630 PRK10666, PRK10666, ammonium transporter; Provisional.
Length = 428
Score = 148 bits (375), Expect = 8e-40
Identities = 126/436 (28%), Positives = 193/436 (44%), Gaps = 49/436 (11%)
Query: 47 DNTYLLFSAYLVFVMQL-GFAMLCAGSVRAKNTMNIMLTNVLDAATGGLFYYLFGFAFAF 105
DN +++ LV M + G A+ G +R KN ++++ + A + + ++G++ AF
Sbjct: 31 DNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVVYGYSLAF 90
Query: 106 GNPSNGFIGK------HFFGLEAFPSPSFDYGYFLYQWAFAIAAAGITSGSIAERTQFVA 159
G N F G L A + Y + +Q +FA G+ G++AER +F A
Sbjct: 91 G-EGNAFFGNFNWLMLKNIELTAVMGSIYQYIHVAFQGSFACITVGLIVGALAERIRFSA 149
Query: 160 YLIYSSFLTGLVYPIVSHWFWSSDGWASPTRTDNNLLFGSGVIDFAGSGVVHMVGGIAGL 219
LI+ L Y ++H W G L G +DFAG VVH+ +AGL
Sbjct: 150 VLIFVVVWLTLSYIPIAHMVWGG-GL----------LASDGALDFAGGTVVHINAAVAGL 198
Query: 220 WGALIEGPRIGKFDHNDRPATMRGHSGTLVVLGTFLLWFGWYGFNPGSFVYILKTYGESG 279
GA + G R+G +P H+ +V GT +L+ GW+GFN GS
Sbjct: 199 VGAYLLGKRVGFGKEAFKP-----HNLPMVFTGTAILYIGWFGFNAGS------------ 241
Query: 280 SYYGQWSAIGRTA-ITTTLAGCSAALTTLFGKRLIAGHWNVTDVCNGLLGGFAAITGGCS 338
G + I A + T +A +A L +FG+ + G ++ C+G + G +T C
Sbjct: 242 --AGAANEIAALAFVNTVVATAAAILGWVFGEWALRGKPSLLGACSGAIAGLVGVTPACG 299
Query: 339 VVDPWAAIICGFVAAWI-LIGCNKLAEKFKYDDPLEAAQLHGGCGAWGVIFTGLFAKESY 397
V A+I G VA L G L + DDP + +HG CG G I TG+FA S
Sbjct: 300 YVGVGGALIIGVVAGLAGLWGVTMLKRWLRVDDPCDVFGVHGVCGIVGCILTGIFAASSL 359
Query: 398 VNEVYPGKPGRPYGLFMGGGGKLLAAHIVQILVITGWVSVTMGTLFWLLNKLKLLRISTD 457
G G G+ M G + + I + W V + L + LR+ +
Sbjct: 360 ------GGVGYAEGVTM---GHQVLVQLESIAITIVWSGVVAFIGYKLADLTVGLRVPEE 410
Query: 458 EEMAGMDLTSHGGLAY 473
+E G+D+ SHG AY
Sbjct: 411 QEREGLDVNSHGENAY 426
>gnl|CDD|131530 TIGR02477, PFKA_PPi, diphosphate--fructose-6-phosphate
1-phosphotransferase. Diphosphate--fructose-6-phosphate
1-phosphotransferase catalyzes the addition of phosphate
from diphosphate (PPi) to fructose 6-phosphate to give
fructose 1,6-bisphosphate (EC 2.7.1.90). The enzyme is
also known as pyrophosphate-dependent
phosphofructokinase. The usage of PPi-dependent enzymes
in glycolysis presumably frees up ATP for other
processes. TIGR02482 represents the ATP-dependent
6-phosphofructokinase enzyme contained within Pfam
pfam00365: Phosphofructokinase. This model hits
primarily bacterial, plant alpha, and plant beta
sequences [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 539
Score = 33.1 bits (76), Expect = 0.39
Identities = 18/37 (48%), Positives = 21/37 (56%), Gaps = 6/37 (16%)
Query: 116 HFFGLE---AFPSPSFD--YGYFLYQWAFAIAAAGIT 147
HFFG E AFPS +FD Y Y L A + A G+T
Sbjct: 410 HFFGYEGRCAFPS-NFDSDYCYALGYTAAILLANGLT 445
>gnl|CDD|181323 PRK08250, PRK08250, glutamine amidotransferase; Provisional.
Length = 235
Score = 31.9 bits (73), Expect = 0.55
Identities = 14/30 (46%), Positives = 15/30 (50%)
Query: 288 IGRTAITTTLAGCSAALTTLFGKRLIAGHW 317
IG IT T AG L + FG L GHW
Sbjct: 113 IGYFPITLTEAGLKDPLLSHFGSTLTVGHW 142
>gnl|CDD|212073 cd11504, SLC5sbd_SMVT, Na(+)/multivitamin cotransporter SMVT and
related proteins; solute-binding domain. This
multivitamin transporter SMVT (product of the SLC5A6
gene) transports biotin, pantothenic acid and lipoate,
and is essential for mediating biotin uptake into
mammalian cells. SMVT is expressed in the placenta,
intestine, heart, brain, lung, liver, kidney and
pancreas. Biotin may regulate its own cellular uptake
through participation in holocarboxylase
synthetase-dependent chromatin remodeling events at SMVT
promoter loci. The cis regulatory elements, Kruppel-like
factor 4 and activator protein-2, regulate the activity
of the human SMVT promoter in the intestine.
Glycosylation of the hSMVT is important for its
transport function. This subgroup belongs to the solute
carrier 5 (SLC5) transporter family.
Length = 527
Score = 31.8 bits (72), Expect = 1.0
Identities = 27/69 (39%), Positives = 30/69 (43%), Gaps = 7/69 (10%)
Query: 201 VIDFAGSGVV-----HMVGGIAGLWGALIEGPRIGKFDHNDRPATMRGHSGTLVVLGTFL 255
V+ FAG V GGIA +W G RI FD N P R TL V G FL
Sbjct: 185 VVMFAGQLAVIIVGSIQAGGIARVWRVAANGSRIAGFDLNPDP-LERHTFWTLGVGGVFL 243
Query: 256 LWFGWYGFN 264
+ YG N
Sbjct: 244 M-LALYGVN 251
>gnl|CDD|215543 PLN03028, PLN03028, pyrophosphate--fructose-6-phosphate
1-phosphotransferase; Provisional.
Length = 610
Score = 31.3 bits (71), Expect = 1.4
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 116 HFFGLEAFPS-PS-FD--YGYFLYQWAFAIAAAGIT 147
HFFG +A S PS FD Y Y L + I AAG+
Sbjct: 419 HFFGYQARGSLPSKFDCDYAYVLGHICYHILAAGLN 454
>gnl|CDD|238588 cd01183, INT_SG1_C, INT_SG1, DNA breaking-rejoining enzymes,
integrase/recombinases subgroup 1, C-terminal catalytic
domain. The CD contains mainly predicted
integrase/recombinase and site-specific XerD
recombinases. The members of this CD are found
predominantly in proteobacteria. These proteins have not
been biochemically characerised as yet.
Length = 196
Score = 29.7 bits (67), Expect = 2.2
Identities = 16/58 (27%), Positives = 20/58 (34%), Gaps = 9/58 (15%)
Query: 136 QWAFAIAAAG---ITSGSIAERTQFVAYLIYSSFL-----TGLVYPIVSHWFWSSDGW 185
QWAF I A R F+ L+YS+ L P + F GW
Sbjct: 6 QWAFVIDTVASLPAQDPEHAARLLFLLALLYSTGLRISELAAATGPDLE-AFVQGGGW 62
>gnl|CDD|212089 cd11520, SLC5sbd_SMCT2, Na(+)/monocarboxylate cotransporter SMCT2
and related proteins; solute-binding domain. SMCT2 is a
low-affinity transporter for short-chain fatty acids,
lactate, pyruvate, and nicotinate. Human SMCT2 (hSMCT2)
is encoded by the SLC5A12 gene. SMCT2 is expressed in
the kidney, small intestine, skeletal muscle, and
retina. In the kidney, it is expressed in the apical
membrane of the proximal convoluted tubule, along the
entire length of the tubule (in contrast to the
high-affinity monocarboxylate transporter SMCT1,
belonging to a different family, which is limited to the
S3 segment of the tubule). SMCT2 may initiate lactate
absorption in the early parts of the tubule. In the
retina, SMCT1 and SMCT2 may play a differential role in
monocarboxylate transport in a cell type-specific
manner, SMCT2 is expressed exclusively in Muller cells.
Nicotine transport by hSMCT2 is inhibited by several
non-steroidal anti-inflammatory drugs. This subgroup
belongs to the solute carrier 5 (SLC5) transporter
family.
Length = 529
Score = 30.2 bits (68), Expect = 3.2
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 213 VGGIAGLWGALIEGPRIGKFDHNDRPATMRGHS-GTLVVLGTFLLWFGWYGFN 264
GG +W G R+ FD + P +R H+ T+ V GTF W G YG N
Sbjct: 205 NGGFTNVWETAYNGSRLNIFDFDVDP--LRRHTFWTITVGGTFT-WLGIYGVN 254
>gnl|CDD|215527 PLN02976, PLN02976, amine oxidase.
Length = 1713
Score = 29.8 bits (67), Expect = 4.3
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 299 GCSAALTTLFGKRLIAGHWNVTDVCNGLLGGFAAITGGCSVV 340
GC+A L K + +WN DV G G I GG S V
Sbjct: 902 GCAALL-----KEVSLPYWNQDDVYGGFGGAHCMIKGGYSNV 938
>gnl|CDD|212664 cd07792, FGGY_GK1-3_metazoa, Metazoan glycerol kinase 1 and 3-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a group of
metazoan glycerol kinases (GKs), coded by X
chromosome-linked GK genes, and glycerol kinase
(GK)-like proteins, coded by autosomal testis-specific
GK-like genes (GK-like genes, GK1 and GK3). Sequence
comparison shows that metazoan GKs and GK-like proteins
in this family are closely related to the bacterial GKs,
which catalyze the Mg-ATP dependent phosphorylation of
glycerol to yield glycerol 3-phosphate (G3P). The
metazoan GKs do have GK enzymatic activity. However, the
GK-like metazoan proteins do not exhibit GK activity and
their biological functions are not yet clear. Some of
them lack important functional residues involved in the
binding of ADP and Mg2+, which may result in the loss of
GK catalytic function. Others that have conserved
catalytic residues have lost their GK activity as well;
the reason remains unclear. It has been suggested the
conserved catalytic residues might facilitate them
performing a distinct function. GKs belong to the FGGY
family of carbohydrate kinases, the monomers of which
contain two large domains, which are separated by a deep
cleft that forms the active site. This model includes
both the N-terminal domain, which adopts a ribonuclease
H-like fold, and the structurally related C-terminal
domain.
Length = 504
Score = 28.9 bits (65), Expect = 6.4
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 433 GWVSVTMGTLFWLLNKLKLLRISTD-EEMAGMDLTSHG 469
G V++ + WL + L +++ S+D E++A TS
Sbjct: 311 GSVAIAGAAIRWLRDNLGIIKTSSDIEKLASEVGTSGD 348
>gnl|CDD|227714 COG5427, COG5427, Uncharacterized membrane protein [Function
unknown].
Length = 684
Score = 28.8 bits (64), Expect = 7.4
Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 2/73 (2%)
Query: 94 LFYYLFGFAFAFGNPSNGFIGKHFFGLEAFPSPSFDYGYFLYQWAFAIAAAGITSGSIAE 153
L + F A A N + FG+ A D + +W +A G + +
Sbjct: 276 LLWGGFPVAGAAILTVNTWSLPTVFGVAALAVALADPATGVQRWTRRESAVGQSVQRVL- 334
Query: 154 RTQFVAYLIYSSF 166
+A +I F
Sbjct: 335 -LAVLAVVIAWPF 346
>gnl|CDD|212074 cd11505, SLC5sbd_SMCT, Na(+)/monocarboxylate cotransporters SMCT1
and 2 and related proteins; solute-binding domain.
SMCT1 is a high-affinity transporter of various
monocarboxylates including lactate and pyruvate,
short-chain fatty acids, ketone bodies, nicotinate and
its structural analogs, pyroglutamate, benzoate and its
derivatives, and iodide. Human SMCT1 (hSMCT1, also
called AIT) is encoded by the tumor suppressor gene
SLC5A8. SMCT1 is expressed in the colon, small
intestine, kidney, thyroid gland, retina, and brain.
SMCT1 may contribute to the intestinal/colonic and oral
absorption of monocarboxylate drugs. It also mediates
iodide transport from thyrocyte into the colloid lumen
in thyroid gland and, through transporting L-lactate and
ketone bodies, helps maintain the energy status and the
function of neurons. SMCT2 is a low-affinity transporter
for short-chain fatty acids, lactate, pyruvate, and
nicotinate. hSMCT2 is encoded by the SLC5A12 gene. SMCT2
is expressed in the kidney, small intestine, skeletal
muscle, and retina. In the kidney, SMCT2 may initiate
lactate absorption in the early parts of the tubule,
SMCT1 in the latter parts of the tubule. In the retina,
SMCT1 and SMCT2 may play a differential role in
monocarboxylate transport in a cell type-specific
manner. This subgroup belongs to the solute carrier 5
(SLC5) transporter family.
Length = 536
Score = 28.5 bits (64), Expect = 8.3
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 208 GVVHMVGGIAGLWGALIEGPRIGKFDHNDRPATMRGHS-GTLVVLGTFLLWFGWYGFN 264
VV GGI + G R+ +D + P +R H+ T+VV GTF W G YG N
Sbjct: 201 AVVLQ-GGIGNILNDSYYGGRLNFWDFDPNP--LRRHTFWTIVVGGTFT-WTGIYGVN 254
>gnl|CDD|216018 pfam00606, Glycoprotein_B, Herpesvirus Glycoprotein B. This family
of proteins contains a transmembrane region.
Length = 711
Score = 28.7 bits (65), Expect = 8.3
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 190 RTDNNLLFGSGVIDF------AGSGVVHMVGGIAGLWGALIEG 226
DN F G+ DF G V ++V G+AG G+++ G
Sbjct: 614 DNDNRPAFVRGLDDFFQGLGAVGKAVGNVVSGVAGAVGSIVSG 656
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 0.141 0.457
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,289,298
Number of extensions: 2699269
Number of successful extensions: 3629
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3565
Number of HSP's successfully gapped: 113
Length of query: 490
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 389
Effective length of database: 6,457,848
Effective search space: 2512102872
Effective search space used: 2512102872
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 (21.6 bits)
S2: 61 (27.1 bits)