RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15563
(614 letters)
>gnl|CDD|238160 cd00257, Fascin, Fascin-like domain; members include
actin-bundling/crosslinking proteins facsin,
histoactophilin and singed; identified in sea urchin,
Drosophila, Xenopus, rodents, and humans; The
fascin-like domain adopts a beta-trefoil topology and
contains an internal threefold repeat; the fascin
subgroup contains four copies of the domain;
Structurally similar to fibroblast growth factor (FGF).
Length = 119
Score = 106 bits (267), Expect = 2e-27
Identities = 40/121 (33%), Positives = 58/121 (47%), Gaps = 6/121 (4%)
Query: 261 WTIGLINAQFKYLTAETFGFKINANGASLKKKQVWILEPANGGDTLSVYLRSHLGKYLAV 320
+ L + +YL+AE G K++AN SLK + + LE N G LRSH GKYL+
Sbjct: 2 PQVVLRSVNGRYLSAEAGGDKVDANRDSLKGDETFTLEFDNTG---KYALRSHDGKYLSA 58
Query: 321 DSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYFLGAS-SDKLICTAKIPANPEY 379
DS G V E F + +GKWA + + G +LG S L +++ E
Sbjct: 59 DSDGGVQLEGHP-NADCRFTLEFHGDGKWALRAE-NGRYLGGDGSGTLKASSETVGPDEL 116
Query: 380 W 380
+
Sbjct: 117 F 117
Score = 93.1 bits (232), Expect = 1e-22
Identities = 52/143 (36%), Positives = 66/143 (46%), Gaps = 28/143 (19%)
Query: 387 RPQVNLRSVGRKRFAHLSENLDEIHVDANIPWGEDTLFTLEFRAEDSGKYAVHTCNNKYL 446
RPQV LRSV R+ D++ + + G D FTLEF GKYA+ + + KYL
Sbjct: 1 RPQVVLRSV-NGRYLSAEAGGDKVDANRDSLKG-DETFTLEFDNT--GKYALRSHDGKYL 56
Query: 447 S----REGKLVDTCNANCLFSLEYHAGEFCFLYLFIWLRPIRSPATGQIALRDNSGAYLS 502
S +L NA+C F+LE+H G+ ALR +G YL
Sbjct: 57 SADSDGGVQLEGHPNADCRFTLEFH-------------------GDGKWALRAENGRYLG 97
Query: 503 PIGSKAILKTRSNTVTKDELFTL 525
GS LK S TV DELF L
Sbjct: 98 GDGSGT-LKASSETVGPDELFEL 119
Score = 92.3 bits (230), Expect = 2e-22
Identities = 40/147 (27%), Positives = 58/147 (39%), Gaps = 32/147 (21%)
Query: 29 WTIGLINAQFKYLTAETFGFKINANGASLKKKQFKYLTAETFGFKINANGASLKKKQDGV 88
+ L + +YL+AE G K++AN SLK +
Sbjct: 2 PQVVLRSVNGRYLSAEAGGDKVDANRDSLKGDE--------------------------T 35
Query: 89 WILEPANGGDTLSVYLRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNK 148
+ LE N G LRSH GKYL+ DS G V E F + +GKWA + +
Sbjct: 36 FTLEFDNTG---KYALRSHDGKYLSADSDGGVQLEGHP-NADCRFTLEFHGDGKWALRAE 91
Query: 149 TRGYFLGAS-SDKLICTAKIPANPEYW 174
G +LG S L +++ E +
Sbjct: 92 -NGRYLGGDGSGTLKASSETVGPDELF 117
Score = 53.0 bits (128), Expect = 1e-08
Identities = 35/119 (29%), Positives = 47/119 (39%), Gaps = 24/119 (20%)
Query: 489 GQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTLEDSLPQASFIAALNSKYVSVKQ- 547
Q+ LR +G YLS + +++ DE FTLE + + + KY+S
Sbjct: 2 PQVVLRSVNGRYLSAEAGGDKVDANRDSLKGDETFTLEFDNTGKYALRSHDGKYLSADSD 61
Query: 548 ----------------------GQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTL 584
G+ ALR +G YL GS LK S TV DELF L
Sbjct: 62 GGVQLEGHPNADCRFTLEFHGDGKWALRAENGRYLGGDGSGT-LKASSETVGPDELFEL 119
Score = 32.2 bits (74), Expect = 0.20
Identities = 16/57 (28%), Positives = 26/57 (45%)
Query: 548 GQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTLEDSLPQASFIAALNSKYVSV 604
Q+ LR +G YLS + +++ DE FTLE + + + KY+S
Sbjct: 2 PQVVLRSVNGRYLSAEAGGDKVDANRDSLKGDETFTLEFDNTGKYALRSHDGKYLSA 58
>gnl|CDD|203418 pfam06268, Fascin, Fascin domain. This family consists of several
eukaryotic fascin or singed proteins. The fascins are a
structurally unique and evolutionarily conserved group
of actin cross-linking proteins. Fascins function in the
organisation of two major forms of actin-based
structures: dynamic, cortical cell protrusions and
cytoplasmic microfilament bundles. The cortical
structures, which include filopodia, spikes,
lamellipodial ribs, oocyte microvilli and the dendrites
of dendritic cells, have roles in cell-matrix adhesion,
cell interactions and cell migration, whereas the
cytoplasmic actin bundles appear to participate in cell
architecture. Dictyostelium hisactophilin, another
actin-binding protein, is a submembranous pH sensor that
signals slight changes of the H+ concentration to actin
by inducing actin polymerisation and binding to
microfilaments only at pH values below seven. Members of
this family are histidine rich, typically contain the
repeated motif of HHXH.
Length = 108
Score = 90.8 bits (226), Expect = 6e-22
Identities = 39/112 (34%), Positives = 51/112 (45%), Gaps = 8/112 (7%)
Query: 271 KYLTAETFGFKINANGASLKKKQVWILEPANGGDTLSVYLRSHLGKYLAVDSFGNVTCEA 330
YL A G +NAN S Q++ LE +G + LRSH GKYL+ DS G V EA
Sbjct: 3 GYLVARKRGAHLNANRESESAVQLFTLEFNDGSYS----LRSHDGKYLSADSDGRVVSEA 58
Query: 331 DEKEPGSLFQIHVSDEGKWAFKNKTRGYFLGAS-SDKLICTAKIPANPEYWL 381
E P + F++ G WA + G +LG + L A E W
Sbjct: 59 -ETSPDTRFELE--FRGGWALLRDSNGRYLGGGPNGLLKANASTVGKDELWT 107
Score = 85.8 bits (213), Expect = 3e-20
Identities = 39/114 (34%), Positives = 51/114 (44%), Gaps = 10/114 (8%)
Query: 63 KYLTAETFGFKINANGASLKKKQDGVWILEPANGGDTLSVYLRSHLGKYLAVDSFGNVTC 122
YL A G +NAN S Q ++ LE +G +L RSH GKYL+ DS G V
Sbjct: 3 GYLVARKRGAHLNANRESESAVQ--LFTLEFNDGSYSL----RSHDGKYLSADSDGRVVS 56
Query: 123 EADEKEPGSLFQIHVSDEGKWAFKNKTRGYFLGAS-SDKLICTAKIPANPEYWL 175
EA E P + F++ G WA + G +LG + L A E W
Sbjct: 57 EA-ETSPDTRFELE--FRGGWALLRDSNGRYLGGGPNGLLKANASTVGKDELWT 107
Score = 76.2 bits (188), Expect = 8e-17
Identities = 47/141 (33%), Positives = 65/141 (46%), Gaps = 38/141 (26%)
Query: 390 VNLRSVGRKRFAHLSEN-LDEIHVDANIPWGEDTLFTLEFRAEDSGKYAVHTCNNKYLSR 448
N V RKR AHL+ N E V LFTLEF + G Y++ + + KYLS
Sbjct: 1 ANGYLVARKRGAHLNANRESESAVQ---------LFTLEF---NDGSYSLRSHDGKYLSA 48
Query: 449 E--GKLVDTC--NANCLFSLEYHAGEFCFLYLFIWLRPIRSPATGQIALRDNSGAYLSPI 504
+ G++V + + F LE+ G W LRD++G YL
Sbjct: 49 DSDGRVVSEAETSPDTRFELEFRGG---------W-----------ALLRDSNGRYLG-G 87
Query: 505 GSKAILKTRSNTVTKDELFTL 525
G +LK ++TV KDEL+TL
Sbjct: 88 GPNGLLKANASTVGKDELWTL 108
Score = 38.4 bits (90), Expect = 0.001
Identities = 28/100 (28%), Positives = 43/100 (43%), Gaps = 24/100 (24%)
Query: 507 KAILKTRSNTVTKDELFTLEDSLPQASFIAALNSKYVSVKQ------------------- 547
A L + + +LFTLE + + + + + KY+S
Sbjct: 11 GAHLNANRESESAVQLFTLEFN-DGSYSLRSHDGKYLSADSDGRVVSEAETSPDTRFELE 69
Query: 548 ---GQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTL 584
G LRD++G YL G +LK ++TV KDEL+TL
Sbjct: 70 FRGGWALLRDSNGRYLG-GGPNGLLKANASTVGKDELWTL 108
>gnl|CDD|148061 pfam06229, FRG1, FRG1-like family. The human FRG1 gene maps to
human chromosome 4q35 and has been identified as a
candidate for facioscapulohumeral muscular dystrophy.
Currently, the function of FRG1 is unknown.
Length = 189
Score = 33.2 bits (76), Expect = 0.22
Identities = 21/80 (26%), Positives = 30/80 (37%), Gaps = 5/80 (6%)
Query: 293 QVWILEPANGGDTLSVYLRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFK 352
+V+ A + +S GKYL D G ++ +D P F+ V EGK A
Sbjct: 28 EVFT---AVKVGDEKISFKSGYGKYLGCDKDGILSARSDAIGPREQFEP-VFQEGKPALL 83
Query: 353 NKTRGYFLGASSDKLICTAK 372
+ G FL I
Sbjct: 84 -ASNGCFLSVDEAGDIVAKS 102
Score = 31.3 bits (71), Expect = 0.95
Identities = 20/73 (27%), Positives = 27/73 (36%), Gaps = 2/73 (2%)
Query: 94 ANGGDTLSVYLRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYF 153
A + +S GKYL D G ++ +D P F+ V EGK A + G F
Sbjct: 32 AVKVGDEKISFKSGYGKYLGCDKDGILSARSDAIGPREQFEP-VFQEGKPALL-ASNGCF 89
Query: 154 LGASSDKLICTAK 166
L I
Sbjct: 90 LSVDEAGDIVAKS 102
>gnl|CDD|220127 pfam09149, DUF1935, Domain of unknown function (DUF1935). Members
of this family are found in various bacterial and
eukaryotic hypothetical proteins, as well as in the
cysteine protease calpain. Their exact function has not,
as yet, been defined.
Length = 97
Score = 31.0 bits (71), Expect = 0.46
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 117 FGNVTCEADE-----KEPGSLFQIHVSDEGKWAFKNKTRGY 152
G + + E KE G LF+I G+WAF N T+ Y
Sbjct: 2 NGGPSVKGGEVTPCFKEGGLLFRIVDEKGGRWAFYNDTKDY 42
Score = 31.0 bits (71), Expect = 0.46
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 323 FGNVTCEADE-----KEPGSLFQIHVSDEGKWAFKNKTRGY 358
G + + E KE G LF+I G+WAF N T+ Y
Sbjct: 2 NGGPSVKGGEVTPCFKEGGLLFRIVDEKGGRWAFYNDTKDY 42
>gnl|CDD|99806 cd06210, MMO_FAD_NAD_binding, Methane monooxygenase (MMO) reductase
of methanotrophs catalyzes the NADH-dependent
hydroxylation of methane to methanol. This
multicomponent enzyme mediates electron transfer via a
hydroxylase (MMOH), a coupling protein, and a reductase
which is comprised of an N-terminal [2Fe-2S] ferredoxin
domain, an FAD binding subdomain, and an NADH binding
subdomain. Oxygenases oxidize hydrocarbons using
dioxygen as the oxidant. Dioxygenases add both atom of
oxygen to the substrate, while mono-oxygenases add one
atom to the substrate and one atom to water.
Length = 236
Score = 30.4 bits (69), Expect = 2.1
Identities = 9/36 (25%), Positives = 13/36 (36%), Gaps = 8/36 (22%)
Query: 174 WLAHLAARPQLRSCGSPP--------CASIGLPSSR 201
LA A+P + CG P G+P +
Sbjct: 194 DLASSDAKPDIYLCGPPGMVDAAFAAAREAGVPDEQ 229
>gnl|CDD|215764 pfam00167, FGF, Fibroblast growth factor. Fibroblast growth
factors are a family of proteins involved in growth and
differentiation in a wide range of contexts. They are
found in a wide range of organisms, from nematodes to
humans. Most share an internal core region of high
similarity, conserved residues in which are involved in
binding with their receptors. On binding, they cause
dimerisation of their tyrosine kinase receptors leading
to intracellular signalling. There are currently four
known tyrosine kinase receptors for fibroblast growth
factors. These receptors can each bind several different
members of this family. Members of this family have a
beta trefoil structure. Most have N-terminal signal
peptides and are secreted. A few lack signal sequences
but are secreted anyway; still others also lack the
signal peptide but are found on the cell surface and
within the extracellular matrix. A third group remain
intracellular. They have central roles in development,
regulating cell proliferation, migration and
differentiation. On the other hand, they are important
in tissue repair following injury in adult organisms.
Length = 122
Score = 29.0 bits (66), Expect = 3.0
Identities = 13/51 (25%), Positives = 19/51 (37%)
Query: 104 LRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYFL 154
L G +L + G V D+ P SL +I G + G +L
Sbjct: 5 LYCRTGFFLQILPDGKVDGTRDDNSPYSLLEIESVSVGVVLIRGVESGLYL 55
Score = 29.0 bits (66), Expect = 3.0
Identities = 13/51 (25%), Positives = 19/51 (37%)
Query: 310 LRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYFL 360
L G +L + G V D+ P SL +I G + G +L
Sbjct: 5 LYCRTGFFLQILPDGKVDGTRDDNSPYSLLEIESVSVGVVLIRGVESGLYL 55
>gnl|CDD|223756 COG0684, MenG, Demethylmenaquinone methyltransferase [Coenzyme
metabolism].
Length = 210
Score = 29.2 bits (66), Expect = 4.5
Identities = 12/56 (21%), Positives = 19/56 (33%)
Query: 543 VSVKQGQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTLEDSLPQASFIAALN 598
V+V G I + D G + P + + + E F E + I L
Sbjct: 149 VTVNPGDIVVADADGVVVVPAELADEVAEAAKEIKAKEDFIREAIAQGRTLIEILP 204
>gnl|CDD|224684 COG1770, PtrB, Protease II [Amino acid transport and metabolism].
Length = 682
Score = 29.6 bits (67), Expect = 6.2
Identities = 25/145 (17%), Positives = 44/145 (30%), Gaps = 10/145 (6%)
Query: 296 ILEPANGGDTLSVYLRSHLGKYLAVDSFGNVTCE---ADEKEPGSLFQ-IHVSDEGKWAF 351
+ E + LSV RS Y+ + ++T E D +P + + + + G
Sbjct: 217 VYEEKDDRFFLSVG-RSRSEAYIVISLGSHITSEVRLLDADDPEAEPKVVLPRENGVEYS 275
Query: 352 KNKTRGYFLGASSDK----LICTAKIPANPEYWLAHLAARPQVNLRSV-GRKRFAHLSEN 406
F S+ + A + A+ W + R V L V L E
Sbjct: 276 VEHGGDRFYILSNADGKNFKLVRAPVSADKSNWRELIPHREDVRLEGVDLFADHLVLLER 335
Query: 407 LDEIHVDANIPWGEDTLFTLEFRAE 431
+ + + F E
Sbjct: 336 QEGLPRVVVRDRKTGEERGIAFDDE 360
>gnl|CDD|214665 smart00442, FGF, Acidic and basic fibroblast growth factor family.
Mitogens that stimulate growth or differentiation of
cells of mesodermal or neuroectodermal origin. The
family play essential roles in patterning and
differentiation during vertebrate embryogenesis, and
have neurotrophic activities.
Length = 126
Score = 28.0 bits (63), Expect = 8.0
Identities = 12/58 (20%), Positives = 20/58 (34%)
Query: 102 VYLRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYFLGASSD 159
L G++L + G V DE ++ +I G A K +L +
Sbjct: 5 RQLYCRNGQHLQILPDGTVDGTRDESSSFTILEIIAVAVGVVAIKGVASCRYLCMNKC 62
Score = 28.0 bits (63), Expect = 8.0
Identities = 12/58 (20%), Positives = 20/58 (34%)
Query: 308 VYLRSHLGKYLAVDSFGNVTCEADEKEPGSLFQIHVSDEGKWAFKNKTRGYFLGASSD 365
L G++L + G V DE ++ +I G A K +L +
Sbjct: 5 RQLYCRNGQHLQILPDGTVDGTRDESSSFTILEIIAVAVGVVAIKGVASCRYLCMNKC 62
>gnl|CDD|218690 pfam05683, Fumerase_C, Fumarase C-terminus. This family consists
of the C terminal region of several bacterial fumarate
hydratase proteins (FumA and FumB). Fumarase, or
fumarate hydratase (EC 4.2.1.2), is a component of the
citric acid cycle. In facultative anaerobes such as
Escherichia coli, fumarase also engages in the reductive
pathway from oxaloacetate to succinate during anaerobic
growth.
Length = 205
Score = 28.3 bits (64), Expect = 8.9
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 484 RSPATGQIALRDNSGAYLSPIGSKAILKTRSNTVTKDELFTLED 527
R PA + A++ + YL IG A L S + K E+ E+
Sbjct: 131 RGPAVIE-AIKKHGAVYLGAIGGAAYLV--SKAIKKVEVVAFEE 171
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
0.317 0.134 0.404
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 30,890,120
Number of extensions: 2979584
Number of successful extensions: 2013
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1984
Number of HSP's successfully gapped: 25
Length of query: 614
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 511
Effective length of database: 6,369,140
Effective search space: 3254630540
Effective search space used: 3254630540
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 (27.6 bits)