RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14846
(615 letters)
>gnl|CDD|216175 pfam00888, Cullin, Cullin family.
Length = 603
Score = 415 bits (1067), Expect = e-138
Identities = 194/596 (32%), Positives = 311/596 (52%), Gaps = 51/596 (8%)
Query: 14 WPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKEDIMNFIRHAQQ 73
W + + ++L + S ++ L+ AV+ K K+ + LKE + ++ +
Sbjct: 1 WEKLLDAIDQILL-KSFSSLDYMELYTAVYN--YVPHKLGEKLYNRLKEYLEEYVAALLK 57
Query: 74 RVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVSTSLTNNNNKQKISA 133
+L ++++ LLK Y +EW+KF L F L V +
Sbjct: 58 SILENDDEV-LLKTYYKEWNKFSTSMKILNNIFMYLNRYYVKRKNLD------------- 103
Query: 134 EESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSN 193
V L LD W +S+F+ IK +L D+ ++L++ ER GE D L+ V + +V L
Sbjct: 104 ---GVYELGLDIWRESLFDPIKDKLIDALLRLIEKERLGEIIDRSLIKNVLDMFVEL--- 157
Query: 194 PEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLE 253
DKL++Y+E FEK ++ AT FY ++++FLQ N V YMK + +L EEE R YL
Sbjct: 158 GLDKLEVYKEDFEKPFLEATSEFYKKESSKFLQENSVSEYMKKVEERLEEEEERVRLYLH 217
Query: 254 SSSSVQLLTDCCVTVLVSSFKNTILAECPKMIKMNETLKLELMMKLLDRIKDGITPMLQD 313
SS+ + L + C VL+ + +E +++ + L M +LL R+ +G+ P+ +
Sbjct: 218 SST-EKKLIEVCEKVLIEKHLEFLHSEFQRLLDNEKIEDLRRMYRLLSRVPNGLEPLRKY 276
Query: 314 LEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRFLTARDKAY 373
E HI GLA + A + D + YV+ LLEL +++ LV +AF +D FL A DKA+
Sbjct: 277 FEKHIKKEGLAAVSDLA--VETDPKDYVQTLLELHDKYDSLVNEAFNNDALFLNALDKAF 334
Query: 374 KNVVNDTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKL 433
+ +N + SK ELLA YCD LL+K+ K L +E+E KL
Sbjct: 335 EEFINSNS-------------------SKSAELLAKYCDSLLKKS--LKGLNEEELEEKL 373
Query: 434 RNVLLVLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLRDVGMPADYVNKLA 493
++++ KY+++KDVF +F++ L +RL+ TSA + E+ M+E L+ + +KL
Sbjct: 374 DKIIVLFKYIEDKDVFEKFYRKMLAKRLLNGTSASDDAEKKMIEKLKQE-CGYQFTSKLE 432
Query: 494 RMFQDIKVSQDLNYQFKQSY--RGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELED 551
RMF+DI +S++LN FK S G +++ +L+ G W SLP ELE
Sbjct: 433 RMFKDISLSKELNNSFKNHLENNLDLLSEGIDLSVLVLSTGFWPTLPTEP-FSLPEELEK 491
Query: 552 YIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNER 607
+ + E+FY KKHSGRKL W H + G + Y+L V+T+QMAVL +N++
Sbjct: 492 ALEKFEEFYSKKHSGRKLTWLHSLGRGELKAEFNDKTYELTVSTYQMAVLLLFNDQ 547
>gnl|CDD|214545 smart00182, CULLIN, Cullin.
Length = 143
Score = 176 bits (449), Expect = 1e-52
Identities = 60/145 (41%), Positives = 90/145 (62%), Gaps = 4/145 (2%)
Query: 442 YVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLRDV-GMPADYVNKLARMFQDIK 500
Y+Q+KDVF +++K HL +RLIL+ SA + EENM+ L+ G ++ +KL RMF+DI
Sbjct: 1 YIQDKDVFEKYYKKHLAKRLILNRSASDDAEENMITKLKQECGY--EFTSKLERMFRDIS 58
Query: 501 VSQDLNYQFKQSYRGSKGSI-GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDF 559
+S+DLN FK + + +N+++L +G W S V ++LP ELED + E E+F
Sbjct: 59 LSKDLNQSFKDMLENNPSAKPIIDLNVRVLTSGYWPTSSTEVEINLPQELEDALEEFEEF 118
Query: 560 YKKKHSGRKLQWYHHMSNGTITFSN 584
Y KHSGRKL W H + G + +
Sbjct: 119 YLAKHSGRKLTWLHSLGRGEVKANF 143
>gnl|CDD|227934 COG5647, COG5647, Cullin, a subunit of E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 773
Score = 185 bits (470), Expect = 6e-50
Identities = 135/584 (23%), Positives = 255/584 (43%), Gaps = 63/584 (10%)
Query: 55 KIVDALKEDIMNFIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLV 114
K+VD K I + R + E + L ++ W++F + + F ++ +
Sbjct: 85 KLVDYAKNYIEEY-----NRGRSQENMEEFLDELVKFWNRFTKGATMINHLFLYMDRVYL 139
Query: 115 NK-SVSTSLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGE 173
K +L L L F I L + + V+ R +
Sbjct: 140 KKARYDKTLVFEVY------------SLCLVKEKIESFRLIVDSLINPLLYYVERYRALQ 187
Query: 174 AFDSQLVIGVRESYVNLCS---NPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGV 230
+ D + + ++ +L ++ L Y+ FE ++ T FY ++++E ++ V
Sbjct: 188 SIDRKYIEDAKDMLESLERPSDYKKENLSYYKSVFEPIFLEETWEFYEMESSEVIELLSV 247
Query: 231 ESYMKYADAKLHEEELRACKYLESSSSVQL---LTDCCVTVLVSSFKNTILAECPKMIKM 287
Y++ A L EE YL+ S+ L L D +T + + + + +
Sbjct: 248 TEYLEKAHKILEREEELVEIYLKVSTKKPLLEVLEDVLITRHLDDLEEQG-SGFREALDA 306
Query: 288 NETLKLELMMKLLDRIKDGITPMLQDLEAHIVNAGLADMIASADI--------ITQDSE- 338
+ KL+++ +LL K G+ P+ + E ++ + G+ I + I E
Sbjct: 307 SNLEKLQVLYRLLSETKYGVQPLQEVFERYVKDEGVLINIETNYIFHCKVDVGFLGSREC 366
Query: 339 ---KYVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVNDTTVFKLELPTKQCTGI 395
YV++LL + F LV ++F+ D + A A+K +N G
Sbjct: 367 LPKLYVQKLLSCHDLFPSLVNESFEGDGSIVKALGNAFKTFIN---------------GN 411
Query: 396 KTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKA 455
++ +S E LA Y D LL+K K+ +I+ L++++ + +YV+ KDVF +++K
Sbjct: 412 ES-ADSGPSEYLAKYIDGLLKKD--GKQSFIGKIKDLLQDIITLFRYVEEKDVFEKYYKK 468
Query: 456 HLTRRLILDTSADSEKEENMVEWLRDV-GMPADYVNKLARMFQDIKVSQDLNYQFKQSYR 514
L +RL+ SA ++ E M+ L+ V G ++ +KL MF+DI +S + F+ S +
Sbjct: 469 LLAKRLLNGRSASAQAELKMISMLKKVCGQ--EFTSKLEGMFRDISLSSEFTEAFQHSPQ 526
Query: 515 GSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHH 574
+ + + +L W E V++ LP EL + + FY KH+GRKL+WY H
Sbjct: 527 SYNKYL--DLFVWVLTQAYWPLSPEEVSIRLPKELVPILEGFKKFYSSKHNGRKLKWYWH 584
Query: 575 MSNGTITFSNEVGKYDLDVTTF---QMAVLFAWNERPLDRFQNL 615
+ +G + G+ L+++TF Q+ V +N+ F+ +
Sbjct: 585 LGSGEVKARFNEGQKYLEISTFSVYQLLVFLLFNDHEELTFEEI 628
>gnl|CDD|213044 cd12097, DD_RI_PKA, Dimerization/Docking domain of the Type I
Regulatory subunit of cAMP-dependent protein kinase.
cAMP-dependent protein kinase (PKA) is a
serine/threonine kinase (STK), catalyzing the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
inactive PKA holoenzyme is a heterotetramer composed of
two phosphorylated and active catalytic subunits with a
dimer of regulatory (R) subunits. Activation is achieved
through the binding of the important second messenger
cAMP to the R subunits, which leads to the dissociation
of PKA into the R dimer and two active subunits. There
are two classes of R subunits, RI and RII; each exists
as two isoforms (alpha and beta) from distinct genes.
These functionally non-redundant R isoforms allow for
specificity in PKA signaling. RI subunits are
pseudo-substrates as they do not contain a
phosphorylation site in their inhibitory site unlike RII
subunits. RIalpha function is required for normal
development as its deletion is embryonically lethal.
RIbeta is expressed highly in the brain and is
associated with hippocampal function. The R subunit
contains an N-terminal dimerization/docking (D/D)
domain, a linker with an inhibitory sequence, and two
c-AMP binding domains. The D/D domain dimerizes to form
a four-helix bundle that serves as a docking site for
A-kinase-anchoring proteins (AKAPs), which facilitates
the localization of PKA to specific sites in the cell.
PKA is present ubiquitously in cells and interacts with
many different downstream targets. It plays a role in
the regulation of diverse processes such as growth,
development, memory, metabolism, gene expression,
immunity, and lipolysis.
Length = 44
Score = 28.8 bits (65), Expect = 0.79
Identities = 10/26 (38%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 183 VRESYVNLCSN-PEDKLQIYREHFEK 207
++++ V LC + PE+ + RE+FEK
Sbjct: 14 LKDAIVQLCISRPENPVAFLREYFEK 39
>gnl|CDD|213049 cd12102, DD_RIbeta_PKA, Dimerization/Docking domain of the Type I
beta Regulatory subunit of cAMP-dependent protein
kinase. cAMP-dependent protein kinase (PKA) is a
serine/threonine kinase (STK), catalyzing the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The
inactive PKA holoenzyme is a heterotetramer composed of
two phosphorylated and active catalytic subunits with a
dimer of regulatory (R) subunits. Activation is achieved
through the binding of the important second messenger
cAMP to the R subunits, which leads to the dissociation
of PKA into the R dimer and two active subunits. There
are two classes of R subunits, RI and RII; each exists
as two isoforms (alpha and beta) from distinct genes.
These functionally non-redundant R isoforms allow for
specificity in PKA signaling. RI subunits are
pseudo-substrates as they do not contain a
phosphorylation site in their inhibitory site unlike RII
subunits. RIbeta is expressed highly in the brain and is
associated with hippocampal function. The R subunit
contains an N-terminal dimerization/docking (D/D)
domain, a linker with an inhibitory sequence, and two
c-AMP binding domains. The D/D domain dimerizes to form
a four-helix bundle that serves as a docking site for
A-kinase-anchoring proteins (AKAPs), which facilitates
the localization of PKA to specific sites in the cell.
PKA is present ubiquitously in cells and interacts with
many different downstream targets. It plays a role in
the regulation of diverse processes such as growth,
development, memory, metabolism, gene expression,
immunity, and lipolysis.
Length = 54
Score = 27.6 bits (61), Expect = 2.8
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 183 VRESYVNLC-SNPEDKLQIYREHFEK 207
++E VNLC + PE ++ REHFEK
Sbjct: 21 LKECIVNLCIAKPERPMKFLREHFEK 46
>gnl|CDD|233231 TIGR01002, hlyII, beta-channel forming cytolysin. This family of
cytolytic pore-forming proteins includes alpha toxin and
leukocidin F and S subunits from Staphylococcus aureus,
hemolysin II of Bacillus cereus, and related toxins
[Cellular processes, Toxin production and resistance].
Length = 312
Score = 29.8 bits (67), Expect = 3.9
Identities = 23/96 (23%), Positives = 34/96 (35%), Gaps = 25/96 (26%)
Query: 500 KVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDF 559
+V L Y S S+ IG SIN GS + ++ DY +E
Sbjct: 132 QVQSTLGYSIGGSIEISENKIGGSIN-----------GSFSFSETIKYVQPDYKTILE-- 178
Query: 560 YKKKHSGRKLQW---YHHMSNGTITFSNEVGKYDLD 592
KH+ +K+ W ++ N G Y D
Sbjct: 179 ---KHTDKKIGWKVKFNSFVNA------GWGPYGRD 205
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 29.7 bits (68), Expect = 5.1
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 16/80 (20%)
Query: 266 VTVLVSSFK-NTILAECPKMIKMNETLKLELMMKLLDRIKDGITPMLQDLEAHIVNAGLA 324
V V+ F N K + + ET + +KL+ KDG + L AH+V A +
Sbjct: 370 VKVVKFPFAGN------GKALALGET---DGFVKLIFDKKDG-----EVLGAHMVGARAS 415
Query: 325 DMIASADIITQDSEKYVERL 344
++I A + E E L
Sbjct: 416 ELIQEAQLAIN-WEATPEDL 434
>gnl|CDD|226628 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 29.2 bits (66), Expect = 6.2
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 4/63 (6%)
Query: 464 DTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIGDS 523
D+EK + R +G YV + AR+F V +L Y +S R +
Sbjct: 60 RVLVDAEKGIFLPPEKRRIG----YVFQDARLFPHYTVRGNLRYGMWKSMRAQFDQLVAL 115
Query: 524 INI 526
+ I
Sbjct: 116 LGI 118
>gnl|CDD|227427 COG5096, COG5096, Vesicle coat complex, various subunits
[Intracellular trafficking and secretion].
Length = 757
Score = 29.3 bits (66), Expect = 8.3
Identities = 11/55 (20%), Positives = 24/55 (43%)
Query: 100 SYLPTPFRQLETSLVNKSVSTSLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDI 154
++ + + V S L ++N+ +KI A + + + L S+F D+
Sbjct: 6 AFKDSIRKARNADSVAALSSGRLESSNDYKKIDAMKKIIAQMSLGEDMSSLFPDV 60
>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho
family GTPase similar to Cdc42. Wrch-1 (Wnt-1
responsive Cdc42 homolog) is a Rho family GTPase that
shares significant sequence and functional similarity
with Cdc42. Wrch-1 was first identified in mouse mammary
epithelial cells, where its transcription is upregulated
in Wnt-1 transformation. Wrch-1 contains N- and
C-terminal extensions relative to cdc42, suggesting
potential differences in cellular localization and
function. The Wrch-1 N-terminal extension contains
putative SH3 domain-binding motifs and has been shown to
bind the SH3 domain-containing protein Grb2, which
increases the level of active Wrch-1 in cells. Unlike
Cdc42, which localizes to the cytosol and perinuclear
membranes, Wrch-1 localizes extensively with the plasma
membrane and endosomes. The membrane association,
localization, and biological activity of Wrch-1 indicate
an atypical model of regulation distinct from other Rho
family GTPases. Most Rho 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 Rho proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 173
Score = 28.1 bits (63), Expect = 9.7
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 225 LQNNGVESYMKYADAKLHEEELRACKYLESSSSVQ 259
L G + + + AK E++ AC+Y+E S+ Q
Sbjct: 126 LARYGEKP-VSQSRAKALAEKIGACEYIECSALTQ 159
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
0.318 0.132 0.380
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 30,681,106
Number of extensions: 2969281
Number of successful extensions: 2951
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2932
Number of HSP's successfully gapped: 27
Length of query: 615
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 512
Effective length of database: 6,369,140
Effective search space: 3260999680
Effective search space used: 3260999680
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 (21.7 bits)
S2: 62 (27.7 bits)