RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8088
(282 letters)
>gnl|CDD|200445 cd11289, gelsolin_S2_like, Gelsolin sub-domain 2-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 92
Score = 118 bits (298), Expect = 5e-34
Identities = 38/93 (40%), Positives = 57/93 (61%), Gaps = 1/93 (1%)
Query: 65 EKKLYQIKGKKNIRVRQVALSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAISVAN 124
+ +L +KG++N+R R+V LS S+N GD F LD G + + GSK+ R E+ KA+ +A
Sbjct: 1 KPRLLHVKGRRNVRAREVELSWSSLNSGDVFILDLGSTIYQWNGSKSNRFEKAKAMQLAQ 60
Query: 125 QIRDQDHNGRATVSIIDENSSPVEVTRFFTELG 157
IRD+ GRA V ++DE + E F+ LG
Sbjct: 61 GIRDERRLGRAKVIVLDEGDTN-ESPEFWKVLG 92
Score = 42.6 bits (101), Expect = 1e-05
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 203 QIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEKVEGLKRGQA 248
++ L+ SLN GD FILD S IY W G S EK + ++ Q
Sbjct: 17 EVELSWSSLNSGDVFILDL-GSTIYQWNGSKSNRFEKAKAMQLAQG 61
>gnl|CDD|200448 cd11292, gelsolin_S3_like, Gelsolin sub-domain 3-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 98
Score = 85.0 bits (211), Expect = 4e-21
Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 182 KAVKLYKISDASGNVKSELIEQIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEKVE 241
+ KLYK+SDASG +K + + L Q+ L+ D +ILD S I+VW+GK ++ E+
Sbjct: 2 EQKKLYKVSDASGKLKLTEVAEGSLNQEMLDSEDCYILDCG-SEIFVWVGKGASLDERKA 60
Query: 242 GLKRGQAFLTNNNYPAWTK 260
LK + FL P +T+
Sbjct: 61 ALKNAEEFLRKKKRPPYTQ 79
Score = 49.6 bits (119), Expect = 5e-08
Identities = 25/94 (26%), Positives = 45/94 (47%), Gaps = 5/94 (5%)
Query: 65 EKKLYQIK-GKKNIRVRQVA---LSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAI 120
+KKLY++ +++ +VA L+ ++ DC+ LD G E+ V+VG A+ ER A+
Sbjct: 3 QKKLYKVSDASGKLKLTEVAEGSLNQEMLDSEDCYILDCGSEIFVWVGKGASLDERKAAL 62
Query: 121 SVANQ-IRDQDHNGRATVSIIDENSSPVEVTRFF 153
A + +R + V+ + E F
Sbjct: 63 KNAEEFLRKKKRPPYTQVTRVTEGGESALFKSKF 96
>gnl|CDD|214590 smart00262, GEL, Gelsolin homology domain. Gelsolin/severin/villin
homology domain. Calcium-binding and actin-binding. Both
intra- and extracellular domains.
Length = 90
Score = 83.5 bits (207), Expect = 1e-20
Identities = 36/87 (41%), Positives = 54/87 (62%)
Query: 67 KLYQIKGKKNIRVRQVALSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAISVANQI 126
L ++KGK+N+RV +V S GS+N GDC+ LDTG E+ V+VG K+++ E+ KA +A ++
Sbjct: 1 FLVRVKGKRNVRVPEVPFSQGSLNSGDCYILDTGSEIYVWVGKKSSQDEKKKAAELAVEL 60
Query: 127 RDQDHNGRATVSIIDENSSPVEVTRFF 153
D G V ++DE P E F
Sbjct: 61 DDTLGPGPVQVRVVDEGKEPPEFWSLF 87
Score = 58.8 bits (143), Expect = 2e-11
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 188 KISDASGNVKSELIEQIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEKVEGLKRGQ 247
+ G + E +P +Q SLN GD +ILDT S IYVW+GK S+ EK + +
Sbjct: 1 FLVRVKGKRNVRVPE-VPFSQGSLNSGDCYILDT-GSEIYVWVGKKSSQDEKKKAAELAV 58
Query: 248 AFLTN 252
Sbjct: 59 ELDDT 63
>gnl|CDD|201354 pfam00626, Gelsolin, Gelsolin repeat.
Length = 76
Score = 55.8 bits (135), Expect = 2e-10
Identities = 22/72 (30%), Positives = 35/72 (48%)
Query: 75 KNIRVRQVALSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAISVANQIRDQDHNGR 134
+ V LS S+N GDC+ LDTG + ++VG ++ E+L A +A QI +
Sbjct: 1 NFVLPPPVPLSQESLNSGDCYLLDTGFTIFLWVGKGSSPDEKLFAALLAAQIDLDERFPL 60
Query: 135 ATVSIIDENSSP 146
V + + P
Sbjct: 61 PEVDRVVQGKEP 72
Score = 43.8 bits (104), Expect = 3e-06
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 197 KSELIEQIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEKVEGLKRGQAFLTNNNYP 256
L +PL+Q+SLN GD ++LDT I++W+GK S+ EK+ + +P
Sbjct: 1 NFVLPPPVPLSQESLNSGDCYLLDT-GFTIFLWVGKGSSPDEKLFAALLAAQIDLDERFP 59
>gnl|CDD|200436 cd11280, gelsolin_like, Tandemly repeated domains found in
gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 88
Score = 54.7 bits (132), Expect = 6e-10
Identities = 24/86 (27%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 68 LYQIKGKKNIRVRQVALSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAISVANQIR 127
LY+++G K I + +V L+ S++ D F LDTG E+ ++ G +++ E A +A ++
Sbjct: 4 LYRVRGSKAIEIEEVPLASSSLDSDDVFVLDTGSEIYIWQGRASSQAELAAAALLAKELD 63
Query: 128 DQDHNGRATVSIIDENSSPVEVTRFF 153
++ G+ + I + P E F
Sbjct: 64 EER-KGKPEIVRIRQGQEPREFWSLF 88
Score = 42.0 bits (99), Expect = 2e-05
Identities = 23/54 (42%), Positives = 34/54 (62%), Gaps = 5/54 (9%)
Query: 186 LYKISDASGNVKSELIEQIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEK 239
LY++ S ++ IE++PLA SL+ D F+LDT S IY+W G+ S+ AE
Sbjct: 4 LYRVR-GSKAIE---IEEVPLASSSLDSDDVFVLDT-GSEIYIWQGRASSQAEL 52
>gnl|CDD|200444 cd11288, gelsolin_S5_like, Gelsolin sub-domain 5-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 92
Score = 52.6 bits (127), Expect = 3e-09
Identities = 29/97 (29%), Positives = 47/97 (48%), Gaps = 10/97 (10%)
Query: 67 KLYQIKG--KKNIRVRQVALSVGSMNKGDCFALDTGREVLVYVGSKAARTERLKAISVAN 124
+L+Q++G N R +V S+N D F L T V ++VG ++ ER A VA+
Sbjct: 4 RLFQVRGNGSGNTRAVEVDADASSLNSNDVFVLKTPSSVYLWVGKGSSEDERELAKDVAS 63
Query: 125 QIRDQDHNGRATVSIIDENSSPVEVTRFFTELGSGSN 161
++ +A++ + E S P E F+ LG S
Sbjct: 64 FLKP-----KASLQEVAEGSEPDE---FWEALGGKSE 92
Score = 38.4 bits (90), Expect = 4e-04
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 203 QIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEK 239
++ SLN D F+L T S +Y+W+GK S+ E+
Sbjct: 20 EVDADASSLNSNDVFVLKTP-SSVYLWVGKGSSEDER 55
>gnl|CDD|200447 cd11291, gelsolin_S6_like, Gelsolin sub-domain 6-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 99
Score = 51.5 bits (124), Expect = 1e-08
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 7/92 (7%)
Query: 185 KLYKISDASGNVKSELIEQIPLAQKSLNQGDTFILDTVTSGIYVWIGKDSTTAEKVEGLK 244
+L++ S+ SG K E E +Q L+ D +LDT ++VW+G +S+ EK E L
Sbjct: 3 RLFRCSNESGFFKVE--EISDFSQDDLDTDDIMLLDT-GDEVFVWVGSESSDEEKKEALT 59
Query: 245 RGQAFLTNNNYPAWTKTGEIKTSLEVWAEEKE 276
+ ++ + + +T + + + E
Sbjct: 60 SAKKYIETDP----LGRSKPRTPIYLVKQGNE 87
Score = 40.4 bits (95), Expect = 8e-05
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 89 MNKGDCFALDTGREVLVYVGSKAARTERLKAISVANQI----RDQDHNGRATVSIIDENS 144
++ D LDTG EV V+VGS+++ E+ +A++ A + R + ++ + +
Sbjct: 27 LDTDDIMLLDTGDEVFVWVGSESSDEEKKEALTSAKKYIETDPLGRSKPRTPIYLVKQGN 86
Query: 145 SPVEVTRFF 153
P T +F
Sbjct: 87 EPPTFTGYF 95
>gnl|CDD|153198 cd04926, ACT_ACR_4, C-terminal ACT domain, of a novel type of ACT
domain-containing protein which is composed almost
entirely of four ACT domain repeats (the "ACR" protein).
This CD includes the C-terminal ACT domain, of a novel
type of ACT domain-containing protein which is composed
almost entirely of four ACT domain repeats (the "ACR"
protein). ACR proteins, found only in Arabidopsis and
Oryza, as yet, are proposed to function as novel
regulatory or sensor proteins in plants. Nine ACR gene
products have been described (ACR1-8 in Arabidopsis and
OsARC1-9 in Oryza) and are represented in this CD.
Members of this CD belong to the superfamily of ACT
regulatory domains.
Length = 72
Score = 29.2 bits (66), Expect = 0.42
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 174 AEFETKQDKAVKLYKISDASGN-VKSELIEQI 204
AE T+ D AV ++ ++DA+GN V + IE +
Sbjct: 32 AEISTQGDMAVNVFYVTDANGNPVDPKTIEAV 63
>gnl|CDD|200449 cd11293, gelsolin_S4_like, Gelsolin sub-domain 4-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 101
Score = 29.5 bits (67), Expect = 0.62
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 13/63 (20%)
Query: 191 DASGNVKSELI---EQIPLAQKSLNQ---GDTFI-LDTVTSG------IYVWIGKDSTTA 237
D SG V+ I E++P+ ++ Q GD +I L T G +Y W G+ S+
Sbjct: 4 DGSGKVEVWRIENDEKVPVPKEEYGQFYGGDCYIVLYTYQGGGKEEHILYFWQGRHSSQD 63
Query: 238 EKV 240
E+
Sbjct: 64 ERA 66
>gnl|CDD|129815 TIGR00732, dprA, DNA protecting protein DprA. Disruption of this
gene in both Haemophilus influenzae and Helicobacter
pylori drastically reduces the efficiency of
transformation with exogenous DNA, but with different
levels of effect on chromosomal (linear) and plasmid
(circular) DNA. This difference suggests the DprA is not
active in recombination, and it has been shown not to
affect DNA binding, leaving the intermediate step in
natural transformation, DNA processing. In Strep.
pneumoniae, inactivation of dprA had no effect on the
uptake of DNA. All of these data indicated that DprA is
required at a later stage in transformation.
Subsequently DprA and RecA were both shown in S.
pneumoniae to be required to protect incoming ssDNA from
immediate degradation. Role of DprA in non-transformable
species is not known. The gene symbol smf was assigned
in E. coli, but without assignment of function [Cellular
processes, DNA transformation].
Length = 220
Score = 27.7 bits (62), Expect = 6.3
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 79 VRQVALSVGSMNKGDCFALDTGREVLVYVGS 109
V + L G++ AL+ GREV Y G
Sbjct: 161 VVEAPLKSGALITARY-ALEQGREVFAYPGD 190
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 27.8 bits (62), Expect = 7.9
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 13/56 (23%)
Query: 101 REVLVYVGSKAARTERLKAISVANQI----RDQDHNGRATVSIIDENSSPVEVTRF 152
+ VLV S ER KA VA I RDQ G+ + ++D VTRF
Sbjct: 218 KAVLVVATSDRPSMERAKAGFVATSIAEYFRDQ---GKRVLLLMD------SVTRF 264
>gnl|CDD|218883 pfam06075, DUF936, Plant protein of unknown function (DUF936).
This family consists of several hypothetical proteins
from Arabidopsis thaliana and Oryza sativa. The function
of this family is unknown.
Length = 564
Score = 27.5 bits (61), Expect = 9.2
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 96 ALDTGREVLVYVGSKAARTERLKAISVANQIRDQDHNGRATVSIIDENSSPVEVTRFFTE 155
AL T G ++ R+ LK + R D ++V I + E +R E
Sbjct: 419 ALATDLSPFSLSGKESKRSTSLKKLVPPKTSRSNDEGRSSSVGSIKGSGLK-ESSRLAKE 477
Query: 156 LGSGSNN 162
L S S +
Sbjct: 478 LKSESQS 484
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
0.311 0.128 0.359
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,849,120
Number of extensions: 1284141
Number of successful extensions: 787
Number of sequences better than 10.0: 1
Number of HSP's gapped: 781
Number of HSP's successfully gapped: 27
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.1 bits)