RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10135
(351 letters)
>gnl|CDD|240170 cd05147, RIO1_euk, RIO kinase family; eukaryotic RIO1, catalytic
domain. The RIO kinase catalytic domain family is part
of a larger superfamily, that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase (PI3K). RIO kinases are
atypical protein serine kinases containing a kinase
catalytic signature, but otherwise show very little
sequence similarity to typical PKs. Serine kinases
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine residues in protein substrates. The RIO
catalytic domain is truncated compared to the catalytic
domains of typical PKs, with deletions of the loops
responsible for substrate binding. RIO1 is present in
archaea, bacteria and eukaryotes. This subfamily is
composed of RIO1 proteins from eukaryotes. RIO1 is
essential for survival and is required for 18S rRNA
processing, proper cell cycle progression and chromosome
maintenance. The biological substrates for RIO1 are
unknown.
Length = 190
Score = 355 bits (912), Expect = e-124
Identities = 131/195 (67%), Positives = 153/195 (78%), Gaps = 9/195 (4%)
Query: 39 VNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRH 98
+NGCISTGKEANVYHA+ +E AIKI+KTSILVFKDRD+YV+GEFRFRH
Sbjct: 1 INGCISTGKEANVYHATTAN---------GEERAIKIYKTSILVFKDRDRYVSGEFRFRH 51
Query: 99 GYCKKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKD 158
GYCK NPRKMVRTWAEKEMRNL R+ + G+ P+PILLKSHVL+M FIG+DGW A +LKD
Sbjct: 52 GYCKSNPRKMVRTWAEKEMRNLKRLVTAGIPCPEPILLKSHVLVMEFIGDDGWAAPRLKD 111
Query: 159 TPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPH 218
PL+ES A +LY + + +M LY C LVHADLSEYN+L H L+IIDV+QSVEHDHPH
Sbjct: 112 APLSESKARELYLQVIQIMRILYQDCRLVHADLSEYNLLYHDGKLYIIDVSQSVEHDHPH 171
Query: 219 ALQFLRKDCDNVTVF 233
AL+FLR DC NV F
Sbjct: 172 ALEFLRMDCVNVNDF 186
>gnl|CDD|240168 cd05145, RIO1_like, RIO kinase family; RIO1, RIO3 and similar
proteins, catalytic domain. The RIO kinase catalytic
domain family is part of a larger superfamily, that
includes the catalytic domains of other kinases such as
the typical serine/threonine/tyrosine protein kinases
(PKs), aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase (PI3K). RIO
kinases are atypical protein serine kinases containing a
kinase catalytic signature, but otherwise show very
little sequence similarity to typical PKs. Serine
kinases catalyze the transfer of the gamma-phosphoryl
group from ATP to serine residues in protein substrates.
The RIO catalytic domain is truncated compared to the
catalytic domains of typical PKs, with deletions of the
loops responsible for substrate binding. RIO1 is present
in archaea, bacteria and eukaryotes. In addition, RIO3
is present in multicellular eukaryotes. RIO1 is
essential for survival and is required for 18S rRNA
processing, proper cell cycle progression and chromosome
maintenance. The biological substrates for RIO1 are
unknown. The function of RIO3 is also unknown.
Length = 190
Score = 319 bits (820), Expect = e-110
Identities = 113/195 (57%), Positives = 138/195 (70%), Gaps = 9/195 (4%)
Query: 39 VNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRH 98
+NGCISTGKEANVYHA G +E A+KI+KTS L FKDRDKY+ G+ RFR
Sbjct: 1 INGCISTGKEANVYHARTG---------DGEELAVKIYKTSTLSFKDRDKYIEGDPRFRS 51
Query: 99 GYCKKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKD 158
Y K NPRK+V WAEKE RNL R+Y G+ VP+PILLK +VL+M FIG+DG PA +LKD
Sbjct: 52 RYSKSNPRKLVFAWAEKEFRNLKRLYEAGVPVPEPILLKKNVLVMEFIGDDGSPAPRLKD 111
Query: 159 TPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPH 218
PL E A +LY + V M RLY + LVH DLSEYN+L H +IIDV+Q+VE DHP+
Sbjct: 112 VPLEEEEAEELYEQVVEQMRRLYQEAGLVHGDLSEYNILYHDGKPYIIDVSQAVELDHPN 171
Query: 219 ALQFLRKDCDNVTVF 233
AL+FLR+D N+ F
Sbjct: 172 ALEFLRRDIRNINRF 186
>gnl|CDD|214511 smart00090, RIO, RIO-like kinase.
Length = 237
Score = 293 bits (751), Expect = 3e-99
Identities = 121/226 (53%), Positives = 156/226 (69%), Gaps = 9/226 (3%)
Query: 8 DKHDRATAEQVMDPRTRMILFKLISRGMVSEVNGCISTGKEANVYHASPGANYKIENLEL 67
DK DRAT E+V+D RTR+ L+ L++RG++S + GCISTGKEANVYHA +
Sbjct: 1 DKEDRATYEEVLDGRTRLALYSLLNRGILSAIGGCISTGKEANVYHAL-------DFDGS 53
Query: 68 EKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRNLTRMYSEG 127
KE A+KI++T L FK RD+YV+G+FRF+ Y K NPRK+VR WAEKE RNL R+Y G
Sbjct: 54 GKERAVKIYRTGTLEFKRRDRYVDGDFRFK--YRKINPRKLVRLWAEKEFRNLQRLYEAG 111
Query: 128 LNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVVMMWRLYNKCHLV 187
+ VPKPI + +VL+M FIG DG PA +LKD E +LY + + M +LY + LV
Sbjct: 112 VPVPKPIAWRRNVLVMEFIGGDGLPAPRLKDVEPEEEEEFELYDDILEEMRKLYKEGELV 171
Query: 188 HADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFLRKDCDNVTVF 233
H DLSEYN+LVH + IIDV+QSVE DHP AL+FL +D N+ F
Sbjct: 172 HGDLSEYNILVHDGKVVIIDVSQSVELDHPMALEFLERDIRNIIRF 217
>gnl|CDD|224632 COG1718, RIO1, Serine/threonine protein kinase involved in cell
cycle control [Signal transduction mechanisms / Cell
division and chromosome partitioning].
Length = 268
Score = 273 bits (700), Expect = 4e-91
Identities = 116/268 (43%), Positives = 159/268 (59%), Gaps = 14/268 (5%)
Query: 1 MDRIKT-KDKHDRATAEQVMDPRTRMILFKLISRGMVSEVNGCISTGKEANVYHASPGAN 59
R K KDK DR ++V D RT L +L+SRG+++E+ GCISTGKEANVY A G
Sbjct: 13 DKREKREKDKEDRKVVDEVFDKRTLETLRRLLSRGVITELVGCISTGKEANVYLAETGD- 71
Query: 60 YKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRN 119
+ A+KI++TS FK +Y+ G+ RFR+ + N RK+V WA KE RN
Sbjct: 72 --------GRYVAVKIYRTSTSEFKRIRRYIQGDPRFRNS--RSNRRKLVFAWARKEFRN 121
Query: 120 LTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVVMMWR 179
L R Y G+ VP+PI +++VL+M FIG+DG PA +LKD PL A LY + V M R
Sbjct: 122 LKRAYEAGVRVPEPIAFRNNVLVMEFIGDDGLPAPRLKDVPLELEEAEGLYEDVVEYMRR 181
Query: 180 LYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFLRKDCDNVTVFVILNPV 239
LY + LVH DLSEYN+LVH +IIDV+Q+V DHP+A +FL +D N+ F V
Sbjct: 182 LYKEAGLVHGDLSEYNILVHDGEPYIIDVSQAVTIDHPNAFEFLERDVRNIARFFRRKGV 241
Query: 240 SDDDEKIFKKWDSDYVTSSDEDEENVVD 267
D E++ ++ + +EE +
Sbjct: 242 EADPEELLEEIKGR--ILGEAEEERLRL 267
>gnl|CDD|240158 cd05119, RIO, RIO kinase family, catalytic domain. The RIO kinase
catalytic domain family is part of a larger superfamily,
that includes the catalytic domains of other kinases
such as the typical serine/threonine/tyrosine protein
kinases (PKs), aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase (PI3K).
RIO kinases are atypical protein serine kinases present
in archaea, bacteria and eukaryotes. Serine kinases
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine residues in protein substrates. RIO
kinases contain a kinase catalytic signature, but
otherwise show very little sequence similarity to
typical PKs. The RIO catalytic domain is truncated
compared to the catalytic domains of typical PKs, with
deletions of the loops responsible for substrate
binding. Most organisms contain at least two RIO
kinases, RIO1 and RIO2. A third protein, RIO3, is
present in multicellular eukaryotes. In yeast, RIO1 and
RIO2 are essential for survival. They function as
non-ribosomal factors necessary for late 18S rRNA
processing. RIO1 is also required for proper cell cycle
progression and chromosome maintenance. The biological
substrates for RIO kinases are still unknown.
Length = 187
Score = 268 bits (689), Expect = 1e-90
Identities = 91/195 (46%), Positives = 118/195 (60%), Gaps = 12/195 (6%)
Query: 39 VNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRH 98
V G I TGKEA+VY A + A+KI++T FK R +Y +R
Sbjct: 1 VGGPIGTGKEADVYLAL---------DGDGEPVAVKIYRTGRTSFKKRKRYR--TGDYRF 49
Query: 99 GYCKKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKD 158
G K N R + R WAEKE RNL R+Y G+ VPKPI L HVL+M FIG DG PA +LKD
Sbjct: 50 GRKKSNWRYLSRLWAEKEFRNLKRLYEAGVPVPKPIDLNRHVLVMEFIGGDGIPAPRLKD 109
Query: 159 TPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPH 218
L E +LY + + +M +LY + LVH DLSEYN+LV ++IIDV Q+VE DHP+
Sbjct: 110 VRLLED-PEELYDQILELMRKLYREAGLVHGDLSEYNILVDDGKVYIIDVPQAVEIDHPN 168
Query: 219 ALQFLRKDCDNVTVF 233
A +FLR+D +N+ F
Sbjct: 169 AEEFLRRDVENINRF 183
>gnl|CDD|201633 pfam01163, RIO1, RIO1 family. This is a family of atypical serine
kinases which are found in archaea, bacteria and
eukaryotes. Activity of Rio1 is vital in Saccharomyces
cerevisiae for the processing of ribosomal RNA, as well
as for proper cell cycle progression and chromosome
maintenance. The structure of RIO1 has been determined.
Length = 186
Score = 247 bits (634), Expect = 3e-82
Identities = 91/184 (49%), Positives = 117/184 (63%), Gaps = 12/184 (6%)
Query: 50 NVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMV 109
NVYHA E K+ A+KI++T FK R +Y +G+FRFR K + R +V
Sbjct: 1 NVYHA---------YSEDGKKVAVKIYRTGTTSFKKRKRYRDGDFRFRD--SKTSWRYLV 49
Query: 110 RTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKL 169
R WAEKE RNL R+Y G+ VPKPI + HVL+M FIG+DG PA +LKD L E A ++
Sbjct: 50 RLWAEKEFRNLKRLYEAGVPVPKPIAVNRHVLVMEFIGDDGVPAPRLKDVELEEE-AEEI 108
Query: 170 YRECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFLRKDCDN 229
Y E + M RLY + LVH DLSEYN+LV IIDV Q+VE DHP+AL+FL +D +N
Sbjct: 109 YDEIIREMRRLYQEAGLVHGDLSEYNVLVDDDKPVIIDVPQAVETDHPNALEFLERDVEN 168
Query: 230 VTVF 233
+ F
Sbjct: 169 IINF 172
>gnl|CDD|240169 cd05146, RIO3_euk, RIO kinase family; eukaryotic RIO3, catalytic
domain. The RIO kinase catalytic domain family is part
of a larger superfamily, that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase (PI3K). RIO kinases are
atypical protein serine kinases containing a kinase
catalytic signature, but otherwise show very little
sequence similarity to typical PKs. Serine kinases
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine residues in protein substrates. The RIO
catalytic domain is truncated compared to the catalytic
domains of typical PKs, with deletions of the loops
responsible for substrate binding. RIO3 is present only
in multicellular eukaryotes. Its function is still
unknown.
Length = 197
Score = 241 bits (616), Expect = 2e-79
Identities = 101/195 (51%), Positives = 135/195 (69%), Gaps = 2/195 (1%)
Query: 39 VNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRH 98
+NGCISTGKE+ V HA+ G+N + E AIK+FKT++ FK+RDKY+ ++RF+
Sbjct: 1 INGCISTGKESVVLHANGGSNE--TEQVIPTECAIKVFKTTLNEFKNRDKYIKDDYRFKD 58
Query: 99 GYCKKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKD 158
+ K NPRK++R WAEKEM NL RM G+ P+ ++LK HVL+M+FIG+D PA KLKD
Sbjct: 59 RFSKLNPRKIIRMWAEKEMHNLKRMQKAGIPCPEVVVLKKHVLVMSFIGDDQVPAPKLKD 118
Query: 159 TPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPH 218
L + Y + + MM +LY +C+LVHADLSEYNML H ++ IDV+QSVE HPH
Sbjct: 119 AKLNDEEMKNAYYQVLSMMKQLYKECNLVHADLSEYNMLWHDGKVWFIDVSQSVEPTHPH 178
Query: 219 ALQFLRKDCDNVTVF 233
L+FL +DC NV F
Sbjct: 179 GLEFLFRDCRNVIQF 193
>gnl|CDD|240167 cd05144, RIO2_C, RIO kinase family; RIO2, C-terminal catalytic
domain. The RIO kinase catalytic domain family is part
of a larger superfamily, that includes the catalytic
domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase (PI3K). RIO kinases are
atypical protein serine kinases containing a kinase
catalytic signature, but otherwise show very little
sequence similarity to typical PKs. Serine kinases
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine residues in protein substrates. The RIO
catalytic domain is truncated compared to the catalytic
domains of typical PKs, with deletions of the loops
responsible for substrate binding. RIO2 is present in
archaea and eukaryotes. It contains an N-terminal winged
helix (wHTH) domain and a C-terminal RIO kinase
catalytic domain. The wHTH domain is primarily seen in
DNA-binding proteins, although some wHTH domains may be
involved in RNA recognition. RIO2 is essential for
survival and is necessary for rRNA cleavage during 40S
ribosomal subunit maturation. The biological substrates
of RIO2 are still unknown.
Length = 198
Score = 98.8 bits (247), Expect = 1e-24
Identities = 60/215 (27%), Positives = 95/215 (44%), Gaps = 41/215 (19%)
Query: 30 LISRGMVSEVNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFK---TSILVFKDR 86
L+ RG+V + I GKE++VY A + A+K + TS F+ +
Sbjct: 10 LVKRGVVESLGNQIGVGKESDVYLALDPDGNPV---------ALKFHRLGRTS---FR-K 56
Query: 87 DKYVNGEFRFRHGYCKKNPRKMVRTW-------AEKEMRNLTRMYSEGLNVPKPILLKSH 139
K R +W A+KE L +Y EG VPKPI H
Sbjct: 57 VKRKRDYLGDRKHA----------SWLYLSRLAAQKEFAALKALYEEGFPVPKPIDWNRH 106
Query: 140 VLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLV- 198
++M +I DG +++ ++ E + + + Y K ++H DLSE+N+LV
Sbjct: 107 AVVMEYI--DGVELYRVRVL----EDPEEVLDEILEEIVKAY-KHGIIHGDLSEFNILVD 159
Query: 199 HKATLFIIDVAQSVEHDHPHALQFLRKDCDNVTVF 233
++IID Q V DHP+A + L +D +N+ F
Sbjct: 160 DDEKIYIIDWPQMVSTDHPNAEELLDRDVENILRF 194
>gnl|CDD|223554 COG0478, COG0478, RIO-like serine/threonine protein kinase fused to
N-terminal HTH domain [Signal transduction mechanisms].
Length = 304
Score = 97.0 bits (242), Expect = 4e-23
Identities = 57/233 (24%), Positives = 98/233 (42%), Gaps = 33/233 (14%)
Query: 30 LISRGMVSEVNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKY 89
L+ RG+V + I GKE++VY A K+ A+K + F+
Sbjct: 86 LVKRGIVEAIGTKIGVGKESDVYVAIDPKGRKV---------AVKFHRLGRTSFR----- 131
Query: 90 VNGEFRFRHGYCKKNPRK----MVRTWAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTF 145
+ + Y + R AE+E L R+Y EG+ VPKPI H ++M +
Sbjct: 132 ---KVKRNRDYLADKEHGSWLYVSRLAAEREFEALQRLYPEGVKVPKPIAWNRHAVVMEY 188
Query: 146 IGEDGWPAAKLKDTPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHK-ATLF 204
I +G +L+ E V +R +VH DLSE+N+LV + +
Sbjct: 189 I--EGVELYRLRLDVENPDEILDKILEEVRKAYR----RGIVHGDLSEFNILVTEDGDIV 242
Query: 205 IIDVAQSVEHDHPHALQFLRKDCDNVTVF-----VILNPVSDDDEKIFKKWDS 252
+ID Q+V HP A + L +D +N+ + ++ +++ + +
Sbjct: 243 VIDWPQAVPISHPDAEELLERDVENIIKYFRRKYGYKVEKEEELDRVREASEF 295
>gnl|CDD|237847 PRK14879, PRK14879, serine/threonine protein kinase; Provisional.
Length = 211
Score = 44.5 bits (106), Expect = 2e-05
Identities = 29/104 (27%), Positives = 49/104 (47%), Gaps = 17/104 (16%)
Query: 110 RTWAEKEMRNLTRMYSEGLNVPKPIL--LKSHVLLMTFI-GEDGWPAAKLKDTPLTESGA 166
RT +E R ++R G+NVP ++ +++M +I GE LKD L S
Sbjct: 45 RT--RREARIMSRARKAGVNVPAVYFVDPENFIIVMEYIEGE------PLKD--LINSNG 94
Query: 167 CKLYRECVVMMWRLYNKCH---LVHADLSEYNMLVHKATLFIID 207
+ + RL K H ++H DL+ NM++ +++ID
Sbjct: 95 MEELELSR-EIGRLVGKLHSAGIIHGDLTTSNMILSGGKIYLID 137
>gnl|CDD|234331 TIGR03724, arch_bud32, Kae1-associated kinase Bud32. Members of
this protein family are the Bud32 protein associated
with Kae1 (kinase-associated endopeptidase 1) in the
Archaea. In many Archaeal genomes, Kae1 and Bud32 are
fused. The complex is homologous to the Kae1 and Bud32
subunits of the eukaryotic KEOPS complex, an apparently
ancient protein kinase-containing molecular machine
[Unknown function, General].
Length = 199
Score = 43.7 bits (104), Expect = 4e-05
Identities = 30/98 (30%), Positives = 45/98 (45%), Gaps = 16/98 (16%)
Query: 115 KEMRNLTRMYSEGLNVPKPIL--LKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRE 172
E R L+R G+N P + ++M +I LKD + E G +L RE
Sbjct: 46 NEARLLSRARKAGVNTPVVYDVDPDNKTIVMEYI-----EGKPLKD--VIEEGNDELLRE 98
Query: 173 CVVMMWRLYNKCH---LVHADLSEYNMLVHKATLFIID 207
+ RL K H +VH DL+ N++V L++ID
Sbjct: 99 ----IGRLVGKLHKAGIVHGDLTTSNIIVRDDKLYLID 132
>gnl|CDD|226168 COG3642, COG3642, Mn2+-dependent serine/threonine protein kinase
[Signal transduction mechanisms].
Length = 204
Score = 37.3 bits (87), Expect = 0.005
Identities = 25/96 (26%), Positives = 45/96 (46%), Gaps = 14/96 (14%)
Query: 116 EMRNLTRMYSEGLNVPKPILL----KSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYR 171
E R L + G+ VP I+ + +++M +I + LKD E L R
Sbjct: 49 EARILAKAREAGVPVP--IVYDVDPDNGLIVMEYIEGE-----LLKD--ALEEARPDLLR 99
Query: 172 ECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIID 207
E ++ +L+ K +VH DL+ N+++ ++ ID
Sbjct: 100 EVGRLVGKLH-KAGIVHGDLTTSNIILSGGRIYFID 134
>gnl|CDD|234975 PRK01723, PRK01723, 3-deoxy-D-manno-octulosonic-acid kinase;
Reviewed.
Length = 239
Score = 36.8 bits (86), Expect = 0.010
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 110 RTWAEKEMRNLTRMYSEGLNVPKPI 134
RT A E R L ++Y GL VP+PI
Sbjct: 84 RTRAFAEFRLLAQLYEAGLPVPRPI 108
>gnl|CDD|236586 PRK09605, PRK09605, bifunctional UGMP family
protein/serine/threonine protein kinase; Validated.
Length = 535
Score = 32.9 bits (76), Expect = 0.27
Identities = 36/167 (21%), Positives = 66/167 (39%), Gaps = 32/167 (19%)
Query: 115 KEMRNLTRMYSEGLNVPKPIL----LKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLY 170
E R L+ G VP P++ + ++M +IG LKD +
Sbjct: 385 AEARLLSEARRAG--VPTPVIYDVDPEEKTIVMEYIGG-----KDLKD-------VLEGN 430
Query: 171 RECVVMMWRLYNKCH---LVHADLSEYNMLVHKATLFIID--VAQSVEHDHPHALQFLRK 225
E V + + K H +VH DL+ N +V L++ID + + + A+
Sbjct: 431 PELVRKVGEIVAKLHKAGIVHGDLTTSNFIVRDDRLYLIDFGLGKYSDLIEDKAV----- 485
Query: 226 DCDNVTVFVILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDI 272
D + L D E++++ + Y E E+V++ ++I
Sbjct: 486 --DLHVLKQSLESTHYDFEELWEAFLEGY--RETEGAEDVLERLKEI 528
>gnl|CDD|218977 pfam06293, Kdo, Lipopolysaccharide kinase (Kdo/WaaP) family. These
lipopolysaccharide kinases are related to protein
kinases pfam00069. This family includes waaP (rfaP) gene
product is required for the addition of phosphate to O-4
of the first heptose residue of the lipopolysaccharide
(LPS) inner core region. It has previously been shown
that WaaP is necessary for resistance to hydrophobic and
polycationic antimicrobials in E. coli and that it is
required for virulence in invasive strains of S.
enterica.
Length = 206
Score = 30.8 bits (70), Expect = 0.72
Identities = 27/129 (20%), Positives = 51/129 (39%), Gaps = 20/129 (15%)
Query: 106 RKMVRTWAEKEMRNLTRMYSEGLNVPKPIL-------LKSHVLLMT-----FIGEDGWPA 153
+ RT + +E R L R+ G+ VPKP+ + L+T W
Sbjct: 51 FPLGRTRSFREFRLLRRLREAGVPVPKPVAAGAVKVGGEYQADLLTERLEGAQDLVTW-L 109
Query: 154 AKLKDTPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVH----KATLFIIDVA 209
A+ D A L+R ++ R+ ++ + H DL+ +N+L+ +++ID
Sbjct: 110 AQWADPAEELRRA--LWRAVGRLIARM-HRAGVNHTDLNAHNILLDTGEGGFKVWLIDFD 166
Query: 210 QSVEHDHPH 218
+
Sbjct: 167 KCRRRLRGD 175
>gnl|CDD|240159 cd05120, APH_ChoK_like, Aminoglycoside 3'-phosphotransferase (APH)
and Choline Kinase (ChoK) family. The APH/ChoK family is
part of a larger superfamily that includes the catalytic
domains of other kinases, such as the typical
serine/threonine/tyrosine protein kinases (PKs), RIO
kinases, actin-fragmin kinase (AFK), and
phosphoinositide 3-kinase (PI3K). The family is composed
of APH, ChoK, ethanolamine kinase (ETNK), macrolide
2'-phosphotransferase (MPH2'), an unusual homoserine
kinase, and uncharacterized proteins with similarity to
the N-terminal domain of acyl-CoA dehydrogenase 10
(ACAD10). The members of this family catalyze the
transfer of the gamma-phosphoryl group from ATP (or CTP)
to small molecule substrates such as aminoglycosides,
macrolides, choline, ethanolamine, and homoserine.
Phosphorylation of the antibiotics, aminoglycosides and
macrolides, leads to their inactivation and to bacterial
antibiotic resistance. Phosphorylation of choline,
ethanolamine, and homoserine serves as precursors to the
synthesis of important biological compounds, such as the
major phospholipids, phosphatidylcholine and
phosphatidylethanolamine and the amino acids, threonine,
methionine, and isoleucine.
Length = 155
Score = 29.7 bits (67), Expect = 1.3
Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 10/111 (9%)
Query: 102 KKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPILLK----SHVLLMTFIGEDGWPAAKLK 157
K NP + E+E+ L + +GL VPK + LLM +I +G ++
Sbjct: 27 KINPSREKGADREREVAILQLLARKGLPVPKVLASGESDGWSYLLMEWI--EGETLDEV- 83
Query: 158 DTPLTESGACKLYRECVVMMWRLYNKCHLVHADLSEYNMLVHKA-TLFIID 207
+ + + E + + +L L H DL N+LV L IID
Sbjct: 84 -SEEEKEDIAEQLAELLAKLHQLPLLV-LCHGDLHPGNILVDDGKILGIID 132
>gnl|CDD|173740 cd07842, STKc_CDK8_like, Catalytic domain of Cyclin-Dependent
protein Kinase 8-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 8 (CDK8)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK8-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large
family of STKs that are regulated by their cognate
cyclins. Together, they are involved in the control of
cell-cycle progression, transcription, and neuronal
function. This subfamily is composed of CDK8, CDC2L6,
and similar proteins. CDK8 functions as a negative or
positive regulator of transcription, depending on the
scenario. Together with its regulator, cyclin C, it
reversibly associates with the multi-subunit core
Mediator complex, a cofactor that is involved in
regulating RNA polymerase II (RNAP II)-dependent
transcription. CDC2L6 also associates with Mediator in
complexes lacking CDK8. In VP16-dependent
transcriptional activation, CDK8 and CDC2L6 exerts
opposing effects by positive and negative regulation,
respectively, in similar conditions.
Length = 316
Score = 29.2 bits (66), Expect = 3.1
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 38 EVNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTS 79
E+ GCI G VY A K +N + KE+AIK FK
Sbjct: 3 EIEGCIGRGTYGRVYKA------KRKNGKDGKEYAIKKFKGD 38
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 29.6 bits (66), Expect = 3.3
Identities = 29/130 (22%), Positives = 54/130 (41%), Gaps = 15/130 (11%)
Query: 235 ILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDIN-LIKSGQGSSN---------T 284
I N +++DD+ + D SD DE + E D+N + K S N
Sbjct: 3827 ITNTLNEDDDLEELANEEDTANQSDLDESEARELESDMNGVTKDSVVSENENSDSEEENQ 3886
Query: 285 LIYQNIVGLNADLSGPKLIPELLAQDKDDE---ETGESSEGDSDSGSEEERGSKFVNSAR 341
+ + + + DL + E L + ++E ET + S S + +E + SK ++
Sbjct: 3887 DLDEEVNDIPEDL--SNSLNEKLWDEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKA 3944
Query: 342 PRDETAESKK 351
D+ + K+
Sbjct: 3945 LEDKDRQEKE 3954
>gnl|CDD|198328 cd10295, GST_C_Sigma, C-terminal, alpha helical domain of Class
Sigma Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, Class
Sigma; GSTs are cytosolic dimeric proteins involved in
cellular detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Vertebrate class Sigma GSTs are
characterized as GSH-dependent hematopoietic
prostaglandin (PG) D synthases and are responsible for
the production of PGD2 by catalyzing the isomerization
of PGH2. The functions of PGD2 include the maintenance
of body temperature, inhibition of platelet aggregation,
bronchoconstriction, vasodilation, and mediation of
allergy and inflammation.
Length = 100
Score = 27.8 bits (62), Expect = 3.4
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 112 WAEKEMRNLTRMYSEGLNVPKPILLKSHVLLMTFIGEDGW 151
WAEK+ +M++E L P P LLK L T++G W
Sbjct: 23 WAEKKQDVKEKMFNEALTGPAPHLLKD---LDTYLGGREW 59
>gnl|CDD|185632 PTZ00453, PTZ00453, cyclin-dependent kinase; Provisional.
Length = 96
Score = 27.6 bits (61), Expect = 3.6
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 16/88 (18%)
Query: 63 ENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMV---RTWAEKEMRN 119
N + E I ++ IL DKY + E+ +RH K+ ++V R +E E R
Sbjct: 11 ANGQREALIMISKLQSKILY---SDKYYDDEYEYRHVILPKDFARLVPRSRLMSESEWRQ 67
Query: 120 LTRMYSEG-----LNVPKPILLKSHVLL 142
L S G ++ P+P HVLL
Sbjct: 68 LGVQQSVGWRHYMIHKPEP-----HVLL 90
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 28.1 bits (63), Expect = 7.8
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 305 ELLAQDKDDE------ETGESSEGDSDSGSEEE 331
ELL + K++E E G S+ D D E E
Sbjct: 73 ELLEKWKEEERKKKEAEQGLESDDDDDEEEEWE 105
>gnl|CDD|216835 pfam01994, Trm56, tRNA ribose 2'-O-methyltransferase, aTrm56. This
family is an aTrm56 that catalyzes the 2'-O-methylation
of the cytidine residue in archaeal tRNA, using
S-adenosyl-L-methionine. Biochemical assays showed that
aTrm56 forms a dimer and prefers the L-shaped tRNA to
the lambda form as its substrate. aTrm56 consists of the
SPOUT domain, which contains the characteristic deep
trefoil knot for AdoMet binding, and a unique C-terminal
beta-hairpin.
Length = 121
Score = 26.8 bits (60), Expect = 8.4
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 8/43 (18%)
Query: 92 GEFRFRHGYCKKNPRKMVRTWAEK--EMRNLTRMYSEGLNVPK 132
G+F G N R +R W EK + +LT MY G N+
Sbjct: 3 GDFEVEFG---VNWRSYIREWKEKGGIVVHLT-MY--GENIDD 39
>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small
GTPase. Rheb (Ras Homolog Enriched in Brain) subfamily.
Rheb was initially identified in rat brain, where its
expression is elevated by seizures or by long-term
potentiation. It is expressed ubiquitously, with
elevated levels in muscle and brain. Rheb functions as
an important mediator between the tuberous sclerosis
complex proteins, TSC1 and TSC2, and the mammalian
target of rapamycin (TOR) kinase to stimulate cell
growth. TOR kinase regulates cell growth by controlling
nutrient availability, growth factors, and the energy
status of the cell. TSC1 and TSC2 form a dimeric complex
that has tumor suppressor activity, and TSC2 is a GTPase
activating protein (GAP) for Rheb. The TSC1/TSC2 complex
inhibits the activation of TOR kinase through Rheb. Rheb
has also been shown to induce the formation of large
cytoplasmic vacuoles in a process that is dependent on
the GTPase cycle of Rheb, but independent of the TOR
kinase, suggesting Rheb plays a role in endocytic
trafficking that leads to cell growth and cell-cycle
progression. Most Ras proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Ras proteins.
Length = 180
Score = 27.2 bits (61), Expect = 9.3
Identities = 11/43 (25%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 241 DDDEKIFKKWDSDYVTSSDEDEENVVD-FERDINLIKSGQGSS 282
++ +K+ + W + ++ SS ++ ENV + FE I I+ +
Sbjct: 127 EEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEKVENPL 169
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
0.316 0.133 0.389
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,586,613
Number of extensions: 1688010
Number of successful extensions: 1649
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1617
Number of HSP's successfully gapped: 47
Length of query: 351
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 253
Effective length of database: 6,590,910
Effective search space: 1667500230
Effective search space used: 1667500230
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.5 bits)