RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15442
(599 letters)
>gnl|CDD|119423 cd05163, TRRAP, TRansformation/tRanscription domain-Associated
Protein (TRRAP), pseudokinase domain; The TRRAP
catalytic domain 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 RIO kinases. TRRAP shows some similarity to
members of the phosphoinositide 3-kinase-related protein
kinase (PIKK) subfamily in that it contains a FATC
(FRAP, ATM and TRRAP, C-terminal) domain and has a large
molecular weight. Unlike PIKK proteins, however, it
contains an inactive PI3K-like pseudokinase domain,
which lacks the conserved residues necessary for ATP
binding and catalytic activity. TRRAP also contains many
motifs that may be critical for protein-protein
interactions. TRRAP is a common component of many
histone acetyltransferase (HAT) complexes, and is
responsible for the recruitment of these complexes to
chromatin during transcription, replication, and DNA
repair. TRRAP also exists in non-HAT complexes such as
the p400 and MRN complexes, which are implicated in
ATP-dependent remodeling and DNA repair, respectively.
Length = 253
Score = 233 bits (597), Expect = 8e-73
Identities = 111/300 (37%), Positives = 151/300 (50%), Gaps = 63/300 (21%)
Query: 279 RFMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLA 338
RF+P V+IV H RRL IRGH+G IYP+LV + +RR+ERVLQL R LN L+
Sbjct: 3 RFLPTVEIVRGHGYCYRRLTIRGHDGSIYPFLVQYPAARQ-ARREERVLQLFRTLNSVLS 61
Query: 339 KQKETSKRFLHFTVPRVVPVSAQLRLVEDNPASLSLLDIYKTSCSQIKIDYE------LP 392
K KET +R L FT+P VVP+S Q+RLVED+P+ +SL +IY+ Y +P
Sbjct: 62 KNKETRRRNLQFTLPLVVPLSPQIRLVEDDPSYISLQEIYE----DKLEIYNEIQKDMVP 117
Query: 393 IVRYYD----RLGTLQS----RGNMTLQLALACFAEYVLHLTRLNPDMMYLHRDCGLLNV 444
+ T Q R T QLAL F Y+L + NPD +++ RD G +
Sbjct: 118 DTILKNYILSTFPTYQDYWLFRKQFTYQLALLSFMTYILSINNRNPDKIFISRDTGNVYQ 177
Query: 445 SYFKFDIDDSKGEFNNSRLEFENLSDSAKEIFRQKNLSEVYSNVDGAGVIIIIILGELNS 504
S I+++K F+N
Sbjct: 178 SDLLPSINNNKPLFHN-------------------------------------------- 193
Query: 505 NRPVPFRLTPNIMEFLTDIGVDGPLTASIIATARCLVQPNFQVHAILKAILRDEMIAIQK 564
N PVPFRLTPNI + IG++G LT+S++A ARCL +P F + L+ +RDE+IA K
Sbjct: 194 NEPVPFRLTPNIQHLIGPIGLEGILTSSMMAIARCLTEPEFDLENALQLFIRDELIAWHK 253
Score = 128 bits (325), Expect = 1e-33
Identities = 53/143 (37%), Positives = 73/143 (51%), Gaps = 15/143 (10%)
Query: 93 RFMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLA 152
RF+P V+IV H RRL IRGH+G IYP+LV + +RR+ERVLQL R LN L+
Sbjct: 3 RFLPTVEIVRGHGYCYRRLTIRGHDGSIYPFLVQYPAARQ-ARREERVLQLFRTLNSVLS 61
Query: 153 KQVSTTTTTKMVYISLLYCLGSP------ASSQVM--------CDILRDIQSKLIPRTML 198
K T + L+ L S + +I +IQ ++P T+L
Sbjct: 62 KNKETRRRNLQFTLPLVVPLSPQIRLVEDDPSYISLQEIYEDKLEIYNEIQKDMVPDTIL 121
Query: 199 KHWALHTFLSATDYWTFRKMVSS 221
K++ L TF + DYW FRK +
Sbjct: 122 KNYILSTFPTYQDYWLFRKQFTY 144
>gnl|CDD|119416 cd00142, PI3Kc_like, Phosphoinositide 3-kinase (PI3K)-like family,
catalytic domain; The PI3K-like 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
RIO kinases. Members of the family include PI3K,
phosphoinositide 4-kinase (PI4K), PI3K-related protein
kinases (PIKKs), and TRansformation/tRanscription
domain-Associated Protein (TRRAP). PI3Ks catalyze the
transfer of the gamma-phosphoryl group from ATP to the
3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives,
while PI4K catalyze the phosphorylation of the
4-hydroxyl of PtdIns. PIKKs are protein kinases that
catalyze the phosphorylation of serine/threonine
residues, especially those that are followed by a
glutamine. PI3Ks play an important role in a variety of
fundamental cellular processes, including cell motility,
the Ras pathway, vesicle trafficking and secretion,
immune cell activation and apoptosis. PI4Ks produce
PtdIns(4)P, the major precursor to important signaling
phosphoinositides. PIKKs have diverse functions
including cell-cycle checkpoints, genome surveillance,
mRNA surveillance, and translation control.
Length = 219
Score = 110 bits (278), Expect = 9e-28
Identities = 65/278 (23%), Positives = 99/278 (35%), Gaps = 62/278 (22%)
Query: 280 FMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAK 339
+ I+ T ++L + G +GK Y L N D R+DERVLQ +R++N L K
Sbjct: 4 DVKICRIMPSK-TRPKKLTLIGADGKEYRILFKNGD---DLRQDERVLQFIRLMNKILKK 59
Query: 340 QKETSKRFLHFTVPRVVPVSAQLRLVEDNPASLSLLDIYKTSCSQIKIDYELPIVRYYDR 399
+ L T V+P+S + L+E P S++L D + D
Sbjct: 60 E---LGLDLFLTTYSVIPLSPRSGLIEVVPGSVTLEDDLSKWL----------KRKSPDE 106
Query: 400 LGTLQSRGNMTLQLALACFAEYVLHLTRLNPDMMYLHRDCGLLNVSYFKFDIDDSKGEFN 459
++R N LA A Y+L + +PD + + D G L F F K
Sbjct: 107 DEWQEARENFISSLAGYSVAGYILGIGDRHPDNIMIDLDTGKLFHIDFGFIFGKRKK--- 163
Query: 460 NSRLEFENLSDSAKEIFRQKNLSEVYSNVDGAGVIIIIILGELNSNRPVPFRLTPNIMEF 519
VPFRLTP+++
Sbjct: 164 ------------------------------------------FLGRERVPFRLTPDLVNA 181
Query: 520 LTDIGVDGPLTASIIATARCLVQPNFQVHAILKAILRD 557
L GV GP + + L + + +L +LRD
Sbjct: 182 LGTGGVFGPFRSLCVKAMLILRRHAGLLLNLLSLMLRD 219
Score = 60.0 bits (146), Expect = 4e-10
Identities = 27/129 (20%), Positives = 52/129 (40%), Gaps = 15/129 (11%)
Query: 94 FMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAK 153
+ I+ T ++L + G +GK Y L N D R+DERVLQ +R++N L K
Sbjct: 4 DVKICRIMPSK-TRPKKLTLIGADGKEYRILFKNG---DDLRQDERVLQFIRLMNKILKK 59
Query: 154 QVSTTTTTKMVYISLLYCLGSPASSQV-MCDILRDIQSKLIPRTMLKHWALHTFLSATDY 212
+ ++++ + P S + + +++ + L W ++
Sbjct: 60 E-----LGLDLFLTTYSVI--PLSPRSGLIEVVPGSVT---LEDDLSKWLKRKSPDEDEW 109
Query: 213 WTFRKMVSS 221
R+ S
Sbjct: 110 QEARENFIS 118
>gnl|CDD|227365 COG5032, TEL1, Phosphatidylinositol kinase and protein kinases of the
PI-3 kinase family [Signal transduction mechanisms / Cell
division and chromosome partitioning / Chromatin
structure and dynamics / DNA replication, recombination,
and repair / Intracellular trafficking and secretion].
Length = 2105
Score = 103 bits (258), Expect = 1e-22
Identities = 80/332 (24%), Positives = 120/332 (36%), Gaps = 75/332 (22%)
Query: 279 RFMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLA 338
RF P V +V+ H RRL IRG +GK+Y ++V G D R+DE LQL+R++N L
Sbjct: 1769 RFEPEVSVVKSHLQRPRRLTIRGSDGKLYSFIV---KGGDDLRQDELALQLIRLMNKILK 1825
Query: 339 KQKETSKRFLHFTVPRVVPVSAQLRLVEDNPASLSLLDIYKTSCSQIKIDYELPIVRYYD 398
K KET +R L +V+P+S ++E P S +L I + + I +
Sbjct: 1826 KDKETRRRDLWIRPYKVIPLSPGSGIIEWVPNSDTLHSILREYHKRKNISIDQEKKLAAR 1885
Query: 399 RLGTLQSRGNMTLQLALACFAEYVLHLTRLNPDMMYLHRDCGLLNVSYFKFDIDDSKGEF 458
L L L L + F
Sbjct: 1886 -------------------LDNLKLLLKDEFFTKATLKSPPVLYDWFSESF--------- 1917
Query: 459 NNSRLEFENLSDSAKEIFRQKNLSE---VYSNV-----------------DGAGVIIIII 498
+ + + N + VYS + +G +I I
Sbjct: 1918 ----------PNPEDWLTARTNFARSLAVYSVIGYILGLGDRHPGNILIDRSSGHVIHID 1967
Query: 499 LGELNSNRP--------VPFRLTPNIMEFLTDIGVDGPLTASIIATARCLVQPNFQVHAI 550
G + N P VPFRLT NI+E + GV+G R L + + +
Sbjct: 1968 FGFILFNAPGRFPFPEKVPFRLTRNIVEAMGVSGVEGSFRELCETAFRALRKNADSLMNV 2027
Query: 551 LKAILRDEMIAIQKKVKCSYLPIIINFQNREM 582
L+ +RD +I + LP QN E+
Sbjct: 2028 LELFVRDPLI------EWRRLPCFREIQNNEI 2053
Score = 67.9 bits (166), Expect = 1e-11
Identities = 49/143 (34%), Positives = 65/143 (45%), Gaps = 30/143 (20%)
Query: 15 ISKLKKWIKILEAKNKLLPKSCLIEEKCRYLSNFNLHTAEIELPGEYLLPKHSHYYVRIS 74
IS L+ K L+ +L K L F+ EI+LPG+YLL K V I
Sbjct: 1718 ISVLRSIRKRLKRLLELRLKKV-----SPKLLLFH-AFLEIKLPGQYLLDKPF---VLIE 1768
Query: 75 SPISELRMIHKVYSILFYRFMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDS 134
RF P V +V+ H RRL IRG +GK+Y ++V G D
Sbjct: 1769 ------------------RFEPEVSVVKSHLQRPRRLTIRGSDGKLYSFIV---KGGDDL 1807
Query: 135 RRDERVLQLLRMLNHYLAKQVST 157
R+DE LQL+R++N L K T
Sbjct: 1808 RQDELALQLIRLMNKILKKDKET 1830
>gnl|CDD|214538 smart00146, PI3Kc, Phosphoinositide 3-kinase, catalytic domain.
Phosphoinositide 3-kinase isoforms participate in a
variety of processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, and
apoptosis. These homologues may be either lipid kinases
and/or protein kinases: the former phosphorylate the
3-position in the inositol ring of inositol
phospholipids. The ataxia telangiectesia-mutated gene
produced, the targets of rapamycin (TOR) and the
DNA-dependent kinase have not been found to possess
lipid kinase activity. Some of this family possess PI-4
kinase activities.
Length = 240
Score = 68.5 bits (168), Expect = 7e-13
Identities = 38/115 (33%), Positives = 54/115 (46%), Gaps = 4/115 (3%)
Query: 319 DSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPRVVPVSAQLRLVEDNPASLSLLDIY 378
D R+DERVLQLLR++N L K KET +R LH +V+P + L+E P S +L +I
Sbjct: 8 DLRQDERVLQLLRLMNKLLQKDKETRRRDLHLRPYKVIPTGPKSGLIEVVPNSTTLHEIL 67
Query: 379 KTSCSQIKIDYELPIVRYYDRLGTLQSRGNMTLQLALACFAEYVLHLTRLNPDMM 433
K Q +L RL L+ T + ++ T+ PD
Sbjct: 68 KEYRKQKGKVLDLRSQT-ATRLKKLELFLEATGKFPDPVLYDW---FTKKFPDPS 118
Score = 35.0 bits (81), Expect = 0.085
Identities = 14/21 (66%), Positives = 17/21 (80%)
Query: 133 DSRRDERVLQLLRMLNHYLAK 153
D R+DERVLQLLR++N L K
Sbjct: 8 DLRQDERVLQLLRLMNKLLQK 28
>gnl|CDD|119424 cd05164, PIKKc, Phosphoinositide 3-kinase-related protein kinase
(PIKK) subfamily, catalytic domain; The PIKK catalytic
domain subfamily 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 RIO kinases. Members include ATM (Ataxia
telangiectasia mutated), ATR (Ataxia telangiectasia and
Rad3-related), TOR (Target of rapamycin), SMG-1
(Suppressor of morphogenetic effect on genitalia-1), and
DNA-PK (DNA-dependent protein kinase). PIKKs have
intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). They show strong
preference for phosphorylating serine/threonine residues
followed by a glutamine and are also referred to as
(S/T)-Q-directed kinases. They all contain a FATC (FRAP,
ATM and TRRAP, C-terminal) domain. PIKKs have diverse
functions including cell-cycle checkpoints, genome
surveillance, mRNA surveillance, and translation
control.
Length = 222
Score = 67.0 bits (164), Expect = 1e-12
Identities = 54/246 (21%), Positives = 90/246 (36%), Gaps = 58/246 (23%)
Query: 295 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPR 354
+++ + G +GK Y +LV G D R+D+R++QL + N LAK E +R L
Sbjct: 18 KKITLTGSDGKKYLFLV---KGGEDLRQDQRIMQLFQFCNTLLAKDAECRRRKLTIRTYA 74
Query: 355 VVPVSAQLRLVEDNPASLSLLDIYKTSCSQIKIDYELPIVRYYDRLGTLQSRGNMTLQLA 414
V+P++++ L+E + +L + K ++ D +R N T A
Sbjct: 75 VIPLNSRSGLIEWVEGTTTLKPVLKKWFWL----------QFPDPEQWFAARKNYTRSTA 124
Query: 415 LACFAEYVLHLTRLNPDMMYLHRDCGLLNVSYFKFDIDDSKGEFNNSRLEFENLSDSAKE 474
+ Y+L L + D + + R+ G + ID F + + K
Sbjct: 125 VMSIVGYILGLGDRHLDNILIDRETGEV------VHID------------FGCIFEKGK- 165
Query: 475 IFRQKNLSEVYSNVDGAGVIIIIILGELNSNRPVPFRLTPNIMEFLTDIGVDGPLTASII 534
L VPFRLT NI+ + GV+G
Sbjct: 166 --------------------------TLPVPELVPFRLTRNIINGMGITGVEGLFRKICE 199
Query: 535 ATARCL 540
T
Sbjct: 200 QTLEVF 205
Score = 43.8 bits (104), Expect = 9e-05
Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 109 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAK 153
+++ + G +GK Y +LV G D R+D+R++QL + N LAK
Sbjct: 18 KKITLTGSDGKKYLFLV---KGGEDLRQDQRIMQLFQFCNTLLAK 59
>gnl|CDD|119429 cd05169, PIKKc_TOR, TOR (Target of rapamycin), catalytic domain;
The TOR catalytic domain subfamily 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 RIO kinases. TOR
is a member of the phosphoinositide 3-kinase-related
protein kinase (PIKK) subfamily. PIKKs have intrinsic
serine/threonine kinase activity and are distinguished
from other PKs by their unique catalytic domain, similar
to that of lipid PI3K, and their large molecular weight
(240-470 kDa). TOR contains a rapamycin binding domain,
a catalytic domain, and a FATC (FRAP, ATM and TRRAP,
C-terminal) domain at the C-terminus. It is also called
FRAP (FK506 binding protein 12-rapamycin associated
protein). TOR is a central component of the eukaryotic
growth regulatory network. It controls the expression of
many genes transcribed by all three RNA polymerases. It
associates with other proteins to form two distinct
complexes, TORC1 and TORC2. TORC1 is involved in diverse
growth-related functions including protein synthesis,
nutrient use and transport, autophagy and stress
responses. TORC2 is involved in organizing cytoskeletal
structures.
Length = 280
Score = 56.0 bits (136), Expect = 1e-08
Identities = 29/65 (44%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 295 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPR 354
RRL I G +GK Y +L+ G D R DERV+QL ++N L ETSKR L
Sbjct: 18 RRLTIVGSDGKEYKFLL---KGHEDLRLDERVMQLFGLINTLLKNDSETSKRNLSIQTYS 74
Query: 355 VVPVS 359
V+P+S
Sbjct: 75 VIPLS 79
Score = 45.2 bits (108), Expect = 5e-05
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 109 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQVST 157
RRL I G +GK Y +L+ G D R DERV+QL ++N L T
Sbjct: 18 RRLTIVGSDGKEYKFLL---KGHEDLRLDERVMQLFGLINTLLKNDSET 63
>gnl|CDD|119432 cd05172, PIKKc_DNA-PK, DNA-dependent protein kinase (DNA-PK),
catalytic domain; The DNA-PK catalytic domain subfamily
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
RIO kinases. DNA-PK is a member of the phosphoinositide
3-kinase-related protein kinase (PIKK) subfamily. PIKKs
have intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). DNA-PK is comprised of a
regulatory subunit, containing the Ku70/80 subunit, and
a catalytic subunit, which contains a NUC194 domain of
unknown function, a FAT (FRAP, ATM and TRRAP) domain, a
catalytic domain, and a FATC domain at the C-terminus.
It is part of a multi-component system involved in
non-homologous end joining (NHEJ), a process of
repairing double strand breaks (DSBs) by joining
together two free DNA ends of little homology. DNA-PK
functions as a molecular sensor for DNA damage that
enhances the signal via phosphorylation of downstream
targets. It may also act as a protein scaffold that aids
the localization of DNA repair proteins to the site of
DNA damage. DNA-PK also plays a role in the maintenance
of telomeric stability and the prevention of chromosomal
end fusion.
Length = 235
Score = 54.6 bits (132), Expect = 3e-08
Identities = 59/271 (21%), Positives = 103/271 (38%), Gaps = 73/271 (26%)
Query: 280 FMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAK 339
F RV +V +R+ IRG + K YP+LV G D R+D+R+ QL ++N+ LA+
Sbjct: 4 FDERV-LVLSSLRKPKRITIRGSDEKEYPFLV---KGGEDLRQDQRIQQLFGVMNNILAQ 59
Query: 340 QKETSKRFLHFTVPRVVPVSAQLRLVEDNPASLSLLDIYKTSCSQIKIDYELPIVRYYDR 399
+R L +V+P++ + L+E + L +I K + + +
Sbjct: 60 DTACRQRALQLRTYQVIPMTPRFGLIEWLENTTPLKEILKNDLLRRAL---------VEM 110
Query: 400 LGTLQS----RGNMTLQLALACFAEYVL-----HLTRLNPDMMYLHRDCGLLNVSY-FKF 449
+ ++ R + LA C + ++L HL+ D+ GL+ + + F
Sbjct: 111 SASPEAFLSLRDHFAKSLAAMCVSHWILGIGDRHLSNFLVDL----ETGGLVGIDFGHAF 166
Query: 450 DIDDSKGEFNNSRLEFENLSDSAKEIFRQKNLSEVYSNVDGAGVIIIIILGELNSNRPVP 509
G + I EL +P
Sbjct: 167 ----------------------------------------GTATQFLPIP-EL-----MP 180
Query: 510 FRLTPNIMEFLTDIGVDGPLTASIIATARCL 540
FRLTP + + + DG L + ++ T R L
Sbjct: 181 FRLTPQFVNLMEPMKADGLLRSCMVHTLRAL 211
Score = 41.9 bits (99), Expect = 4e-04
Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 94 FMPRVDIVEKHNTAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLA 152
F RV +V +R+ IRG + K YP+LV G D R+D+R+ QL ++N+ LA
Sbjct: 4 FDERV-LVLSSLRKPKRITIRGSDEKEYPFLV---KGGEDLRQDQRIQQLFGVMNNILA 58
>gnl|CDD|119418 cd00892, PIKKc_ATR, ATR (Ataxia telangiectasia and Rad3-related),
catalytic domain; The ATR catalytic domain subfamily 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
RIO kinases. ATR is also referred to as Mei-41
(Drosophila), Esr1/Mec1p (Saccharomyces cerevisiae),
Rad3 (Schizosaccharomyces pombe), and FRAP-related
protein (human). ATR is a member of the phosphoinositide
3-kinase-related protein kinase (PIKK) subfamily. PIKKs
have intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). ATR contains a UME
domain of unknown function, a FAT (FRAP, ATM and TRRAP)
domain, a catalytic domain, and a FATC domain at the
C-terminus. Together with its downstream effector
kinase, Chk1, ATR plays a central role in regulating the
replication checkpoint. ATR stabilizes replication forks
by promoting the association of DNA polymerases with the
fork. Preventing fork collapse is essential in
preserving genomic integrity. ATR plays a role in normal
cell growth and in response to DNA damage.
Length = 237
Score = 52.2 bits (126), Expect = 2e-07
Identities = 25/88 (28%), Positives = 49/88 (55%), Gaps = 7/88 (7%)
Query: 295 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPR 354
+++ + G +G YP+L D R+D R+++ ++N L+K E+ +R L+
Sbjct: 18 KKITLIGSDGNSYPFLCKPKD---DLRKDARLMEFNTLINRLLSKDPESRRRRLYIRTYA 74
Query: 355 VVPVSAQLRLVE--DNPASLS--LLDIY 378
V+P++ + ++E N A+L LL+IY
Sbjct: 75 VIPLNEECGIIEWVPNTATLRSILLEIY 102
Score = 41.8 bits (99), Expect = 4e-04
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 109 RRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQ 154
+++ + G +G YP+L D R+D R+++ ++N L+K
Sbjct: 18 KKITLIGSDGNSYPFLCKPK---DDLRKDARLMEFNTLINRLLSKD 60
Score = 40.3 bits (95), Expect = 0.001
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 508 VPFRLTPNIMEFLTDIGVDGPLTASIIATARCLVQPNFQVHAILKAILRD 557
VPFRLT N+++ + +GV+G S T R L + ++L+ + D
Sbjct: 181 VPFRLTQNMVDAMGVLGVEGLFRKSCEVTLRLLRSNKETLMSVLETFIHD 230
>gnl|CDD|119430 cd05170, PIKKc_SMG1, Suppressor of morphogenetic effect on
genitalia-1 (SMG-1), catalytic domain; The SMG-1
catalytic domain subfamily 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 RIO kinases.
SMG-1 is a member of the phosphoinositide
3-kinase-related protein kinase (PIKK) subfamily. PIKKs
have intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). In addition to its
catalytic domain, SMG-1 contains a FATC (FRAP, ATM and
TRRAP, C-terminal) domain at the C-terminus. SMG-1 plays
a critical role in the mRNA surveillance mechanism known
as non-sense mediated mRNA decay (NMD). NMD protects the
cells from the accumulation of aberrant mRNAs with
premature termination codons (PTCs) generated by genome
mutations and by errors during transcription and
splicing. SMG-1 phosphorylates Upf1, another central
component of NMD, at the C-terminus upon recognition of
PTCs. The phosphorylation/dephosphorylation cycle of
Upf1 is essential for promoting NMD.
Length = 307
Score = 50.1 bits (120), Expect = 1e-06
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 3/89 (3%)
Query: 292 TAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFT 351
T ++L G +GK Y YL G D DER++Q L ++N A K+
Sbjct: 15 TKPKKLAFLGSDGKKYTYLF---KGREDLHLDERIMQFLSIVNTMFASIKDQESPRFRAR 71
Query: 352 VPRVVPVSAQLRLVEDNPASLSLLDIYKT 380
V P+ + L++ + L +YK
Sbjct: 72 HYSVTPLGPRSGLIQWVDGATPLFGLYKR 100
Score = 41.3 bits (97), Expect = 0.001
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 106 TAARRLYIRGHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAK 153
T ++L G +GK Y YL G D DER++Q L ++N A
Sbjct: 15 TKPKKLAFLGSDGKKYTYLF---KGREDLHLDERIMQFLSIVNTMFAS 59
>gnl|CDD|189554 pfam00454, PI3_PI4_kinase, Phosphatidylinositol 3- and 4-kinase.
Some members of this family probably do not have lipid
kinase activity and are protein kinases, .
Length = 233
Score = 39.3 bits (92), Expect = 0.003
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 7/84 (8%)
Query: 306 IYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPRVVPVSAQLRLV 365
YP++ D R+DERVLQL+ ++N L+ + V+P+ L+
Sbjct: 1 GYPFIFKGGD---DLRQDERVLQLIGLMNKLLSGEGLD----RRLAAYLVIPLGPGSGLI 53
Query: 366 EDNPASLSLLDIYKTSCSQIKIDY 389
E P S +L +I +T + I
Sbjct: 54 EWVPNSTTLAEIPRTYMVKKGIPL 77
>gnl|CDD|119431 cd05171, PIKKc_ATM, Ataxia telangiectasia mutated (ATM), catalytic
domain; The ATM catalytic domain subfamily 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
RIO kinases. ATM is a member of the phosphoinositide
3-kinase-related protein kinase (PIKK) subfamily. PIKKs
have intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). ATM contains a FAT
(FRAP, ATM and TRRAP) domain, a catalytic domain, and a
FATC domain at the C-terminus. ATM is critical in the
response to DNA double strand breaks (DSBs) caused by
radiation. It is activated at the site of a DSB and
phosphorylates key substrates that trigger pathways that
regulate DNA repair and cell cycle checkpoints at the
G1/S, S phase, and G2/M transition. Patients with the
human genetic disorder Ataxia telangiectasia (A-T),
caused by truncating mutations in ATM, show genome
instability, increased cancer risk, immunodeficiency,
compromised mobility, and neurodegeneration. A-T
displays clinical heterogeneity, which is correlated to
the degree of retained ATM activity.
Length = 279
Score = 31.4 bits (72), Expect = 1.2
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 301 GHNGKIYPYLVMNDSGLSDSRRDERVLQLLRMLNHYLAKQKETSKRFLHFTVPRVVPVS 359
G +GK Y L+ G D R+D + Q+ +++N L + KET KR L +VVP+S
Sbjct: 24 GSDGKKYKQLL---KGGDDDRQDAVMEQVFQLVNTLLERNKETRKRKLRIRTYKVVPLS 79
Score = 30.7 bits (70), Expect = 1.9
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 508 VPFRLTPNIMEFLTDIGVDGPLTASIIATARCLVQPNFQVHAILKAILRDEM 559
VPFRLT +I++ + GV+G T L + IL+ +L D +
Sbjct: 223 VPFRLTRDIVDGMGITGVEGVFRRCCEKTLEVLRDNKDAILTILEVLLYDPL 274
>gnl|CDD|219737 pfam08172, CASP_C, CASP C terminal. This domain is the C-terminal
region of the CASP family of proteins. It is a Golgi
membrane protein which is thought to have a role in
vesicle transport.
Length = 245
Score = 28.9 bits (65), Expect = 7.1
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 10 KLHNLISKLKKWIKILEAKNKLLPKSCLIEEKCRYLSNFNLHTAEIELPGEYLLPKHSHY 69
K + IS L++ ++ L+A N L EK RYL ++ ++ + P S
Sbjct: 104 KQNQTISSLRRELESLKADNIKL------YEKIRYLQSYQGNSPPSDSAVSN-SPGRSSL 156
Query: 70 YVRISSPISELR 81
S E R
Sbjct: 157 QPGPGSIDVESR 168
>gnl|CDD|221397 pfam12054, DUF3535, Domain of unknown function (DUF3535). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 439 to 459 amino acids in length. This domain is
found associated with pfam00271, pfam02985, pfam00176.
This domain has two completely conserved residues (P and
K) that may be functionally important.
Length = 442
Score = 29.2 bits (66), Expect = 7.7
Identities = 32/149 (21%), Positives = 52/149 (34%), Gaps = 35/149 (23%)
Query: 166 ISLLYCLGSPASSQVM------------CDILRDIQSKLIPRTMLKHWALHTFLSATDYW 213
LL L SP+++Q + + S L PR L T L +
Sbjct: 131 PVLLGGLTSPSATQRLLASIIIAEWAKNDKPGKPAPSLLSPR-------LLTILENEEPP 183
Query: 214 TFRKMVSSFFG-----QNLHHHFRVPGKKTFWISPSMGSDRQTDTEANNIVCSPISELRM 268
+ ++V S Q L + F GK + PS+ Q + EA S +
Sbjct: 184 YYDELVPSLKRLRTQCQQLLNTFVDVGKLSQSKLPSLAVVVQGEPEAGPEAFS----IET 239
Query: 269 IHKVYSILFYRFMPRVDIVEKHNTAARRL 297
KV + F D ++K + ++L
Sbjct: 240 AEKVVTTDF-------DKLKKSLSPKQKL 261
>gnl|CDD|223963 COG1032, COG1032, Fe-S oxidoreductase [Energy production and
conversion].
Length = 490
Score = 28.8 bits (64), Expect = 8.7
Identities = 14/88 (15%), Positives = 27/88 (30%), Gaps = 12/88 (13%)
Query: 272 VYSILFYRFMPRVDIVEKHNTAARRLYIRG--HNGKIYPYLVMNDSGLSDSRRDERVLQL 329
+ YR +VE+ R I+ S + DE+ +L
Sbjct: 217 ITKHFKYRRRRPERVVEEIKELIEEGGKRVVFFVDDIF-------LYGSPALNDEKRFEL 269
Query: 330 LRMLNHYLAKQKETSKRFLHFTVPRVVP 357
L + L ++ +H + P +
Sbjct: 270 LSLE---LIERGLRKGCRVHISAPSLRA 294
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.324 0.139 0.417
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: 30,782,093
Number of extensions: 3047776
Number of successful extensions: 3368
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3344
Number of HSP's successfully gapped: 40
Length of query: 599
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 497
Effective length of database: 6,413,494
Effective search space: 3187506518
Effective search space used: 3187506518
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 62 (27.6 bits)