RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9355
(204 letters)
>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 = 286 bits (733), Expect = 2e-95
Identities = 108/155 (69%), Positives = 127/155 (81%), Gaps = 1/155 (0%)
Query: 5 VDSRQGLLTTVAFKLG-DEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHR 63
V S GLLTTVA+KLG D+P +YALEGSVA+AGAA+ WLRDN+G++ +IE LA
Sbjct: 285 VFSTHGLLTTVAYKLGPDKPTIYALEGSVAIAGAAIRWLRDNLGIIKTSSDIEKLASEVG 344
Query: 64 HTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKK 123
+GDVYFVPAFSGLYAPYW+ DARGIICG+T+ TT+ HI RAALEA+CFQTR+ILEAM K
Sbjct: 345 TSGDVYFVPAFSGLYAPYWRKDARGIICGLTQFTTKNHIARAALEAVCFQTREILEAMNK 404
Query: 124 DCGIQLIKLQVDGGMTANKHLMQTQADLCGIPVGK 158
DCGI L KLQVDGGMT+N LMQ QAD+ GIPV +
Sbjct: 405 DCGIPLSKLQVDGGMTSNNLLMQLQADILGIPVVR 439
Score = 83.9 bits (208), Expect = 6e-19
Identities = 32/43 (74%), Positives = 36/43 (83%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
NLTGG +GG +ITDV+NASRTMLMNIETLEWDP LC + I M
Sbjct: 176 NLTGGPNGGVHITDVTNASRTMLMNIETLEWDPELCKFFGIPM 218
>gnl|CDD|233353 TIGR01311, glycerol_kin, glycerol kinase. This model describes
glycerol kinase, a member of the FGGY family of
carbohydrate kinases [Energy metabolism, Other].
Length = 493
Score = 261 bits (668), Expect = 1e-85
Identities = 96/150 (64%), Positives = 116/150 (77%)
Query: 7 SRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTG 66
S+ GLLTTVA++LG + VYALEGSV VAGAA+ WLRDN+ ++ E E+LA S G
Sbjct: 278 SKHGLLTTVAYQLGGKKPVYALEGSVFVAGAAVQWLRDNLKLIKHAAESEALARSVEDNG 337
Query: 67 DVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCG 126
VYFVPAF+GL APYW PDARG I G+T TT+ HI RAALEAI FQTRD+LEAM+KD G
Sbjct: 338 GVYFVPAFTGLGAPYWDPDARGAIFGLTRGTTKAHIARAALEAIAFQTRDVLEAMEKDAG 397
Query: 127 IQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
+++ KL+VDGGMT N LMQ QAD+ G+PV
Sbjct: 398 VEITKLRVDGGMTNNNLLMQFQADILGVPV 427
Score = 70.7 bits (174), Expect = 2e-14
Identities = 24/44 (54%), Positives = 31/44 (70%), Gaps = 3/44 (6%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINMQ 202
NLTGGK ++TDV+NASRTML NI TL+WD L ++ I +
Sbjct: 169 NLTGGK---VHVTDVTNASRTMLFNIHTLDWDDELLELFGIPRE 209
>gnl|CDD|198347 cd07769, FGGY_GK, Glycerol kinases; a subfamily of the FGGY family
of carbohydrate kinases. This subfamily includes
glycerol kinases (GK; EC 2.7.1.30) and glycerol
kinase-like proteins from all three kingdoms of living
organisms. Glycerol is an important intermediate of
energy metabolism and it plays fundamental roles in
several vital physiological processes. GKs are involved
in the entry of external glycerol into cellular
metabolism. They catalyze the rate-limiting step in
glycerol metabolism by transferring a phosphate from ATP
to glycerol thus producing glycerol 3-phosphate (G3P) in
the cytoplasm. Human GK deficiency, called
hyperglycerolemia, is an X-linked recessive trait
associated with psychomotor retardation, osteoporosis,
spasticity, esotropia, and bone fractures. Under
different conditions, GKs from different species may
exist in different oligomeric states. The monomer of GKs
is composed of two large domains 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. The high affinity ATP binding site of GKs is
created only by a substrate-induced conformational
change. Based on sequence similarity, some GK-like
proteins from metazoa, which have lost their GK
enzymatic activity, are also included in this CD.
Members in this subfamily belong to the FGGY family of
carbohydrate kinases.
Length = 484
Score = 257 bits (659), Expect = 2e-84
Identities = 99/153 (64%), Positives = 119/153 (77%)
Query: 4 KVDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHR 63
V S GLLTT+A+KLG VYALEGS+AVAG+A+ WLRDN+ +++ E+E LA S
Sbjct: 275 PVISEHGLLTTIAYKLGPGKPVYALEGSIAVAGSAVQWLRDNLKIISSASEVEELAASVE 334
Query: 64 HTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKK 123
TG VYFVPAFSGL+APYW PDARG I G+T TTR HIVRAALEAI FQTRD+L+AM+K
Sbjct: 335 DTGGVYFVPAFSGLFAPYWDPDARGTILGLTRGTTRAHIVRAALEAIAFQTRDVLDAMEK 394
Query: 124 DCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
D GI+L L+VDGG+T N LMQ QAD+ G+PV
Sbjct: 395 DSGIKLSVLRVDGGLTKNNLLMQFQADILGVPV 427
Score = 70.7 bits (174), Expect = 2e-14
Identities = 24/43 (55%), Positives = 31/43 (72%), Gaps = 3/43 (6%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
NLTGGK ++TDV+NASRTMLMN+ TL+WD L ++ I
Sbjct: 168 NLTGGK---VHVTDVTNASRTMLMNLHTLQWDEELLELFGIPS 207
>gnl|CDD|198361 cd07786, FGGY_EcGK_like, Escherichia coli glycerol kinase-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup is composed of mostly bacterial
and archaeal glycerol kinases (GK), including the well
characterized proteins from Escherichia coli (EcGK),
Thermococcus kodakaraensis (TkGK), and Enterococcus
casseliflavus (EnGK). GKs contain two large domains
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. The high affinity ATP binding
site of EcGK is created only by a substrate-induced
conformational change, which is initiated by
protein-protein interactions through complex formation
with enzyme IIAGlc (also known as IIIGlc), the
glucose-specific phosphocarrier protein of the
phosphotransferase system (PTS). EcGK exists in a
dimer-tetramer equilibrium. IIAGlc binds to both EcGK
dimer and tetramer, and inhibits the uptake and
subsequent metabolism of glycerol and maltose. Another
well-known allosteric regulator of EcGK is fructose
1,6-bisphosphate (FBP), which binds to the EcGK tetramer
and plays an essential role in the stabilization of the
inactive tetrameric form. EcGK requires Mg2+ for its
enzymatic activity. Members in this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 486
Score = 247 bits (634), Expect = 1e-80
Identities = 92/152 (60%), Positives = 115/152 (75%), Gaps = 1/152 (0%)
Query: 5 VDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRH 64
V S+ GLLTT+A++LG + V YALEGS+ +AGAA+ WLRD +G++ E E+LA S
Sbjct: 275 VRSKNGLLTTIAWQLGGK-VTYALEGSIFIAGAAVQWLRDGLGLIESAAETEALARSVPD 333
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKD 124
G VYFVPAF+GL APYW PDARG I G+T TTR HI RAALE+I +QTRD+LEAM+ D
Sbjct: 334 NGGVYFVPAFTGLGAPYWDPDARGAIFGLTRGTTRAHIARAALESIAYQTRDLLEAMEAD 393
Query: 125 CGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
GI L +L+VDGG +AN LMQ QAD+ G+PV
Sbjct: 394 SGIPLKELRVDGGASANDFLMQFQADILGVPV 425
Score = 66.4 bits (163), Expect = 5e-13
Identities = 24/41 (58%), Positives = 28/41 (68%), Gaps = 3/41 (7%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
LTGGK + TDV+NASRTML NI TLEWD L ++ I
Sbjct: 168 KLTGGK---VHATDVTNASRTMLFNIHTLEWDDELLELFGI 205
>gnl|CDD|240348 PTZ00294, PTZ00294, glycerol kinase-like protein; Provisional.
Length = 504
Score = 246 bits (631), Expect = 4e-80
Identities = 96/154 (62%), Positives = 119/154 (77%), Gaps = 1/154 (0%)
Query: 4 KVDSRQGLLTTVAFKLG-DEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESH 62
V S+ GLLTTV ++LG + P VYALEGS+AVAGA + WLRDN+G+++ EIE LA S
Sbjct: 281 IVFSKHGLLTTVCYQLGPNGPTVYALEGSIAVAGAGVEWLRDNMGLISHPSEIEKLARSV 340
Query: 63 RHTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMK 122
+ TG V FVPAFSGL+APYW+PDARG I G+T TTR HIVRAALEAI QT D++E+M+
Sbjct: 341 KDTGGVVFVPAFSGLFAPYWRPDARGTIVGMTLKTTRAHIVRAALEAIALQTNDVIESME 400
Query: 123 KDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
KD GI+L L+VDGG+T NK LMQ QAD+ G +
Sbjct: 401 KDAGIELNSLRVDGGLTKNKLLMQFQADILGKDI 434
Score = 70.8 bits (174), Expect = 2e-14
Identities = 24/43 (55%), Positives = 30/43 (69%), Gaps = 3/43 (6%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
NLTGGK ++TDV+NASRT LMNI+TL+WD L + I
Sbjct: 173 NLTGGKS---HVTDVTNASRTFLMNIKTLKWDEELLNKFGIPK 212
>gnl|CDD|234594 PRK00047, glpK, glycerol kinase; Provisional.
Length = 498
Score = 236 bits (604), Expect = 5e-76
Identities = 81/152 (53%), Positives = 108/152 (71%), Gaps = 1/152 (0%)
Query: 5 VDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRH 64
V S GLLTT+A+ + + V YALEGS+ VAG+A+ WLRD + +++ + E+LA
Sbjct: 281 VKSENGLLTTIAWGIDGKVV-YALEGSIFVAGSAIQWLRDGLKIISDASDSEALARKVED 339
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKD 124
VY VPAF+GL APYW DARG I G+T TT+ HI+RA LE+I +QTRD+L+AM+ D
Sbjct: 340 NDGVYVVPAFTGLGAPYWDSDARGAIFGLTRGTTKEHIIRATLESIAYQTRDVLDAMQAD 399
Query: 125 CGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
GI+L +L+VDGG AN LMQ QAD+ G+PV
Sbjct: 400 SGIRLKELRVDGGAVANNFLMQFQADILGVPV 431
Score = 67.2 bits (165), Expect = 3e-13
Identities = 22/41 (53%), Positives = 28/41 (68%), Gaps = 3/41 (7%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
LTGGK ++TD +NASRTML NI TL+WD L + +I
Sbjct: 173 KLTGGK---VHVTDYTNASRTMLFNIHTLDWDDELLELLDI 210
>gnl|CDD|198362 cd07789, FGGY_CsGK_like, Cellulomonas sp. glycerol kinase-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a small group of
bacterial glycerol kinases (GK) with similarity to
Cellulomonas sp. glycerol kinase (CsGK). CsGK might
exist as a dimer. Its monomer is composed of two large
domains 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. The regulation
of the catalytic activity of this group has not yet been
examined. Members in this subgroup belong to the FGGY
family of carbohydrate kinases.
Length = 495
Score = 231 bits (592), Expect = 2e-74
Identities = 88/153 (57%), Positives = 114/153 (74%)
Query: 4 KVDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHR 63
V S+ GLLTTVA++ G +P VYALEGS+AV G+ + WLRDN+G++ EIE+LA +
Sbjct: 277 PVRSKHGLLTTVAYQFGGQPAVYALEGSIAVTGSLVQWLRDNLGLIKTAAEIETLARTVE 336
Query: 64 HTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKK 123
G VYFVPAFSGL+APYW+ DARG+I G+T +GHI RA LEA FQTR++++AM
Sbjct: 337 DNGGVYFVPAFSGLFAPYWRSDARGVIVGLTRYVNKGHIARAVLEATAFQTREVVDAMNA 396
Query: 124 DCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
D G+ L L+VDGGM AN+ LMQ QAD+ G+PV
Sbjct: 397 DSGVALESLRVDGGMVANELLMQFQADILGVPV 429
Score = 70.9 bits (174), Expect = 1e-14
Identities = 26/44 (59%), Positives = 33/44 (75%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINMQ 202
NLTGG GG ++TDV+NASRTMLM++ETL+WDP L + I
Sbjct: 168 NLTGGPRGGVHVTDVTNASRTMLMDLETLDWDPELLAAFGIPRS 211
>gnl|CDD|215166 PLN02295, PLN02295, glycerol kinase.
Length = 512
Score = 228 bits (583), Expect = 8e-73
Identities = 95/158 (60%), Positives = 115/158 (72%), Gaps = 6/158 (3%)
Query: 5 VDSRQGLLTTVAFKLG-DEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHR 63
V S+ GLLTTVA+KLG D P YALEGSVA+AGAA+ WLRDN+G++ EIE+LA +
Sbjct: 283 VPSKHGLLTTVAYKLGPDAPTNYALEGSVAIAGAAVQWLRDNLGIIKSASEIEALAATVD 342
Query: 64 HTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKK 123
TG VYFVPAFSGL+AP W+ DARG+ GIT T + HI RA LE++CFQ +D+L+AM+K
Sbjct: 343 DTGGVYFVPAFSGLFAPRWRDDARGVCVGITRFTNKAHIARAVLESMCFQVKDVLDAMRK 402
Query: 124 DCGI-----QLIKLQVDGGMTANKHLMQTQADLCGIPV 156
D G L L+VDGG TAN LMQ QADL G PV
Sbjct: 403 DAGEEKSHKGLFLLRVDGGATANNLLMQIQADLLGSPV 440
Score = 65.9 bits (161), Expect = 8e-13
Identities = 24/43 (55%), Positives = 30/43 (69%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
NLTGG GG ++TDV+NASRTMLMN++TL+WD I
Sbjct: 174 NLTGGASGGVHVTDVTNASRTMLMNLKTLDWDKPTLEALGIPA 216
>gnl|CDD|223628 COG0554, GlpK, Glycerol kinase [Energy production and conversion].
Length = 499
Score = 225 bits (575), Expect = 1e-71
Identities = 88/152 (57%), Positives = 110/152 (72%), Gaps = 1/152 (0%)
Query: 5 VDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRH 64
V S GLLTT+A+ L + YALEGS+ VAGAA+ WLRD +G++ + E LAES
Sbjct: 280 VRSENGLLTTIAWGLDGKVT-YALEGSIFVAGAAVQWLRDGLGLIDDASDSEELAESVED 338
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKD 124
G VYFVPAF+GL APYW DARG I G+T TT+ HI RA LE+I +QTRD+LEAM+KD
Sbjct: 339 NGGVYFVPAFTGLGAPYWDSDARGAIFGLTRGTTKAHIARATLESIAYQTRDVLEAMEKD 398
Query: 125 CGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
GI+L +L+VDGG + N LMQ QAD+ G+PV
Sbjct: 399 SGIKLTRLRVDGGASRNNFLMQFQADILGVPV 430
Score = 63.8 bits (156), Expect = 4e-12
Identities = 23/41 (56%), Positives = 27/41 (65%), Gaps = 3/41 (7%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
LTGGK ++TD SNASRTML NI +LEWD L + I
Sbjct: 173 KLTGGK---VHVTDYSNASRTMLFNIHSLEWDDELLELLGI 210
>gnl|CDD|198367 cd07795, FGGY_ScGut1p_like, Saccharomyces cerevisiae Gut1p and
related proteins; belongs to the FGGY family of
carbohydrate kinases. This subgroup corresponds to a
small group of fungal glycerol kinases (GK), including
Saccharomyces cerevisiae Gut1p/YHL032Cp, which
phosphorylates glycerol to glycerol-3-phosphate in the
cytosol. Glycerol utilization has been considered as the
sole source of carbon and energy in S. cerevisiae, and
is mediated by glycerol kinase and glycerol 3-phosphate
dehydrogenase, which is encoded by the GUT2 gene.
Members in this family show high similarity to their
prokaryotic and eukaryotic homologs. 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 = 496
Score = 215 bits (549), Expect = 6e-68
Identities = 91/154 (59%), Positives = 111/154 (72%), Gaps = 1/154 (0%)
Query: 4 KVDSRQGLLTTVAFKLGD-EPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESH 62
V S+ GLLTTVA++ G VYALEGS+AVAG+A+ WLRDN+G+++ E+I LA
Sbjct: 284 PVISKHGLLTTVAYQFGPGAKPVYALEGSIAVAGSAVKWLRDNLGLISKAEDIGELASQV 343
Query: 63 RHTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMK 122
+G V FV AFSGL+APYW DARG I GIT+ TT+ HI RAALEA+CFQTR IL+AM
Sbjct: 344 PDSGGVVFVTAFSGLFAPYWDDDARGTIFGITQYTTKSHIARAALEAVCFQTRAILDAMS 403
Query: 123 KDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
KD G L L VDGGM+ + MQ QAD+ GIPV
Sbjct: 404 KDSGSPLKALAVDGGMSNSDVAMQIQADILGIPV 437
Score = 66.3 bits (162), Expect = 6e-13
Identities = 21/43 (48%), Positives = 29/43 (67%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
NLTGG ++TDV+NASRTM MN+ TL++D L + I+
Sbjct: 175 NLTGGPKTKVHVTDVTNASRTMFMNLATLKYDQKLLDFFGIDK 217
>gnl|CDD|198368 cd07796, FGGY_NHO1_plant, Arabidopsis NHO1 and related proteins;
belongs to the FGGY family of carbohydrate kinases.
This subgroup includes Arabidopsis NHO1 (also known as
NONHOST1, or noh-host resistant 1) and other putative
plant glycerol kinases, which share strong homology with
glycerol kinases from bacteria, fungi, and animals.
Nonhost resistance of plants refers to the phenomenon
observed when all members of a plant species are
typically resistant to a specific parasite. NHO1 is
required for nonspecific resistance to nonhost
Pseudomonas bacteria, it is also required for resistance
to the fungal pathogen Botrytis cinerea. This subgroup
belongs 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 = 503
Score = 190 bits (483), Expect = 4e-58
Identities = 88/160 (55%), Positives = 115/160 (71%), Gaps = 8/160 (5%)
Query: 5 VDSRQGLLTTVAFKLG-DEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHR 63
+ S GLLTT+A+KLG D P YALEGS+A+AGAA+ WLRD++G++ EIESLA++
Sbjct: 285 IPSNHGLLTTIAYKLGPDAPTNYALEGSIAIAGAAVQWLRDSLGIIKSASEIESLAKTVN 344
Query: 64 HTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKK 123
+TG VYFVPAF+GL+AP+W+ DARG+ GIT T + HI RA LE++CFQ +++L +MK
Sbjct: 345 NTGGVYFVPAFNGLFAPWWRDDARGVCIGITRYTNKAHIARAVLESMCFQVKEVLTSMKA 404
Query: 124 DCG-IQLIK------LQVDGGMTANKHLMQTQADLCGIPV 156
D G I+ L+VDGG T N LMQ QADL G PV
Sbjct: 405 DAGNIEANTVGGEFLLRVDGGATVNNLLMQIQADLMGSPV 444
Score = 49.6 bits (118), Expect = 3e-07
Identities = 19/34 (55%), Positives = 28/34 (82%), Gaps = 2/34 (5%)
Query: 159 NLTGGKDG--GKYITDVSNASRTMLMNIETLEWD 190
NLTGG +G G ++TD +NA+RTMLM+++TL+W
Sbjct: 174 NLTGGINGEEGVHVTDCTNAARTMLMDLKTLQWH 207
>gnl|CDD|198378 cd10427, FGGY_GK_1, Uncharacterized subgroup; belongs to the
glycerol kinases subfamily of the FGGY family of
carbohydrate kinases. This subgroup contains
uncharacterized bacterial proteins belonging to the
glycerol kinase subfamily of the FGGY family of
carbohydrate kinases. The glycerol kinase subfamily
includes glycerol kinases (GK; EC 2.7.1.30), and
glycerol kinase-like proteins from all three kingdoms of
living organisms. Glycerol is an important intermediate
of energy metabolism and it plays fundamental roles in
several vital physiological processes. GKs are involved
in the entry of external glycerol into cellular
metabolism. They catalyze the rate-limiting step in
glycerol metabolism by transferring a phosphate from ATP
to glycerol thus producing glycerol 3-phosphate (G3P) in
the cytoplasm. Under different conditions, GKs from
different species may exist in different oligomeric
states. The monomer of GKs is composed of two large
domains 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 = 487
Score = 175 bits (446), Expect = 9e-53
Identities = 69/152 (45%), Positives = 101/152 (66%), Gaps = 1/152 (0%)
Query: 5 VDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRH 64
V S GL+T++A+ + V Y LEG++ GA + WL+D +G++ E E LA S
Sbjct: 276 VLSDHGLVTSLAWSV-GGKVTYVLEGNINYTGATITWLKDKLGLIQDPAETEELALSANP 334
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKD 124
VY VPAF+GL APYW+ DA+ I G+T T + +VRAALE+I +Q D+++AM++D
Sbjct: 335 NDGVYLVPAFTGLGAPYWKSDAKAAIVGMTRTTGKAELVRAALESIAYQINDVIDAMEED 394
Query: 125 CGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
GI++ +L+VDGG T N++LMQ QAD+ PV
Sbjct: 395 SGIEISELRVDGGPTRNRYLMQFQADILNAPV 426
Score = 67.3 bits (165), Expect = 2e-13
Identities = 22/41 (53%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
LT GK + TD SNASRT L NI TL+WD LC ++ I
Sbjct: 168 KLTNGK---SFKTDYSNASRTQLFNIHTLDWDEELCELFGI 205
>gnl|CDD|198363 cd07791, FGGY_GK2_bacteria, bacterial glycerol kinase 2-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a group of
putative bacterial glycerol kinases (GK), which may be
coded by the GK-like gene, GK2. Sequence comparison
shows members in this CD are homologs of Escherichia
coli GK. They retain all functionally important
residues, and may catalyze the Mg-ATP dependent
phosphorylation of glycerol to yield glycerol
3-phosphate (G3P). 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 = 484
Score = 166 bits (422), Expect = 2e-49
Identities = 76/155 (49%), Positives = 99/155 (63%), Gaps = 2/155 (1%)
Query: 7 SRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTG 66
GL TT+A+ G EP YALEG++ V GAA+ W+ D +G+ + LA + G
Sbjct: 275 PSHGLSTTIAWHDGGEPT-YALEGNITVTGAAVAWMADLLGLP-DPAALSELAATASDNG 332
Query: 67 DVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCG 126
VYFVPA +GL AP+W DARG+I G+T T R H+ RAALE+I FQ D+ EAM++ G
Sbjct: 333 GVYFVPALTGLGAPWWDRDARGLISGLTLGTGRAHLARAALESIAFQIADVFEAMQQAAG 392
Query: 127 IQLIKLQVDGGMTANKHLMQTQADLCGIPVGKNLT 161
L +L VDGG T N+ LMQ QADL G PV ++ T
Sbjct: 393 GPLERLSVDGGATRNRFLMQLQADLLGRPVIRSDT 427
Score = 47.8 bits (114), Expect = 1e-06
Identities = 18/41 (43%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
NLTGG + TD SNA+RT L+++ +WDP L ++ I
Sbjct: 166 NLTGGA---VFATDASNAARTQLLDLHGGQWDPQLLDLFGI 203
>gnl|CDD|212665 cd07793, FGGY_GK5_metazoa, metazoan glycerol kinase 5-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a group of
metazoan putative glycerol kinases (GK), which may be
coded by the GK-like gene, GK5. Sequence comparison
shows members of this group are homologs of bacterial
GKs, and they retain all functionally important
residues. However, GK-like proteins in this family do
not have detectable GK activity. The reason remains
unclear. It has been suggested tha 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 = 138 bits (349), Expect = 1e-38
Identities = 60/150 (40%), Positives = 90/150 (60%), Gaps = 2/150 (1%)
Query: 7 SRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTG 66
S +GL V +K+G+E VVY EG+ G A++W + ++G+ T E +A S +
Sbjct: 293 SVKGLYPLVGWKIGNE-VVYLAEGASNDTGTAIDWAQ-SIGLFTDPAETSDMANSVPDSE 350
Query: 67 DVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCG 126
VYF+PAFSGL P P A G+ TT+ H+VRA LE+I F+ + + E +KK+ G
Sbjct: 351 GVYFIPAFSGLQPPINDPRACAGFIGLKPSTTKEHLVRALLESIAFRIKQLYETIKKETG 410
Query: 127 IQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
+ K++VDGG++ N + Q ADL G+PV
Sbjct: 411 QPIKKIRVDGGVSNNDFICQLLADLTGLPV 440
Score = 39.6 bits (93), Expect = 6e-04
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 159 NLTGGKDGGKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
LTGGK +++TDVSNAS T L + T+EW ++ I
Sbjct: 184 KLTGGK---EHVTDVSNASATGLFDPFTMEWSSWALSLFGIPS 223
>gnl|CDD|217229 pfam02782, FGGY_C, FGGY family of carbohydrate kinases, C-terminal
domain. This domain adopts a ribonuclease H-like fold
and is structurally related to the N-terminal domain.
Length = 193
Score = 127 bits (320), Expect = 5e-37
Identities = 51/161 (31%), Positives = 75/161 (46%), Gaps = 14/161 (8%)
Query: 4 KVDSRQGLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEE---IESLAE 60
V S G+ +E + LEG + AG+ + WL + + + +ESLA
Sbjct: 18 PVLSVHGVWGPY----TNEGG-WGLEGGQSAAGSLLGWLLQTLRAREELRDAGLVESLAL 72
Query: 61 S-----HRHTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTR 115
G + F+P FSG AP P ARG I G++ TT ++ RA LE + R
Sbjct: 73 LLALAADAPAGGLLFLPDFSGERAPGADPHARGAITGLSSPTTLANLYRALLEGLALALR 132
Query: 116 DILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
ILEA+ + G + ++ GG + N L+Q AD G PV
Sbjct: 133 QILEALAEL-GAPIDRIIASGGGSRNPLLLQLLADALGRPV 172
>gnl|CDD|212658 cd00366, FGGY, FGGY family of carbohydrate kinases. This family is
predominantly composed of glycerol kinase (GK) and
similar carbohydrate kinases including rhamnulokinase
(RhuK), xylulokinase (XK), gluconokinase (GntK),
ribulokinase (RBK), and fuculokinase (FK). These enzymes
catalyze the transfer of a phosphate group, usually from
ATP, to their carbohydrate substrates. The monomer of
FGGY proteins contains two large domains, which are
separated by a deep cleft that forms the active site.
One domain is primarily involved in sugar substrate
binding, and the other is mainly responsible for ATP
binding. This model includes both the N-terminal domain,
which adopts a ribonuclease H-like fold, and the
structurally related C-terminal domain.
Substrate-induced conformational changes and a divalent
cation may be required for the catalytic activity.
Length = 435
Score = 118 bits (297), Expect = 2e-31
Identities = 50/138 (36%), Positives = 74/138 (53%), Gaps = 3/138 (2%)
Query: 21 DEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAE--SHRHTGDVYFVPAFSGLY 78
P Y E S GA + W RD G+ + E+ A+ + + +P FSG
Sbjct: 282 AIPGKYVTEASFFTGGALLRWFRDEFGLREDGSDYEAAAQEAPNSGPNGLLILPHFSGSG 341
Query: 79 APYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGM 138
PYW P ARG I G+T TTR I RA LE I ++ RD L+A++ GI++ +++V GG
Sbjct: 342 TPYWDPAARGAIFGLTLGTTRADIYRALLEGIAYELRDNLDALEA-AGIKIDRIRVTGGG 400
Query: 139 TANKHLMQTQADLCGIPV 156
+ + +Q AD+ G+PV
Sbjct: 401 SRSDLWLQILADIFGLPV 418
Score = 45.0 bits (107), Expect = 9e-06
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 166 GGKYITDVSNASRTMLMNIETLEWDPMLCGVWEIN 200
G+++ D SNASRTML +I+T +WDP L I
Sbjct: 163 TGEFVIDYSNASRTMLFDIQTRDWDPELLEAAGIP 197
>gnl|CDD|198366 cd07794, FGGY_GK_like_proteobact, Proteobacterial glycerol
kinase-like proteins; belongs to the FGGY family of
carbohydrate kinases. This subgroup corresponds to a
small group of proteobacterial glycerol kinase (GK)-like
proteins, including the glycerol kinase from Pseudomonas
aeruginosa. Most bacteria, such as Escherichia coli,
take up glycerol passively by facilitated diffusion. In
contrast, P. aeruginosa may also utilize a binding
protein-dependent active transport system to mediate
glycerol transportation. The glycerol kinase
subsequently phosphorylates the intracellular glycerol
to glycerol 3-phosphate (G3P). 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 = 470
Score = 99 bits (249), Expect = 1e-24
Identities = 51/144 (35%), Positives = 81/144 (56%), Gaps = 3/144 (2%)
Query: 10 GLLTTVAFKLGDEPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTGDVY 69
GLL TVA+++G EP VYAL+G V A AA+ W + +G+ + EE+ + +
Sbjct: 266 GLLPTVAWQIG-EPPVYALDGGVYDAAAAVEWAK-RLGLFSDFEELAAFPAPPAIARGLA 323
Query: 70 FVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQL 129
FVPA SGL P+W A G+ G++ TTR + +A LE + ++ +++ AM +
Sbjct: 324 FVPALSGLACPHWDRSAAGLWLGMSLATTRQDMCQALLEGVAMRSAEVIYAMDGVRPVG- 382
Query: 130 IKLQVDGGMTANKHLMQTQADLCG 153
+L +DGG+T N + Q AD+
Sbjct: 383 DRLSIDGGLTRNPYFCQFLADVLQ 406
Score = 49.5 bits (118), Expect = 3e-07
Identities = 19/28 (67%), Positives = 24/28 (85%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLC 194
G ++TDV+ ASRT LMN+ETL+WDP LC
Sbjct: 164 GTFVTDVTTASRTSLMNLETLQWDPELC 191
>gnl|CDD|198372 cd07804, FGGY_XK_like_1, uncharacterized xylulose kinase-like
proteins; a subgroup of the FGGY family of carbohydrate
kinases. This subgroup is composed of uncharacterized
bacterial and archaeal xylulose kinases-like proteins
with similarity to bacterial D-xylulose kinases (XK,
also known as xylulokinase; EC 2.7.1.17), which catalyze
the rate-limiting step in the ATP-dependent
phosphorylation of D-xylulose to produce D-xylulose
5-phosphate (X5P) and ADP. The presence of Mg2+ or Mn2+
is required for catalytic activity. D-XK exists as a
dimer with an active site that lies at the interface
between the N- and C-terminal domains. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. Members of this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 492
Score = 99.6 bits (249), Expect = 1e-24
Identities = 50/141 (35%), Positives = 75/141 (53%), Gaps = 8/141 (5%)
Query: 23 PVVYALEGSVAVAGAAMNWLRDNVG---MVTG---VEEIESLAE-SHRHTGDVYFVPAFS 75
P Y L G ++ GAA+ W RDN G G +E+E AE + F+P +
Sbjct: 285 PGTYLLNGGMSTGGAALRWFRDNFGPEETEGGLDAYDELEEEAEKVPPGADGLLFLPYLA 344
Query: 76 GLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVD 135
G P W PDARG+ G+T TR H+ RA LE + + R ILE ++ G+++ ++
Sbjct: 345 GERTPIWDPDARGVFFGLTLGHTRAHLYRAVLEGVAYALRHILEIAEEA-GVKVSRVVAV 403
Query: 136 GGMTANKHLMQTQADLCGIPV 156
GG ++ MQ +AD+ G+PV
Sbjct: 404 GGGAKSRLWMQIKADVLGLPV 424
Score = 31.0 bits (71), Expect = 0.41
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
G+ D S+AS + L +I EW L + I
Sbjct: 166 GELAVDHSSASGSGLYDIRKGEWSEELLDLLGIPE 200
>gnl|CDD|223996 COG1070, XylB, Sugar (pentulose and hexulose) kinases [Carbohydrate
transport and metabolism].
Length = 502
Score = 95.1 bits (237), Expect = 5e-23
Identities = 41/134 (30%), Positives = 64/134 (47%), Gaps = 3/134 (2%)
Query: 26 YALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAE---SHRHTGDVYFVPAFSGLYAPYW 82
+ + G+ G + WLR+ G+ E+ A + + F+P SG P+
Sbjct: 296 FIVMGANNTGGWLLEWLRELFGLAESYPELLEEALAVPAPAGAIGLLFLPYLSGERGPHA 355
Query: 83 QPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANK 142
P ARG G+T TR H+ RA LE + F D LEA+++ G +++V GG +
Sbjct: 356 DPAARGGFVGLTLPHTRAHLARAVLEGVAFALADGLEALEELGGKPPSRVRVVGGGARSP 415
Query: 143 HLMQTQADLCGIPV 156
+Q AD G+PV
Sbjct: 416 LWLQILADALGLPV 429
Score = 38.1 bits (89), Expect = 0.002
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLC 194
G++ T++S+AS T L++I T +WD L
Sbjct: 171 GEFATEISDASGTGLLDIRTRKWDWELL 198
>gnl|CDD|198374 cd07808, FGGY_D-XK_EcXK-like, Escherichia coli xylulokinase-like
D-xylulose kinases; a subgroup of the FGGY family of
carbohydrate kinases. This subgroup is predominantly
composed of bacterial D-xylulose kinases (XK, also known
as xylulokinase; EC 2.7.1.17), which catalyze the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. D-xylulose has been used as a source of carbon
and energy by a variety of microorganisms. Some
uncharacterized sequences are also included in this
subgroup. The prototypical member of this CD is
Escherichia coli xylulokinase (EcXK), which exists as a
dimer. Each monomer consists of two large domains
separated by an open cleft that forms an active site.
This model includes both the N-terminal domain, which
adopts a ribonuclease H-like fold, and the structurally
related C-terminal domain. The presence of Mg2+ or Mn2+
is required for catalytic activity. Members of this
subgroup belong to the FGGY family of carbohydrate
kinases.
Length = 482
Score = 88.3 bits (220), Expect = 1e-20
Identities = 43/123 (34%), Positives = 66/123 (53%), Gaps = 2/123 (1%)
Query: 35 AGAAMNWLRDNVGMVTGVEEIESLAESHRH-TGDVYFVPAFSGLYAPYWQPDARGIICGI 93
AG ++ W RD G EE+ + AE + + F+P SG P+ P+ARG G+
Sbjct: 298 AGGSLKWFRDTFGPDDSYEELLAEAEQVPPGSEGLLFLPYLSGERTPHNDPNARGAFIGL 357
Query: 94 TEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCG 153
T TR H+ RA LE + F RD LE + ++ G+ + ++ GG + +Q QAD+ G
Sbjct: 358 TLSHTRAHLTRAVLEGVAFSLRDSLEIL-RELGVPIDRIIAIGGGARSPLWLQIQADVLG 416
Query: 154 IPV 156
+PV
Sbjct: 417 LPV 419
Score = 32.1 bits (74), Expect = 0.18
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLC 194
G+ TDVS+AS T+L+++ +W L
Sbjct: 165 GEIATDVSDASGTLLLDVAKRDWSDELL 192
>gnl|CDD|233354 TIGR01312, XylB, D-xylulose kinase. This model describes
D-xylulose kinases, a subfamily of the FGGY family of
carbohydrate kinases. The member from Klebsiella
pneumoniae, designated DalK (see PMID:9324246), was
annotated erroneously in GenBank as D-arabinitol kinase
but is authentic D-xylulose kinase. D-xylulose kinase
(XylB) generally is found with xylose isomerase (XylA)
and acts in xylose utilization [Energy metabolism,
Sugars].
Length = 481
Score = 85.1 bits (211), Expect = 2e-19
Identities = 38/122 (31%), Positives = 60/122 (49%)
Query: 35 AGAAMNWLRDNVGMVTGVEEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGIT 94
A +++ W R+ G E +S V F+P +G P+ P ARG G+T
Sbjct: 297 ATSSLEWFRELFGKEDVEALNELAEQSPPGAEGVTFLPYLNGERTPHLDPQARGSFIGLT 356
Query: 95 EDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGI 154
+TTR + RA LE + F RD L+ +++ GI + +++ GG + Q AD+ G
Sbjct: 357 HNTTRADLTRAVLEGVTFALRDSLDILREAGGIPIQSIRLIGGGAKSPAWRQMLADIFGT 416
Query: 155 PV 156
PV
Sbjct: 417 PV 418
Score = 30.0 bits (68), Expect = 0.88
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCG 195
G+Y+T+ S+AS T ++ W L
Sbjct: 164 GEYVTEYSDASGTGWFDVAKRAWSKELLD 192
>gnl|CDD|198360 cd07783, FGGY_CarbK-RPE_like, Carbohydrate kinase and
ribulose-phosphate 3-epimerase fusion proteins-like;
belongs to the FGGY family of carbohydrate kinases.
This subgroup is composed of uncharacterized proteins
with similarity to carbohydrate kinases. Some members
are carbohydrate kinase and ribulose-phosphate
3-epimerase fusion proteins. Carbohydrate kinases
catalyze the ATP-dependent phosphorylation of their
carbohydrate substrate to produce phosphorylated sugar
and ADP. The presence of Mg2+ is required for catalytic
activity. This subgroup shows high homology to
characterized ribulokinases and belongs 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 = 484
Score = 79.7 bits (197), Expect = 1e-17
Identities = 42/144 (29%), Positives = 64/144 (44%), Gaps = 16/144 (11%)
Query: 22 EPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTGDVYFVPAFSGLYA-- 79
P + +EG G+ + W +D +G E E+ P GL
Sbjct: 290 YPGTWLVEGGQTSTGSVLKWFKDLIGGGDDNGYDELNEEAAA------VPPGSEGLVVLD 343
Query: 80 -------PYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKL 132
PY P ARG I G+T TR H+ RA LE + + TR I +AM+ G ++ ++
Sbjct: 344 YFQGNRTPYTDPLARGAIWGLTLGHTRAHVYRAILEGVAYGTRHIFDAMEAA-GYEVSEI 402
Query: 133 QVDGGMTANKHLMQTQADLCGIPV 156
GG T ++ +Q AD+ G+P
Sbjct: 403 VAAGGATRSRLWLQIHADVIGVPF 426
>gnl|CDD|198371 cd07803, FGGY_D-XK, D-xylulose kinases; a subgroup of the FGGY
family of carbohydrate kinases. This subfamily is
predominantly composed of bacterial D-xylulose kinases
(XK, also known as xylulokinase; EC 2.7.1.17), which
catalyze the rate-limiting step in the ATP-dependent
phosphorylation of D-xylulose to produce D-xylulose
5-phosphate (X5P) and ADP. Some uncharacterized
sequences are also included in this subfamily. The
prototypical member of this subfamily is Escherichia
coli xylulokinase (EcXK), which exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. XKs do not have any known allosteric
regulators, and they may have weak but significant
activity in the absence of substrate. The presence of
Mg2+ or Mn2+ is required for catalytic activity. Members
of this subfamily belong to the FGGY family of
carbohydrate kinases.
Length = 482
Score = 78.9 bits (195), Expect = 3e-17
Identities = 44/124 (35%), Positives = 65/124 (52%), Gaps = 3/124 (2%)
Query: 35 AGAAMNWLRDNVG--MVTGVEEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICG 92
AG+A+ W RD +G V+ E E A+ + F+P +G PY P+ARG G
Sbjct: 298 AGSALRWARDLLGPADVSYAEMAELAAQVPVGANGLLFLPYLNGERTPYNDPNARGAFFG 357
Query: 93 ITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLC 152
+T TRGH+ RA LE + F RD LE + G ++++ GG ++ Q AD+
Sbjct: 358 LTLSHTRGHLARAVLEGVAFSLRDCLEVL-HGMGTAPQRIKLIGGGAKSELWRQILADVL 416
Query: 153 GIPV 156
G+PV
Sbjct: 417 GVPV 420
Score = 29.3 bits (66), Expect = 1.6
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLC 194
G+ TD S+AS T+L + + EW LC
Sbjct: 165 GELATDRSDASGTLLFDAASREWSDDLC 192
>gnl|CDD|212659 cd07770, FGGY_GntK, Gluconate kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
composed of a group of gluconate kinases (GntK, also
known as gluconokinase; EC 2.7.1.12) encoded by the gntK
gene, which catalyzes the ATP-dependent phosphorylation
of D-gluconate and produce 6-phospho-D-gluconate and
ADP. The presence of Mg2+ might be required for
catalytic activity. The prototypical member of this
subfamily is GntK from Lactobacillus acidophilus. Unlike
Escherichia coli GntK, which belongs to the superfamily
of P-loop containing nucleoside triphosphate hydrolases,
members in this subfamily are homologous to glycerol
kinase, xylulose kinase, and rhamnulokinase from
Escherichia coli. They have been classified as members
of the FGGY family of carbohydrate kinases, which
contain two large domains separated by a deep cleft that
forms the active site. This model spans both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Some uncharacterized homologous sequences are also
included in this subfamily. The Lactobacillus gnt operon
contains a single gntK gene. The gnt operons of some
bacteria, such as Corynebacterium glutamicum, have two
gntK genes. For example, the C. glutamicum gnt operon
has both a gluconate kinase gntV gene (also known as
gntK) and a second hypothetical gntK gene (also known as
gntK2). Both gluconate kinases encoded by these genes
belong to this family, however the protein encoded by C.
glutamicum gntV is not included in this model as it is
truncated in the C-terminal domain.
Length = 440
Score = 76.9 bits (190), Expect = 1e-16
Identities = 39/152 (25%), Positives = 61/152 (40%), Gaps = 16/152 (10%)
Query: 21 DEPVV--------YALEGSVAVAGAAMN-------WLRDNVGMVTGVEEIE-SLAESHRH 64
D+PV Y L+ V G A+N WLRD + + E E +
Sbjct: 267 DQPVTDPPGRLFCYRLDKGRWVLGGAVNNGGIVLRWLRDTLALPEEEEAEELGIDPYDGL 326
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKD 124
T + F+PA +G P W R + G+T I AA+E + + R ILE + +
Sbjct: 327 TRGLEFLPAGAGERFPPWLSGERAPLWGLTRAARGSFIGLAAMEGVAHRLRAILEGIIFN 386
Query: 125 CGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
+ L ++ GG T ++ AD +
Sbjct: 387 LSVGLALVEASGGATESRAWGGFLADALWRQI 418
Score = 40.3 bits (95), Expect = 3e-04
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCGVWEI 199
G+ + D S AS T L+NI TL+WD + I
Sbjct: 164 GELVVDYSIASGTGLLNIHTLDWDEEALEIAGI 196
>gnl|CDD|198373 cd07805, FGGY_XK_like_2, uncharacterized xylulose kinase-like
proteins; a subgroup of the FGGY family of carbohydrate
kinases. This subgroup is composed of uncharacterized
proteins with similarity to bacterial D-Xylulose kinases
(XK, also known as xylulokinase; EC 2.7.1.17), which
catalyze the rate-limiting step in the ATP-dependent
phosphorylation of D-xylulose to produce D-xylulose
5-phosphate (X5P) and ADP. The presence of Mg2+ or Mn2+
is required for catalytic activity. D-XK exists as a
dimer with an active site that lies at the interface
between the N- and C-terminal domains. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. Members of this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 514
Score = 76.9 bits (190), Expect = 1e-16
Identities = 40/142 (28%), Positives = 64/142 (45%), Gaps = 11/142 (7%)
Query: 26 YALEGSVAVAGAAMNWLRDNVGM-------VTGVEEIESLAESHRHT----GDVYFVPAF 74
Y + AG A+ WL+D + G E L E + F+P
Sbjct: 301 YLVVAEQETAGGALEWLKDLLLQDEDGLADEEGRSVYERLDELAASAPPGSNGLIFLPWL 360
Query: 75 SGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQV 134
G +P P+ARG ++ +TTR ++RA LE + R +LEA+++ G +L +L+
Sbjct: 361 HGERSPVEDPNARGGFFNLSLETTRADLLRAVLEGVALNLRWLLEAVERFLGRRLGELRF 420
Query: 135 DGGMTANKHLMQTQADLCGIPV 156
GG + Q AD+ G P+
Sbjct: 421 VGGGARSDLWCQIIADVLGRPI 442
>gnl|CDD|198352 cd07774, FGGY_1, uncharacterized subgroup; belongs to the FGGY
family of carbohydrate kinases. This subfamily is
composed of uncharacterized carbohydrate kinases. They
are sequence homologous to bacterial glycerol kinase and
have been classified as members of the FGGY family of
carbohydrate kinases. The monomers of FGGY proteins
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 = 430
Score = 76.7 bits (189), Expect = 2e-16
Identities = 39/135 (28%), Positives = 64/135 (47%), Gaps = 5/135 (3%)
Query: 22 EPVVYALEGSVAVAGAAMNWLRDNVGMVTGVEEIESLAESHRHTGDVYFVPAFSGLYAPY 81
EP Y L + G A+ WLR ++ G + E + + F P G +P
Sbjct: 284 EPDRYYLIAGLPSGGFAIEWLR---NILGGEASSKRAQEKLLDSAAL-FYPYSRGSGSPI 339
Query: 82 WQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTAN 141
A G G+T+ T++ I R+ LE + F+ R LE ++K G + ++ V GG + N
Sbjct: 340 RSEIAGGAFYGLTDTTSQEDITRSVLEGLTFEARSTLECLEK-LGFEGSRIVVIGGGSRN 398
Query: 142 KHLMQTQADLCGIPV 156
K +Q +A + G P+
Sbjct: 399 KLWLQLKASVLGKPI 413
Score = 32.4 bits (74), Expect = 0.16
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 166 GGKYITDVSNASRTMLMNIETLEWDP 191
G+ +TD + ASRT+L +I EW
Sbjct: 161 TGRPVTDFTLASRTLLFDIRAREWSE 186
>gnl|CDD|212663 cd07782, FGGY_YpCarbK_like, Yersinia Pseudotuberculosis
carbohydrate kinase-like subgroup; belongs to the FGGY
family of carbohydrate kinases. This subgroup is
composed of the uncharacterized Yersinia
Pseudotuberculosis carbohydrate kinase that has been
named glyerol/xylulose kinase and similar
uncharacterized proteins from bacteria and eukaryota.
Carbohydrate kinases catalyze the ATP-dependent
phosphorylation of their carbohydrate substrate to
produce phosphorylated sugar and ADP. The presence of
Mg2+ is required for catalytic activity. This subgroup
shows high homology to characterized ribulokinases and
belongs 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 = 536
Score = 73.4 bits (181), Expect = 2e-15
Identities = 41/130 (31%), Positives = 62/130 (47%), Gaps = 16/130 (12%)
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVR---AALEAICFQTRDILEAM 121
T D++ +P F G +P P+ RG+I G+T DT+ + R A L+AI + TR I+EAM
Sbjct: 374 TRDLHVLPDFHGNRSPLADPNLRGVISGLTLDTSLDDLARLYLATLQAIAYGTRHIIEAM 433
Query: 122 KKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV-----------GKNLTGGKDGGKYI 170
G ++ L GG++ N +Q AD G+PV G + G G +
Sbjct: 434 NAA-GHKIDTLFACGGLSKNPLFVQLHADATGLPVVLPKEEEAVLLGAAMLGAVAAGDF- 491
Query: 171 TDVSNASRTM 180
+ A M
Sbjct: 492 PSLKEAMAAM 501
>gnl|CDD|212662 cd07779, FGGY_ygcE_like, uncharacterized ygcE-like proteins. This
subfamily consists of uncharacterized hypothetical
bacterial proteins with similarity to Escherichia coli
sugar kinase ygcE , whose functional roles are not yet
clear. Escherichia coli ygcE is recognized by this
model, but is not present in the alignment as it
contains a deletion relative to other members of the
group. These proteins 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 = 488
Score = 70.4 bits (173), Expect = 2e-14
Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 80 PYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMT 139
P+W P+ARG I G + TR H+ RA +E I + R+ LE ++K G+++ KL+V GG +
Sbjct: 357 PHWDPEARGAIIGFGDVHTRAHLYRAIIEGIAYALREGLERIEKRTGVKIKKLRVSGGGS 416
Query: 140 ANKHLMQTQADLCGIPV 156
+ + Q AD+ G+PV
Sbjct: 417 QSDLICQITADIFGLPV 433
>gnl|CDD|223995 COG1069, AraB, Ribulose kinase [Energy production and conversion].
Length = 544
Score = 67.0 bits (164), Expect = 4e-13
Identities = 37/112 (33%), Positives = 55/112 (49%), Gaps = 8/112 (7%)
Query: 52 VEEIESLAESHRH----TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTR---GHIVR 104
+ +E L E+ ++ + F+G +P P +G+I G+T DT+ + R
Sbjct: 349 AQRLELLTEAAAAIPPLASGLHVLDWFNGNRSPLADPRLKGVITGLTLDTSPESLALLYR 408
Query: 105 AALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
A LEA F TR I+E + GI + L GG+ N LMQ AD+ G PV
Sbjct: 409 ALLEATAFGTRAIIETFEDQ-GIAIDTLFASGGIRKNPLLMQLYADVTGRPV 459
>gnl|CDD|212666 cd07802, FGGY_L-XK, L-xylulose kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
composed of bacterial L-xylulose kinases (L-XK, also
known as L-xylulokinase; EC 2.7.1.53), which catalyze
the ATP-dependent phosphorylation of L-xylulose to
produce L-xylulose 5-phosphate and ADP. The presence of
Mg2+ might be required for catalytic activity. Some
uncharacterized sequences are also included in this
subfamily. L-XKs 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 = 447
Score = 63.7 bits (156), Expect = 4e-12
Identities = 30/101 (29%), Positives = 43/101 (42%), Gaps = 5/101 (4%)
Query: 56 ESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTR 115
+A + F P L P+AR G++ TR +VRA E + F R
Sbjct: 330 RLVAAAPPEYHPYLFEP---FLRGSNVDPNARAGFFGLSAWHTRADLVRAVYEGVAFAHR 386
Query: 116 DILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
D LEA++ I+L GG + Q AD+ G+PV
Sbjct: 387 DHLEALRATGLPGEIRLT--GGAARSPVWAQMFADVLGLPV 425
>gnl|CDD|233356 TIGR01315, 5C_CHO_kinase, FGGY-family pentulose kinase. This model
represents a subfamily of the FGGY family of
carbohydrate kinases. This subfamily is closely related
to a set of ribulose kinases, and many members are
designated ribitol kinase. However, the member from
Klebsiella pneumoniae, from a ribitol catabolism operon,
accepts D-ribulose and to a lesser extent D-arabinitol
and ribitol (PMID:9639934 and JW Lengeler, personal
communication); its annotation in GenBank as ribitol
kinase is imprecise and may have affected public
annotation of related proteins.
Length = 541
Score = 60.3 bits (146), Expect = 7e-11
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 4/95 (4%)
Query: 65 TGDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVR---AALEAICFQTRDILEAM 121
+ P G +P P+ RG+I G++ D ++ + A +E I + TR I+EAM
Sbjct: 378 VRHFHVYPDLWGNRSPIADPNMRGVIIGLSMDRSKDGLALLYYATMEFIAYGTRQIVEAM 437
Query: 122 KKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
G + + + GG N LMQ AD C +PV
Sbjct: 438 NTA-GHTIKSIFMSGGQCQNPLLMQLIADACDMPV 471
>gnl|CDD|198346 cd07768, FGGY_RBK_like, Ribulokinase-like carbohydrate kinases; a
subfamily of the FGGY family of carbohydrate kinases.
This subfamily is composed of ribulokinases (RBKs) and
similar proteins from bacteria and eukaryota. RBKs
catalyze the MgATP-dependent phosphorylation of a
variety of sugar substrates including L- and/or
D-ribulose. Members of this subfamily contain two large
domains 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. Members of this
subfamily belong to the FGGY family of carbohydrate
kinases.
Length = 465
Score = 59.1 bits (143), Expect = 2e-10
Identities = 42/137 (30%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 28 LEGSVAVAGAAMNWLRD--------NVGMVTGVEEIESLAESHRHTGDVYFVPAFSGLYA 79
LEG + G W D + GV + AE + + F+G +
Sbjct: 295 LEGGQSATGGIFLWFVDVGRLAATFDEAQEKGVALDAAAAERGPQLRGLLALDRFNGNRS 354
Query: 80 PYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMT 139
P+ P+ RG + G+T T R I RA LEA+ F TR I+EA ++ L GG
Sbjct: 355 PFVDPELRGFLLGLTLPTDRADIYRALLEAVAFGTRLIVEAFHGLGYPEVGPLYAAGGGA 414
Query: 140 ANKHLMQTQADLCGIPV 156
+ MQ AD+ G PV
Sbjct: 415 RSHLWMQIHADVTGRPV 431
>gnl|CDD|130381 TIGR01314, gntK_FGGY, gluconate kinase, FGGY type. Gluconate is
derived from glucose in two steps. This model describes
one form of gluconate kinase, belonging to the FGGY
family of carbohydrate kinases. Gluconate kinase
phosphoryates gluconate for entry into the
Entner-Douderoff pathway [Energy metabolism, Sugars].
Length = 505
Score = 55.3 bits (133), Expect = 3e-09
Identities = 33/142 (23%), Positives = 60/142 (42%), Gaps = 11/142 (7%)
Query: 26 YALEGSVAVAGAAMNWLRDNV----------GMVTGVEEIESLAESHRHTGD-VYFVPAF 74
+ + G V G + W RD + + + + +A D + F P
Sbjct: 288 WVIGGPVNNGGDVLRWARDEIFDSEIETATRLGIDPYDVLTEIAARVSPGADGLLFHPYL 347
Query: 75 SGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQV 134
+G AP W +ARG G+T + H++RAALE + + + A+ + G L +Q
Sbjct: 348 AGERAPLWNANARGSFFGLTYSHKKEHMIRAALEGVIYNLYTVALALVEVMGDPLNMIQA 407
Query: 135 DGGMTANKHLMQTQADLCGIPV 156
GG +++ Q +D+ +
Sbjct: 408 TGGFASSEVWRQMMSDIFEQEI 429
Score = 33.7 bits (77), Expect = 0.058
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 167 GKYITDVSNASRTMLMNIETLEWD 190
G Y D S AS T + N+ L+WD
Sbjct: 165 GTYKIDYSTASATGMFNLFELDWD 188
>gnl|CDD|182383 PRK10331, PRK10331, L-fuculokinase; Provisional.
Length = 470
Score = 52.3 bits (126), Expect = 3e-08
Identities = 23/71 (32%), Positives = 38/71 (53%)
Query: 86 ARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLM 145
G+T +TTRGH RAALE + Q + L+ ++K + +L + GG + N
Sbjct: 347 QNAGWQGVTLNTTRGHFYRAALEGLTAQLKRNLQVLEKIGHFKASELLLVGGGSRNALWN 406
Query: 146 QTQADLCGIPV 156
Q +A++ IP+
Sbjct: 407 QIKANMLDIPI 417
>gnl|CDD|184987 PRK15027, PRK15027, xylulokinase; Provisional.
Length = 484
Score = 51.5 bits (123), Expect = 6e-08
Identities = 33/132 (25%), Positives = 60/132 (45%), Gaps = 2/132 (1%)
Query: 35 AGAAMNWLRDNVGMVTGVEEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGIT 94
A + ++W G+ I + ++ V+F+P SG P+ P A+G+ G+T
Sbjct: 294 AASCLDWAAKLTGLSNVPALIAAAQQADESAEPVWFLPYLSGERTPHNNPQAKGVFFGLT 353
Query: 95 EDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGI 154
+ RA LE + + D ++ + CGI+ + + GG +++ Q AD+ G
Sbjct: 354 HQHGPNELARAVLEGVGYALADGMDVV-HACGIKPQSVTLIGGGARSEYWRQMLADISGQ 412
Query: 155 PVGKNLTGGKDG 166
+ TGG G
Sbjct: 413 QLDYR-TGGDVG 423
>gnl|CDD|198351 cd07773, FGGY_FK, L-fuculose kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
composed of bacterial L-fuculose kinases (FK, also known
as fuculokinase, EC 2.7.1.51), which catalyze the
ATP-dependent phosphorylation of L-fuculose to produce
L-fuculose-1-phosphate and ADP. The presence of Mg2+ or
Mn2+ is required for enzymatic activity. FKs 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 = 448
Score = 49.8 bits (119), Expect = 2e-07
Identities = 31/91 (34%), Positives = 44/91 (48%), Gaps = 6/91 (6%)
Query: 66 GDVYFVPAFSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDC 125
V F P F L D G I G++ TTRGHI RAALE + Q + L+ +++
Sbjct: 337 DGVNFEPDFLQL------GDGNGSIEGLSLHTTRGHIYRAALEGLTNQLKRNLDYLEQVG 390
Query: 126 GIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
+ L + GG + N Q +AD IP+
Sbjct: 391 QFKAKPLILVGGGSKNTLWNQIRADALQIPL 421
>gnl|CDD|198358 cd07781, FGGY_RBK, Ribulokinases; belongs to the FGGY family of
carbohydrate kinases. This subgroup is predominantly
composed of bacterial ribulokinases (RBK) which catalyze
the MgATP-dependent phosphorylation of L(or D)-ribulose
to produce L(or D)-ribulose 5-phosphate and ADP. RBK
also phosphorylates a variety of other sugar substrates
including ribitol and arabitol. The reason why L-RBK can
phosphorylate so many different substrates is not yet
clear. The presence of Mg2+ is required for catalytic
activity. This group belongs 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 = 498
Score = 49.2 bits (118), Expect = 4e-07
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 84 PDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTA-NK 142
G+I G+T T I RA +EA F R I+E ++ G+ + ++ GG+ N
Sbjct: 392 QRLTGLILGLTLQTKAEEIYRALIEATAFGARAIIERF-EEQGVPVERVIAAGGIAQKNP 450
Query: 143 HLMQTQADLCGIPV 156
LMQ AD+ P+
Sbjct: 451 LLMQIYADVLNRPI 464
>gnl|CDD|198375 cd07809, FGGY_D-XK_1, D-xylulose kinases, subgroup 1; members of
the FGGY family of carbohydrate kinases. This subgroup
is composed of D-xylulose kinases (XK, also known as
xylulokinase; EC 2.7.1.17) from bacteria and eukaryota.
They share high sequence similarity with Escherichia
coli xylulokinase (EcXK), which catalyzes the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. Some uncharacterized sequences are also
included in this subfamily. EcXK exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. The presence of Mg2+ or Mn2+ might be
required for catalytic activity. Members of this
subgroup belong to the FGGY family of carbohydrate
kinases.
Length = 487
Score = 49.2 bits (118), Expect = 4e-07
Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 3/102 (2%)
Query: 56 ESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGIT-EDTTRGHIVRAALEAICFQT 114
A++ + +P F+G P P+ARG + G+T +TTR ++ RAA+E F
Sbjct: 323 ALAAQAPPGAEGLTLLPFFNGERTPN-LPNARGSLHGLTSANTTRANLARAAVEGATFGL 381
Query: 115 RDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
R L+ + + G++ ++++ GG + Q AD+ V
Sbjct: 382 RYGLDLL-RALGLKSTEIRLIGGGAKSPAWRQIIADIMNAEV 422
Score = 28.0 bits (63), Expect = 3.6
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCG 195
G+Y+T+ +AS T ++ T EW +
Sbjct: 168 GRYVTEYGDASGTGYFDVRTREWSEEVLD 196
>gnl|CDD|235221 PRK04123, PRK04123, ribulokinase; Provisional.
Length = 548
Score = 47.5 bits (114), Expect = 1e-06
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 2/84 (2%)
Query: 74 FSGLYAPYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQ 133
F+G P +G+I G+T T I RA +EA F TR I+E +D G+ + ++
Sbjct: 385 FNGRRTPLADQRLKGVITGLTLGTDAPDIYRALIEATAFGTRAIMECF-EDQGVPVEEVI 443
Query: 134 VDGGM-TANKHLMQTQADLCGIPV 156
GG+ N LMQ AD+ P+
Sbjct: 444 AAGGIARKNPVLMQIYADVLNRPI 467
>gnl|CDD|215880 pfam00370, FGGY_N, FGGY family of carbohydrate kinases, N-terminal
domain. This domain adopts a ribonuclease H-like fold
and is structurally related to the C-terminal domain.
Length = 245
Score = 46.5 bits (111), Expect = 2e-06
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
G++ TD S+AS TM+ NI+TLEWD L + I
Sbjct: 166 GQFTTDYSDASGTMMFNIKTLEWDEELLAILGIPP 200
>gnl|CDD|130301 TIGR01234, L-ribulokinase, L-ribulokinase. This enzyme catalyzes
the second step in arabinose catabolism. The most
closely related protein subfamily outside the scope of
this model includes ribitol kinase from E. coli [Energy
metabolism, Sugars].
Length = 536
Score = 46.1 bits (109), Expect = 5e-06
Identities = 33/109 (30%), Positives = 53/109 (48%), Gaps = 4/109 (3%)
Query: 51 GVEEIESLAESHRHTGDVYFVPA--FSGLYAPYWQPDARGIICGITEDTTRGHIVRAALE 108
+ E S A + + +G+ V F+G +P +G+I G+T T + RA +E
Sbjct: 357 QLHEALSEAAAKQPSGEHGLVALDWFNGNRSPLVDQRLKGVITGLTLATDAPLLYRALIE 416
Query: 109 AICFQTRDILEAMKKDCGIQLIKLQVDGGMT-ANKHLMQTQADLCGIPV 156
A F TR I+E D G+ + +L GG+ N +MQ AD+ P+
Sbjct: 417 ATAFGTRMIMETF-TDSGVPVEELMAAGGIARKNPVIMQIYADVTNRPL 464
>gnl|CDD|198353 cd07775, FGGY_AI-2K, Autoinducer-2 kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
composed of bacterial autoinducer-2 (AI-2) kinases and
similar proteins. AI-2 is a small chemical
quorum-sensing signal involved in interspecies
communication in bacteria. Cytoplasmic autoinducer-2
kinase, encoded by the lsrK gene from Salmonella
enterica serovar Typhimurium lsr (luxS regulated)
operon, is the prototypical member of this subfamily.
AI-2 kinase catalyzes the phosphorylation of
intracellular AI-2 to phospho-AI-2, which leads to the
inactivation of lsrR, the repressor of the lsr operon.
Members of this family are homologs of glycerol
kinase-like proteins and 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 = 452
Score = 43.2 bits (102), Expect = 4e-05
Identities = 33/138 (23%), Positives = 46/138 (33%), Gaps = 22/138 (15%)
Query: 36 GAAMNWLRD-------NVGMVTGVEEIESLAE--SHRHTGDVYFVPAFS--------GLY 78
G M W RD G++ E L E S G +P FS
Sbjct: 302 GLVMRWFRDAFCAEEKLEAERLGIDTYELLEEMASRVPVGSYGIIPIFSDVMNYGTWYHA 361
Query: 79 APYWQPDARGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGM 138
AP + + E R + RA E + L+ + G + L GG
Sbjct: 362 APSFLNLSL-----DPEKCGRATLFRALEENAAIVSAWNLDIITDFTGFEPDYLVFAGGA 416
Query: 139 TANKHLMQTQADLCGIPV 156
+ +K Q AD+ G PV
Sbjct: 417 SKSKLWSQILADVTGKPV 434
>gnl|CDD|131676 TIGR02628, fuculo_kin_coli, L-fuculokinase. Members of this family
are L-fuculokinase, from the clade that includes the
L-fuculokinase of Escherichia coli. This enzyme
catalyzes the second step in fucose catabolism. This
family belongs to FGGY family of carbohydrate kinases
(pfam02782, pfam00370). It is encoded by the kinase (K)
gene of the fucose (fuc) operon [Energy metabolism,
Sugars].
Length = 465
Score = 42.2 bits (99), Expect = 7e-05
Identities = 26/70 (37%), Positives = 42/70 (60%)
Query: 87 RGIICGITEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQ 146
+G I G+T +TTRGHI RAALE + Q + L+ +++ + +L + GG + N Q
Sbjct: 352 QGGIQGLTLNTTRGHIYRAALEGLTAQLKRNLQMLEQIGQFKASELLLVGGGSKNTLWNQ 411
Query: 147 TQADLCGIPV 156
+A++ IPV
Sbjct: 412 IRANMLDIPV 421
>gnl|CDD|198349 cd07771, FGGY_RhuK, L-rhamnulose kinases; a subfamily of the FGGY
family of carbohydrate kinases. This subfamily is
predominantly composed of bacterial L-rhamnulose kinases
(RhuK, also known as rhamnulokinase; EC 2.7.1.5), which
are encoded by the rhaB gene and catalyze the
ATP-dependent phosphorylation of L-rhamnulose to produce
L-rhamnulose-1-phosphate and ADP. Some uncharacterized
homologous sequences are also included in this
subfamily. The prototypical member of this subfamily is
Escherichia coli RhuK, which exists as a monomer
composed of two large domains. The ATP binding site is
located in the cleft between the two domains. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. The presence of divalent Mg2+ or Mn2+
is required for catalysis. Although an intramolecular
disulfide bridge is present in Rhuk, disulfide formation
is not important to the regulation of RhuK enzymatic
activity. Members of this subfamily belong to the FGGY
family of carbohydrate kinases.
Length = 440
Score = 41.0 bits (97), Expect = 2e-04
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 98 TRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
T G I R E++ + R LE +++ G ++ + + GG + N+ L Q AD GIPV
Sbjct: 366 TPGEIARCIYESLALKYRRTLEELEELTGKKIEVIHIVGGGSRNELLNQLTADATGIPV 424
Score = 32.1 bits (74), Expect = 0.16
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCGVWEINMQ 202
G + + +NAS T L++ T +WD L I +
Sbjct: 164 GVKVNEYTNASTTQLLDPRTRDWDTELLEKLGIPEE 199
>gnl|CDD|212661 cd07777, FGGY_SHK_like, sedoheptulokinase-like proteins; a
subfamily of the FGGY family of carbohydrate kinases.
This subfamily is predominantly composed of
uncharacterized bacterial and eukaryotic proteins with
similarity to human sedoheptulokinase (SHK, also known
as D-altro-heptulose or heptulokinase, EC 2.7.1.14)
encoded by the carbohydrate kinase-like (CARKL/SHPK)
gene. SHK catalyzes the ATP-dependent phosphorylation of
sedoheptulose to produce sedoheptulose 7-phosphate and
ADP. The presence of Mg2+ or Mn2+ might be required for
catalytic activity. Members of this subfamily 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 = 448
Score = 36.9 bits (86), Expect = 0.004
Identities = 24/106 (22%), Positives = 40/106 (37%), Gaps = 7/106 (6%)
Query: 53 EEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGIT-EDTTRGHIVRAALEAIC 111
+ + +LA + + P G PD R + IT + T GHI RA + I
Sbjct: 332 DRLIALALAESDP-PLKIDPTLFG---ERHDPDLRASVSNITLSNLTLGHITRALCQGIV 387
Query: 112 FQTRDIL-EAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
++ + K GI+ I + N L + G+P+
Sbjct: 388 ENLHEMFPRELLKSAGIERIVG-SGSALRRNPVLRDEVEKVFGLPL 432
>gnl|CDD|198377 cd07811, FGGY_D-XK_3, D-xylulose kinases, subgroup 3; members of
the FGGY family of carbohydrate kinases. This subgroup
is composed of proteobacterial D-xylulose kinases (XK,
also known as xylulokinase; EC 2.7.1.17). They share
high sequence similarity with Escherichia coli
xylulokinase (EcXK), which catalyzes the rate-limiting
step in the ATP-dependent phosphorylation of D-xylulose
to produce D-xylulose 5-phosphate (X5P) and ADP. Some
uncharacterized sequences are also included in this
subfamily. EcXK exists as a dimer. Each monomer consists
of two large domains separated by an open cleft that
forms an active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
The presence of Mg2+ or Mn2+ might be required for
catalytic activity. Members of this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 493
Score = 33.7 bits (77), Expect = 0.056
Identities = 26/123 (21%), Positives = 53/123 (43%), Gaps = 4/123 (3%)
Query: 36 GAAMNWLRDNV--GMVTGVEEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARGIICGI 93
G A+ W R + ++ + + A + + + F+P +G ++R G+
Sbjct: 298 GDAVRWARRALHDNQLSYAQLVAEAAAAPAGSEGLLFLPYLTGERLGE-HRNSRAQFFGL 356
Query: 94 TEDTTRGHIVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCG 153
RGH+ RA LE + F L ++K C + ++ GG ++ +A + G
Sbjct: 357 GAKHGRGHLHRAVLEGVAFAVWRHLRQLQK-CQGRPERMIASGGGARTALWLKIKASVYG 415
Query: 154 IPV 156
+P+
Sbjct: 416 LPI 418
Score = 27.9 bits (62), Expect = 4.3
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLC 194
G TD + AS + LM+ T W C
Sbjct: 167 GAMATDRTEASCSFLMDPATRSWSSQAC 194
>gnl|CDD|233955 TIGR02627, rhamnulo_kin, rhamnulokinase. This model describes
rhamnulokinase, an enzyme that catalyzes the second step
in rhamnose catabolism.
Length = 454
Score = 33.6 bits (77), Expect = 0.063
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 11/78 (14%)
Query: 119 EAMKKDCGIQLIKL----QVDGGMTANKHLMQTQADLCGIP--VGKNLTGGKDGGKYITD 172
EA+ + GIQ + Q+ L++ A IP + LTG K + +
Sbjct: 115 EAIYQRTGIQFLPFNTLYQLRALTEQQPDLLEKVAHFLLIPDYLNYRLTG-----KKVWE 169
Query: 173 VSNASRTMLMNIETLEWD 190
+NA+ T L+NI T +WD
Sbjct: 170 YTNATTTQLVNINTDDWD 187
Score = 31.6 bits (72), Expect = 0.23
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 115 RDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
R +L + + G + +L + GG + N L Q AD CGI V
Sbjct: 374 RQVLLELAELRGKPISQLHIVGGGSQNAFLNQLCADACGIRV 415
>gnl|CDD|198369 cd07798, FGGY_AI-2K_like, Autoinducer-2 kinase-like proteins;
belongs to the FGGY family of carbohydrate kinases.
This subgroup consists of uncharacterized hypothetical
bacterial proteins with similarity to bacterial
autoinducer-2 (AI-2) kinases, which catalyzes the
phosphorylation of intracellular AI-2 to phospho-AI-2,
leading to the inactivation of lsrR, the repressor of
the lsr operon. Members of this subgroup 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 = 437
Score = 29.9 bits (67), Expect = 0.87
Identities = 25/104 (24%), Positives = 38/104 (36%), Gaps = 8/104 (7%)
Query: 53 EEIESLAESHRHTGDVYFVPAFSGLYAPYWQPDARG---IICGITEDTTRGHIVRAALEA 109
EEI L ++ D A + +G ++ R H V AAL
Sbjct: 316 EEIAKLQKT-----DHACTAALGSYLSSEKNALKKGGFVFDAPLSTTLKRAHFVWAALAE 370
Query: 110 ICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCG 153
I F + ++ + G + + V GG +K L Q ADL
Sbjct: 371 IAFSIKWNYRSLTEVTGFEKDYVLVCGGGFQSKALTQHLADLLQ 414
Score = 29.1 bits (65), Expect = 1.8
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 167 GKYITDVSNASRTMLMNIETLEWDPMLCGVWEINM 201
G + + S A T+L ++E+ EW LCG++ I+M
Sbjct: 162 GILVYEPSQACETLLFDVESKEWSERLCGIFGISM 196
>gnl|CDD|198376 cd07810, FGGY_D-XK_2, D-xylulose kinases, subgroup 2; members of
the FGGY family of carbohydrate kinases. This subgroup
is predominantly composed of bacterial D-xylulose
kinases (XK, also known as xylulokinase; EC 2.7.1.17).
They share high sequence similarity with Escherichia
coli xylulokinase (EcXK), which catalyzes the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. EcXK exists as a dimer. Each monomer consists
of two large domains separated by an open cleft that
forms an active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
The presence of Mg2+ or Mn2+ might be required for
catalytic activity. Members of this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 490
Score = 29.7 bits (67), Expect = 1.2
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 98 TRGHIVRAALEAICFQTRDILEAMKKD 124
+ H+VRAA E I F LE M+
Sbjct: 372 GKAHLVRAAQEGIVFAFAYGLEIMRNM 398
>gnl|CDD|182609 PRK10640, rhaB, rhamnulokinase; Provisional.
Length = 471
Score = 29.3 bits (66), Expect = 1.3
Identities = 16/55 (29%), Positives = 25/55 (45%)
Query: 102 IVRAALEAICFQTRDILEAMKKDCGIQLIKLQVDGGMTANKHLMQTQADLCGIPV 156
+ R +++ D+L + + G +L + GG N L Q AD CGI V
Sbjct: 349 LARCIFDSLALLYADVLHELAQLRGEPFSQLHIVGGGCQNALLNQLCADACGIRV 403
Score = 28.1 bits (63), Expect = 3.0
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 174 SNASRTMLMNIETLEWDPML 193
+NA+ T L+NI + +WD L
Sbjct: 159 TNATTTQLVNINSDDWDESL 178
>gnl|CDD|240877 cd12431, RRM_ALKBH8, RNA recognition motif in alkylated DNA
repair protein alkB homolog 8 (ALKBH8) and similar
proteins. This subfamily corresponds to the RRM of
ALKBH8, also termed alpha-ketoglutarate-dependent
dioxygenase ABH8, or S-adenosyl-L-methionine-dependent
tRNA methyltransferase ABH8, expressed in various types
of human cancers. It is essential in urothelial
carcinoma cell survival mediated by NOX-1-dependent ROS
signals. ALKBH8 has also been identified as a tRNA
methyltransferase that catalyzes methylation of tRNA to
yield 5-methylcarboxymethyl uridine (mcm5U) at the
wobble position of the anticodon loop. Thus, ALKBH8
plays a crucial role in the DNA damage survival pathway
through a distinct mechanism involving the regulation
of tRNA modification. ALKBH8 localizes to the
cytoplasm. It contains the characteristic AlkB domain
that is composed of a tRNA methyltransferase motif, a
motif homologous to the bacterial AlkB DNA/RNA repair
enzyme, and a dioxygenase catalytic core domain
encompassing cofactor-binding sites for iron and
2-oxoglutarate. In addition, unlike other AlkB
homologs, ALKBH8 contains an N-terminal RNA recognition
motif (RRM), also termed RBD (RNA binding domain) or
RNP (ribonucleoprotein domain), and a C-terminal
S-adenosylmethionine (SAM)-dependent methyltransferase
(MT) domain. .
Length = 80
Score = 27.6 bits (62), Expect = 1.3
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 45 NVGMVTGV--EEIESLAESHRHTGDVYFVP 72
N G+ GV EE+ + E + D+ P
Sbjct: 8 NGGLGNGVSREELLRVFEKYGTVEDLVMPP 37
>gnl|CDD|151248 pfam10798, YmgB, Biofilm development protein YmgB/AriR. YmgB is
part of the three gene cluster ymgABC which has a role
in biofilm development and stability. YmgB represses
biofilm formation in rich medium containing glucose,
decreases cellular motility and also protects the cell
from acid which indicates that YmgB has an important
function in acid-resistance. YmgB binds as a dimer to
genes which are important for biofilm formation via a
ligand. Due to its important function in acid resistance
it is also known as AriR (regulator of acid resistance
influenced by indole).
Length = 60
Score = 26.2 bits (58), Expect = 3.4
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 94 TEDTTRGHIVRAALEAICFQTRD 116
D R + R LE + +T D
Sbjct: 37 ESDVVRADVYRKTLEIVVRKTPD 59
>gnl|CDD|180987 PRK07468, PRK07468, enoyl-CoA hydratase; Provisional.
Length = 262
Score = 27.7 bits (62), Expect = 3.9
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 12 LTTVAFKLGDEP----VVYALEGSVAVAGAAMNWLRDNVGM--VTGVEEIESLAE 60
LTT A +L + VV G AG + W+R + T +EE LA
Sbjct: 37 LTTAARRLAADAAVRVVVLTGAGKSFCAGGDLGWMRAQMTADRATRIEEARRLAM 91
>gnl|CDD|211350 cd07249, MMCE, Methylmalonyl-CoA epimerase (MMCE). MMCE, also
called methylmalonyl-CoA racemase (EC 5.1.99.1)
interconverts (2R)-methylmalonyl-CoA and
(2S)-methylmalonyl-CoA. MMCE has been found in bacteria,
archaea, and in animals. In eukaryotes, MMCE is an
essential enzyme in a pathway that converts
propionyl-CoA to succinyl-CoA, and is important in the
breakdown of odd-chain length fatty acids,
branched-chain amino acids, and other metabolites. In
bacteria, MMCE participates in the reverse pathway for
propionate fermentation, glyoxylate regeneration, and
the biosynthesis of polyketide antibiotics. MMCE is
closely related to glyoxalase I and type I extradiol
dioxygenases.
Length = 128
Score = 26.7 bits (60), Expect = 4.5
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 110 ICFQTRDILEAMK--KDCGIQLI 130
I F+ DI A+ K G++L+
Sbjct: 76 IAFEVDDIDAALARLKAQGVRLL 98
>gnl|CDD|129540 TIGR00448, rpoE, DNA-directed RNA polymerase (rpoE), archaeal and
eukaryotic form. This family seems to be confined to
the archea and eukaryotic taxa and are quite dissimilar
to E.coli rpoE [Transcription, DNA-dependent RNA
polymerase].
Length = 179
Score = 27.1 bits (60), Expect = 6.0
Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 3/54 (5%)
Query: 45 NVGMVTGVEEIESLAESHRHTGD--VYFVPAFSGL-YAPYWQPDARGIICGITE 95
NVG+ + +IE + E GD Y F L + P G + I E
Sbjct: 41 NVGLCITIYDIEDIGEGKVIPGDGSAYHNVTFRALVFKPELGEIVEGEVIEIVE 94
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.137 0.422
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,270,192
Number of extensions: 948187
Number of successful extensions: 990
Number of sequences better than 10.0: 1
Number of HSP's gapped: 946
Number of HSP's successfully gapped: 91
Length of query: 204
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 112
Effective length of database: 6,857,034
Effective search space: 767987808
Effective search space used: 767987808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)