RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7061
(65 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 52.7 bits (127), Expect = 4e-10
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 1 MAAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDS 60
+ H +Y FSPD R+L+++S D+T ++W+ E + L + WV AF+ D
Sbjct: 89 LTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTL-RGHTDWVNSVAFSPDG 147
Query: 61 KFLLT 65
F+ +
Sbjct: 148 TFVAS 152
Score = 47.7 bits (114), Expect = 3e-08
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 4 HRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFL 63
H FSPD +LLAT S D T ++W+ E L+R L + V D A + D +L
Sbjct: 8 HTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTL-KGHTGPVRDVAASADGTYL 66
Query: 64 LT 65
+
Sbjct: 67 AS 68
Score = 46.9 bits (112), Expect = 4e-08
Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 1 MAAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDS 60
+ H + FSPD +A++S D T ++W+ V L T + V AF+ D
Sbjct: 131 LRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATL-TGHTGEVNSVAFSPDG 189
Query: 61 KFLLT 65
+ LL+
Sbjct: 190 EKLLS 194
Score = 44.6 bits (106), Expect = 3e-07
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 1 MAAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDS 60
+ H FSPD LLA+ S D T R+W+ V+ L + + V A++ D
Sbjct: 215 LRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTL-SGHTNSVTSLAWSPDG 273
Query: 61 KFLLT 65
K L +
Sbjct: 274 KRLAS 278
Score = 44.6 bits (106), Expect = 3e-07
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 3 AHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKF 62
H FSPD L ++S+D T ++W+ + L ++ V AF+ D
Sbjct: 175 GHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTL-RGHENGVNSVAFSPDGYL 233
Query: 63 LL 64
L
Sbjct: 234 LA 235
Score = 40.8 bits (96), Expect = 7e-06
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 4 HRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFL 63
H S D LA+ S+D+T R+W+ E VR L +V AF+ D + L
Sbjct: 50 HTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTS-YVSSVAFSPDGRIL 108
Query: 64 LT 65
+
Sbjct: 109 SS 110
Score = 31.5 bits (72), Expect = 0.012
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 13 FSPDCRLLATTSADQTARIWN 33
+SPD + LA+ SAD T RIW+
Sbjct: 269 WSPDGKRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 41.2 bits (95), Expect = 5e-06
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 4 HRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFL 63
H + FSPD LLA+ S+D T R+W+ S + + + V AF+ D K L
Sbjct: 241 HSDSVVSS-FSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLL 299
Query: 64 LT 65
+
Sbjct: 300 AS 301
Score = 36.2 bits (82), Expect = 4e-04
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 11 CVFSPDCRLLATTSADQTARIWNTEDFSLVRELG-TANQRWVWDAAFTLDSKFLLT 65
FSPD +LLA+ S+D T R+W+ E L+ L ++ V +F+ D L++
Sbjct: 290 VAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVS 345
Score = 34.7 bits (78), Expect = 0.001
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 1 MAAHRAYGLHCVFSPDCR-LLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLD 59
+A H FSPD L+A+ S+D T R+W+ L+R + + V ++F+ D
Sbjct: 194 LAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVV-SSFSPD 252
Query: 60 SKFLLT 65
L +
Sbjct: 253 GSLLAS 258
Score = 34.3 bits (77), Expect = 0.002
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)
Query: 3 AHRAYGLHCVFSPDCRLLATTS-ADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSK 61
H FSPD +LLA+ S D T ++W+ + L V AF+ D
Sbjct: 153 GHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHT-DPVSSLAFSPDGG 211
Query: 62 FLLT 65
L+
Sbjct: 212 LLIA 215
Score = 34.3 bits (77), Expect = 0.002
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 13 FSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFLLT 65
FSPD R++++ S D T R+W+ SL+R L V F+ D K L +
Sbjct: 378 FSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHT-SRVTSLDFSPDGKSLAS 429
Score = 32.8 bits (73), Expect = 0.006
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 10 HCVFSPD--CRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFLLT 65
+ SPD LLA++S D T ++W+ + + V AF+ D K L +
Sbjct: 115 LALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLAS 172
Score = 32.4 bits (72), Expect = 0.008
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 9 LHCVFSPDCRLLATTSADQTARIWNTEDFSLV 40
FSPD + LA+ S+D T R+W+ +
Sbjct: 416 TSLDFSPDGKSLASGSSDNTIRLWDLKTSLKS 447
Score = 28.9 bits (63), Expect = 0.12
Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 2/67 (2%)
Query: 1 MAAHRAYGLHCVFSPDCRLLATTSADQTARIWN-TEDFSLVRELGTANQRWVWDAAF-TL 58
+ H FSPD LL + S+D T ++W+ L++ L + V A +
Sbjct: 61 LRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSP 120
Query: 59 DSKFLLT 65
D +L
Sbjct: 121 DGNSILL 127
Score = 28.9 bits (63), Expect = 0.13
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 13 FSPD-CRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFL 63
FSPD L++ S D T R+W+ ++ L + V +F+ D + +
Sbjct: 336 FSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSN--VLSVSFSPDGRVV 385
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 35.8 bits (83), Expect = 6e-05
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 3 AHRAYGLHCVFSPDCRLLATTSADQTARIWN 33
H FSPD LLA+ S D T R+W+
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats
(blades) of the beta propeller domain.
Length = 40
Score = 34.6 bits (80), Expect = 1e-04
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 3 AHRAYGLHCVFSPDCRLLATTSADQTARIWN 33
H FSPD + LA+ S D T ++W+
Sbjct: 10 GHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|234377 TIGR03866, PQQ_ABC_repeats, PQQ-dependent catabolism-associated
beta-propeller protein. Members of this protein family
consist of seven repeats each of the YVTN family
beta-propeller repeat (see TIGR02276). Members occur
invariably as part of a transport operon that is
associated with PQQ-dependent catabolism of alcohols
such as phenylethanol.
Length = 300
Score = 28.5 bits (64), Expect = 0.16
Identities = 16/37 (43%), Positives = 19/37 (51%), Gaps = 7/37 (18%)
Query: 29 ARIWNTEDFSLVRELGTANQRWVWDAAFTLDSKFLLT 65
A+ + D+ LV QR VW AFT D K LLT
Sbjct: 236 AKTYEVLDYLLV------GQR-VWQLAFTPDEKRLLT 265
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 27.1 bits (60), Expect = 0.52
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 12 VFSPDCRLLATTSADQTARIW 32
V + DCRL+A S D + R W
Sbjct: 441 VCAADCRLMAFQSVDDSTRFW 461
>gnl|CDD|131700 TIGR02652, TIGR02652, TIGR02652 family protein. Members of this
family of conserved hypothetical proteins are found, so
far, only in the Cyanobacteria. Members are about 170
amino acids long and share a motif CxxCx(14)CxxH near
the amino end [Hypothetical proteins, Conserved].
Length = 163
Score = 26.3 bits (58), Expect = 0.88
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 9/45 (20%)
Query: 2 AAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTA 46
+ HR YGL FSP +A Q R W +F L +E G
Sbjct: 118 SEHRLYGLPVEFSP--------AAKQDPR-WAVINFELEKEPGAP 153
>gnl|CDD|220751 pfam10433, MMS1_N, Mono-functional DNA-alkylating methyl
methanesulfonate N-term. MMS1 is a protein that
protects against replication-dependent DNA damage in
Saccharomyces cerevisiae. MMS1 belongs to the DDB1
family of cullin 4 adaptors and the two proteins are
homologous. MMS1 bridges the interaction of MMS22 and
Crt10 with Cul8/Rtt101. Cul8/Rtt101 is a cullin protein
involved in the regulation of DNA replication
subsequent to DNA damage. The N-terminal region of MMS1
and the C-terminal of MMS22 are required for the the
MMS1-MMS22 interaction. The human HIV-1
virion-associated protein Vpr assembles with DDB1
through interaction with DCAF1 (chromatin assembly
factor) to form an E3 ubiquitin ligase that targets
cellular substrates for proteasome-mediated degradation
and subsequent G2 arrest.
Length = 513
Score = 25.4 bits (56), Expect = 2.1
Identities = 7/43 (16%), Positives = 17/43 (39%)
Query: 1 MAAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVREL 43
++ G H P R +A ++ ++ + + +EL
Sbjct: 39 VSRLEQSGRHIAVDPSGRAMAVSAYSGFFGVYPLQRDNKTQEL 81
>gnl|CDD|223465 COG0388, COG0388, Predicted amidohydrolase [General function
prediction only].
Length = 274
Score = 25.1 bits (55), Expect = 2.2
Identities = 12/64 (18%), Positives = 22/64 (34%)
Query: 2 AAHRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELGTANQRWVWDAAFTLDSK 61
A G + PD +LA ++ + D + + E+ F LD +
Sbjct: 211 AGLEFCGHSAIIDPDGEVLAEAGEEEEGVLLADIDLAELAEVRRKIPVLKDRRRFDLDVE 270
Query: 62 FLLT 65
L +
Sbjct: 271 LLRS 274
>gnl|CDD|118186 pfam09654, DUF2396, Protein of unknown function (DUF2396). These
conserved hypothetical proteins have so far been found
only in the Cyanobacteria. They are about 170 amino
acids long and contain a CxxCx(14)CxxH motif near the
N-terminus.
Length = 161
Score = 25.1 bits (55), Expect = 2.4
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 9/41 (21%)
Query: 4 HRAYGLHCVFSPDCRLLATTSADQTARIWNTEDFSLVRELG 44
R YGL FSP + W+ +F L +E G
Sbjct: 118 PRLYGLPVEFSPP--------PPEDPC-WDVINFDLEKEPG 149
>gnl|CDD|219410 pfam07433, DUF1513, Protein of unknown function (DUF1513). This
family consists of several bacterial proteins of around
360 residues in length. The function of this family is
unknown.
Length = 304
Score = 24.9 bits (55), Expect = 2.9
Identities = 14/20 (70%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 7 YGLHCVFSPDCRLLATTSAD 26
YG H VFSPD RLL TT D
Sbjct: 53 YG-HGVFSPDGRLLYTTEND 71
>gnl|CDD|226021 COG3490, COG3490, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 366
Score = 24.0 bits (52), Expect = 6.4
Identities = 13/23 (56%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 7 YGLHCVFSPDCRLLATTSADQTA 29
YG H VFSPD RLL T D
Sbjct: 116 YG-HGVFSPDGRLLYATENDFDP 137
>gnl|CDD|236198 PRK08243, PRK08243, 4-hydroxybenzoate 3-monooxygenase; Validated.
Length = 392
Score = 23.6 bits (52), Expect = 8.1
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 16 DCRLLATTSADQTARIWNTEDFS 38
D LL SA R+W E FS
Sbjct: 321 DTALLDAYSATALRRVWKAERFS 343
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
0.326 0.132 0.438
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,153,573
Number of extensions: 209559
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 27
Length of query: 65
Length of database: 10,937,602
Length adjustment: 36
Effective length of query: 29
Effective length of database: 9,340,858
Effective search space: 270884882
Effective search space used: 270884882
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 (21.7 bits)
S2: 53 (24.2 bits)