RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1142
(442 letters)
>gnl|CDD|197882 smart00804, TAP_C, C-terminal domain of vertebrate Tap protein.
The vertebrate Tap protein is a member of the NXF family
of shuttling transport receptors for the nuclear export
of mRNA. Its most C-terminal domain is important for
binding to FG repeat-containing nuclear pore proteins
(FG-nucleoporins) and is sufficient to mediate
shuttling. This domain forms a compact four-helix fold
related to that of a UBA domain.
Length = 63
Score = 75.0 bits (185), Expect = 4e-17
Identities = 22/53 (41%), Positives = 36/53 (67%)
Query: 390 IKQNMVKALSQVSGMNLNFSEKCLNEVQWDYDQAVTIFNQLKAKNALPSEAFI 442
+Q MV+A S +GMN +S+ CL + WDY++A+ F +LK++ ++P EAF
Sbjct: 11 EQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPEAFA 63
>gnl|CDD|112742 pfam03943, TAP_C, TAP C-terminal domain. The vertebrate Tap
protein is a member of the NXF family of shuttling
transport receptors for nuclear export of mRNA. Tap has
a modular structure, and its most C-terminal domain is
important for binding to FG repeat-containing nuclear
pore proteins (FG-nucleoporins) and is sufficient to
mediate nuclear shuttling. The structure of the
C-terminal domain is composed of four helices. The
structure is related to the UBA domain.
Length = 51
Score = 65.6 bits (160), Expect = 6e-14
Identities = 26/50 (52%), Positives = 37/50 (74%)
Query: 392 QNMVKALSQVSGMNLNFSEKCLNEVQWDYDQAVTIFNQLKAKNALPSEAF 441
Q MV+A S SGMNL +S+KCL + WDY++A F +LK++N +P+EAF
Sbjct: 1 QEMVQAFSAQSGMNLEWSQKCLEDNNWDYNRAAQAFTELKSENKIPAEAF 50
>gnl|CDD|238403 cd00780, NTF2, Nuclear transport factor 2 (NTF2) domain plays an
important role in the trafficking of macromolecules,
ions and small molecules between the cytoplasm and
nucleus. This bi-directional transport of macromolecules
across the nuclear envelope requires many soluble
factors that includes GDP-binding protein Ran (RanGDP).
RanGDP is required for both import and export of
proteins and poly(A) RNA. RanGDP also has been
implicated in cell cycle control, specifically in
mitotic spindle assembly. In interphase cells, RanGDP is
predominately nuclear and thought to be GTP bound, but
it is also present in the cytoplasm, probably in the
GDP-bound state. NTF2 mediates the nuclear import of
RanGDP. NTF2 binds to both RanGDP and FxFG
repeat-containing nucleoporins.
Length = 119
Score = 65.4 bits (160), Expect = 4e-13
Identities = 33/157 (21%), Positives = 54/157 (34%), Gaps = 43/157 (27%)
Query: 205 DILRAFLEQYFALFDTESRAGLIDAYHENAQYSLVVTQGLGNNHLLNNMLANSRNLLRIE 264
D+ +AF++QY+++FD R GL Y + + S +
Sbjct: 4 DVAKAFVQQYYSIFDNN-REGLHRLYGDTSMLSREGMK---------------------- 40
Query: 265 EPQRQKSLLSVGKADILRALRFLPA--TKHDLLSFTCDCPLYTPGLIQFSVCGLYEEITT 322
G+ I+ L LP TKH + + G + V G
Sbjct: 41 --------QVTGRDAIVEKLSSLPFQKTKHKITTVDSQ--PTPSGGVIVMVTGS------ 84
Query: 323 GTKNKSKLIRAFNRAFLLVPRSGGGFAITNDQLFITS 359
K + R F++ F+L P GG+ + ND
Sbjct: 85 -LKLDEQPPRKFSQTFVLAP-QNGGYFVLNDIFRFVD 119
>gnl|CDD|238296 cd00531, NTF2_like, Nuclear transport factor 2 (NTF2-like)
superfamily. This family includes members of the NTF2
family, Delta-5-3-ketosteroid isomerases, Scytalone
Dehydratases, and the beta subunit of Ring hydroxylating
dioxygenases. This family is a classic example of
divergent evolution wherein the proteins have many
common structural details but diverge greatly in their
function. For example, nuclear transport factor 2
(NTF2) mediates the nuclear import of RanGDP and binds
to both RanGDP and FxFG repeat-containing nucleoporins
while Ketosteroid isomerases catalyze the isomerization
of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by
intramolecular transfer of the C4-beta proton to the
C6-beta position. While the function of the beta
sub-unit of the Ring hydroxylating dioxygenases is not
known, Scytalone Dehydratases catalyzes two reactions in
the biosynthetic pathway that produces fungal melanin.
Members of the NTF2-like superfamily are widely
distributed among bacteria, archaea and eukaryotes.
Length = 124
Score = 54.1 bits (130), Expect = 4e-09
Identities = 32/153 (20%), Positives = 50/153 (32%), Gaps = 34/153 (22%)
Query: 208 RAFLEQYFALFDTESRAGLIDAYHENAQYSLVVTQGLGNNHLLNNMLANSRNLLRIEEPQ 267
FL +Y L D R L Y ++A + GL
Sbjct: 2 EQFLYRYARLLDAGDREWLALLYADDAYFEPPGGDGLIYPD------------------- 42
Query: 268 RQKSLLSVGKADI---LRALRFLPATKHDLLSFTCDCPLYTPGLIQFSVCGLYEEITTGT 324
G+ I +R L F P+ L+S P + SV G+
Sbjct: 43 -------DGREAIEDRVRRLPFGPSRTRHLVSNVDVQPGDDGEGVVVSVFGVLR----TR 91
Query: 325 KNKSKLIRAFNRAFLLVPRSGGGFAITNDQLFI 357
+ + + A + F+L P+ GGG I N + +
Sbjct: 92 GDGEQDVFAGGQTFVLRPQGGGGK-IANRRFRL 123
>gnl|CDD|216894 pfam02136, NTF2, Nuclear transport factor 2 (NTF2) domain. This
family includes the NTF2-like Delta-5-3-ketosteroid
isomerase proteins.
Length = 116
Score = 44.7 bits (106), Expect = 6e-06
Identities = 31/149 (20%), Positives = 49/149 (32%), Gaps = 38/149 (25%)
Query: 206 ILRAFLEQYFALFDTESRAGLIDAYHENAQYSLVVTQGLGNNHLLNNMLANSRNLLRIEE 265
+ AF+++Y+A D GL Y+++A S+ G
Sbjct: 1 VALAFVQRYYAALDAGDPEGLAALYYDDA--SVEDPPG---------------------- 36
Query: 266 PQRQKSLLSVGKADILRALRFLPATKHDLLSFTCDC-PLYTPGLIQFSVCGLYEEITTGT 324
G+ I LP T+ L + D P + V G
Sbjct: 37 -----QSPVTGREAINEFFDSLPFTRIQHLITSVDAQPASHSDGVLVMVTGEL------- 84
Query: 325 KNKSKLIRAFNRAFLLVPRSGGGFAITND 353
R F++ FLL P+ GG+ + ND
Sbjct: 85 TVDDFPRRRFSQTFLLTPQ-RGGYFVLND 112
>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies). Leucine rich
repeats are short sequence motifs present in a number of
proteins with diverse functions and cellular locations.
These repeats are usually involved in protein-protein
interactions. Each Leucine Rich Repeat is composed of a
beta-alpha unit. These units form elongated non-globular
structures. Leucine Rich Repeats are often flanked by
cysteine rich domains.
Length = 43
Score = 33.6 bits (78), Expect = 0.010
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 110 PRVKILYLAHNNIKDLATIRTLESLSNLEELRLEKNP 146
++ L L++N I D + L +L NLE L L N
Sbjct: 1 TNLETLDLSNNQITD---LPPLSNLPNLETLDLSGNK 34
>gnl|CDD|226974 COG4626, COG4626, Phage terminase-like protein, large subunit
[General function prediction only].
Length = 546
Score = 37.0 bits (86), Expect = 0.017
Identities = 25/119 (21%), Positives = 40/119 (33%), Gaps = 21/119 (17%)
Query: 267 QRQKSLL--SVGKADILRALRFLPATKHDLLSFTCDCPLYTPGLIQFSVCGLYEEITTGT 324
+R S L + RA+ + + P +F V L+ G
Sbjct: 22 KRHLSDLPAPIYPEQAERAIAIFEQLRIVDGPGSPGFPESLEPWQKFIVAALF-----GF 76
Query: 325 KNKSKLIRAFNRAFLLVPRSGG--GFAIT------------NDQLFITSATPEQAEKAF 369
+K IR F AF+ +PR G A ++I + + EQA +F
Sbjct: 77 YDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSF 135
>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease
inhibitor (RI)-like subfamily. LRRs are 20-29 residue
sequence motifs present in many proteins that
participate in protein-protein interactions and have
different functions and cellular locations. LRRs
correspond to structural units consisting of a beta
strand (LxxLxLxxN/CxL conserved pattern) and an alpha
helix. This alignment contains 12 strands corresponding
to 11 full repeats, consistent with the extent observed
in the subfamily acting as Ran GTPase Activating
Proteins (RanGAP1).
Length = 319
Score = 34.3 bits (79), Expect = 0.10
Identities = 25/71 (35%), Positives = 30/71 (42%), Gaps = 7/71 (9%)
Query: 81 ENLPDLFALNLSENKLYYPESLISLAKV---IPRVKILYLAHNNIKDLATIRTLESL--- 134
+ P L L L N+L S +LAK +K L LA+N I D E L
Sbjct: 134 DLPPALEKLVLGRNRLEG-ASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKAN 192
Query: 135 SNLEELRLEKN 145
NLE L L N
Sbjct: 193 CNLEVLDLNNN 203
>gnl|CDD|226051 COG3520, COG3520, Predicted component of the type VI protein
secretion system [Intracellular trafficking, secretion,
and vesicular transport].
Length = 335
Score = 33.9 bits (78), Expect = 0.16
Identities = 30/106 (28%), Positives = 38/106 (35%), Gaps = 17/106 (16%)
Query: 205 DILRAFLEQYFAL-FDTESRAGLIDAYHENAQYSLVVTQGLGNNHLLNNMLANSRNLLRI 263
+ L L YF + E G + Q L G N+ L N + SR
Sbjct: 190 EGLAGLLAHYFDVPVRVEQFVGRWVDIPPSQQSRL----GGANSRLGRNAVIGSR----- 240
Query: 264 EEPQRQ-KSLLSVGKADILRALRFLPATKH-----DLLSFTCDCPL 303
RQ K LS+G D + LRFLP K L+ F L
Sbjct: 241 -VWDRQGKFRLSIGPLDRAQYLRFLPGGKRLGPLFKLVRFYLGEQL 285
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 30.6 bits (70), Expect = 0.19
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 89 LNLSENKLYY--PESLISLAKVIPRVKILYLAHNNIKDLATIRTLESLSNLEELRLEKNP 146
L+LS N+L + L P +K+L L+ NN+ ++ L +L L L N
Sbjct: 5 LDLSNNRLTVIPDGAFKGL----PNLKVLDLSGNNLTSISP-EAFSGLPSLRSLDLSGNN 59
Score = 29.8 bits (68), Expect = 0.33
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 111 RVKILYLAHNNIKDLATIRTLESLSNLEELRLEKN 145
+K L L++N + + + L NL+ L L N
Sbjct: 1 NLKSLDLSNNRLTVIPD-GAFKGLPNLKVLDLSGN 34
Score = 29.0 bits (66), Expect = 0.55
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 68 RSNVMTSVCNIINENLPDLFALNLSENKL--YYPESLISLAKVIPRVKILYLAHNNI 122
+N +T + + + LP+L L+LS N L PE+ L P ++ L L+ NN+
Sbjct: 8 SNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGL----PSLRSLDLSGNNL 60
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 33.4 bits (76), Expect = 0.23
Identities = 27/70 (38%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 81 ENLPDLFALNLSENKLYYPESLISLAKVIPRVKILYLAHNNIKDLATIRTLESLSNLEEL 140
NLP+L L+LS N L L L + + L L+ N I DL +E LS LEEL
Sbjct: 160 RNLPNLKNLDLSFNDL---SDLPKLLSNLSNLNNLDLSGNKISDLPP--EIELLSALEEL 214
Query: 141 RLEKNPWTEC 150
L N E
Sbjct: 215 DLSNNSIIEL 224
Score = 32.2 bits (73), Expect = 0.47
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 4/68 (5%)
Query: 82 NLPDLFALNLSENKLYYPESLISLAKVIPRVKILYLAHNNIKDLATIRTLESLSNLEELR 141
L +L +L+L N + LI L K +K L L+ N I+ L + L +L NL+ L
Sbjct: 114 ELTNLTSLDLDNNNITDIPPLIGLLK--SNLKELDLSDNKIESLPSP--LRNLPNLKNLD 169
Query: 142 LEKNPWTE 149
L N ++
Sbjct: 170 LSFNDLSD 177
Score = 29.9 bits (67), Expect = 3.1
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 82 NLPDLFALNLSENKLYYPESLISLAKVIPRVKILYLAHNNIKDLATIRTLESLSNLEELR 141
NL +L L LS NKL E L + ++ L L++N I I +L SL+NL EL
Sbjct: 230 NLKNLSGLELSNNKL---EDLPESIGNLSNLETLDLSNNQISS---ISSLGSLTNLRELD 283
Query: 142 LEKNPWTE 149
L N +
Sbjct: 284 LSGNSLSN 291
>gnl|CDD|234586 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 31.3 bits (72), Expect = 0.92
Identities = 10/32 (31%), Positives = 13/32 (40%)
Query: 195 GSFLCHPEARDILRAFLEQYFALFDTESRAGL 226
G F R L FLE+ D +S+ L
Sbjct: 164 GDFEIRANYRKALVGFLEKGLDELDEDSKRRL 195
>gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional.
Length = 175
Score = 30.0 bits (68), Expect = 1.6
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 5 VTNHTLIVLVSSATPYVELNNEIKDKI 31
+T H +IVLVS+ +PY E E++ I
Sbjct: 72 LTRHGVIVLVSAISPYRETREEVRANI 98
>gnl|CDD|221780 pfam12804, NTP_transf_3, MobA-like NTP transferase domain. This
family includes the MobA protein (Molybdopterin-guanine
dinucleotide biosynthesis protein A). The family also
includes a wide range of other NTP transferase domain.
Length = 178
Score = 29.8 bits (68), Expect = 2.1
Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 21/73 (28%)
Query: 278 ADILRALRFLPATKHDLLSFTCDCPLYTPGLIQFSVCGLYEEITTGTKNKSKLIRAF--N 335
A + LR P +L CD P TP L++ +L+ A +
Sbjct: 73 AGLAAGLRAAPDADA-VLVLACDMPFLTPDLLR------------------RLLAALEAS 113
Query: 336 RAFLLVPRSGGGF 348
A + VP GG
Sbjct: 114 GADIAVPVYDGGR 126
>gnl|CDD|216176 pfam00890, FAD_binding_2, FAD binding domain. This family includes
members that bind FAD. This family includes the
flavoprotein subunits from succinate and fumarate
dehydrogenase, aspartate oxidase and the alpha subunit
of adenylylsulphate reductase.
Length = 401
Score = 30.0 bits (68), Expect = 2.7
Identities = 7/42 (16%), Positives = 10/42 (23%), Gaps = 7/42 (16%)
Query: 195 GSFLCHPEARDIL-------RAFLEQYFALFDTESRAGLIDA 229
L + +LE F + G ID
Sbjct: 71 LDELADHPYVEAFVEAAPEAVDWLEALGVPFSRSTEDGHIDL 112
>gnl|CDD|227505 COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and
modification].
Length = 2365
Score = 29.9 bits (67), Expect = 3.4
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 157 YTSEVRKIFPKLLKLDDIQLPPPIVFDLEDNI 188
Y ++ R +FP+ +K D ++PP +V+ I
Sbjct: 956 YEADRRNLFPEWIKPSDSEMPPLLVYKWCQGI 987
>gnl|CDD|217510 pfam03354, Terminase_1, Phage Terminase. The majority of the
members of this family are bacteriophage proteins,
several of which are thought to be terminase large
subunit proteins. There are also a number of bacterial
proteins of unknown function.
Length = 473
Score = 29.3 bits (66), Expect = 4.0
Identities = 25/117 (21%), Positives = 47/117 (40%), Gaps = 22/117 (18%)
Query: 332 RAFNRAFLLVPRSGGGFAIT--------------NDQLFITSATPEQAEKAF---SSQVT 374
R F A++ V R G + N ++ + + T +QAEK F +QV
Sbjct: 20 RRFREAYVSVGRKNGKSYLMAIRVLYELLLGGKSNQEILVAATTFKQAEKLFKYVKNQVK 79
Query: 375 ASESTCSTPVSNEILIKQNMVKALSQVSGMNLNFSEKCLNEVQWD-YDQAVTIFNQL 430
S ++NE + ++ + N F N Q+D + ++ IF+++
Sbjct: 80 LSPFLS---IANENKLLKSQKDGIEMKI-NNNVFKALSNNGDQYDGGNPSLAIFDEM 132
>gnl|CDD|235541 PRK05643, PRK05643, DNA polymerase III subunit beta; Validated.
Length = 367
Score = 28.6 bits (65), Expect = 6.8
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 326 NKSKLIRAFNRAFLLVPRSGGG--FAITNDQLFITSATPEQAE 366
++ +L++A RA +L G +++ QL I++ PEQ E
Sbjct: 260 DRKELLQALERASILSNEKSRGVKLSLSEGQLKISANNPEQGE 302
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 28.7 bits (64), Expect = 7.1
Identities = 27/83 (32%), Positives = 38/83 (45%), Gaps = 10/83 (12%)
Query: 46 LDLS--KFYAD-PDFVEANMFVPLDRS-NVMTSVCNIINENLPDLFALNLSENKLY--YP 99
L L+ KF+ PD + LD S N + +L +L L LSENKL P
Sbjct: 457 LSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIP 516
Query: 100 ESLISLAKVIPRVKILYLAHNNI 122
+ L S K++ L L+HN +
Sbjct: 517 DELSSCKKLVS----LDLSHNQL 535
>gnl|CDD|239427 cd03311, CIMS_C_terminal_like, CIMS - Cobalamine-independent
methonine synthase, or MetE, C-terminal domain_like.
Many members have been characterized as
5-methyltetrahydropteroyltriglutamate-homocysteine
methyltransferases, EC:2.1.1.14, mostly from bacteria
and plants. This enzyme catalyses the last step in the
production of methionine by transferring a methyl group
from 5-methyltetrahydrofolate to L-homocysteine without
using an intermediate methyl carrier. The active enzyme
has a dual (beta-alpha)8-barrel structure, and this
model covers the C-terminal barrel, and a few
single-barrel sequences most similar to the C-terminal
barrel. It is assumed that the homologous N-terminal
barrel has evolved from the C-terminus via gene
duplication and has subsequently lost binding sites, and
it seems as if the two barrels forming the active enzyme
may sometimes reside on different polypeptides. The
C-terminal domain incorporates the Zinc ion, which binds
and activates homocysteine. Sidechains from both barrels
contribute to the binding of the folate substrate.
Length = 332
Score = 28.3 bits (64), Expect = 7.7
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 10/57 (17%)
Query: 2 IKTVTNHTLIVL--VSSATPYVELNNEIKDKIKLVMAKRYNGDNKALDLSKFYADPD 56
+K + + L V +P VE E+KD+I+ K + L + + PD
Sbjct: 260 LKELPYDKKVGLGVVDVKSPEVESPEEVKDRIEEAA--------KYVPLEQLWVSPD 308
>gnl|CDD|216986 pfam02350, Epimerase_2, UDP-N-acetylglucosamine 2-epimerase. This
family consists of UDP-N-acetylglucosamine 2-epimerases
EC:5.1.3.14 this enzyme catalyzes the production of
UDP-ManNAc from UDP-GlcNAc. Note that some of the
enzymes is this family are bifunctional, and in those
instances Pfam matches only the N-terminal half of the
protein suggesting that the additional C-terminal part
(when compared to mono-functional members of this
family) is responsible for the UPD-N-acetylmannosamine
kinase activity of these enzymes. This hypothesis is
further supported by the assumption that the C-terminal
part of rat UDP-GlcNAc-2-epimerase is the kinase domain.
Length = 346
Score = 28.6 bits (65), Expect = 7.7
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 11/56 (19%)
Query: 100 ESLISLAKVIPRVKILYLAHNN----------IKDLATIRTLESLSNLEELRLEKN 145
E+L +LA+ P V +++ HNN +++L IR +E L L+ L L KN
Sbjct: 204 EALKALAE-RPDVPVVFPVHNNPRTRKRINELLEELPNIRLIEPLGYLDFLSLLKN 258
>gnl|CDD|223784 COG0712, AtpH, F0F1-type ATP synthase, delta subunit (mitochondrial
oligomycin sensitivity protein) [Energy production and
conversion].
Length = 178
Score = 27.6 bits (62), Expect = 9.2
Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 7 NHTLIVLVSSATPYVELNNEIKDKIKLVMAKRYN 40
+ V+SA EL++E K++ + K++
Sbjct: 106 RGIVEAEVTSA---FELSDEQLTKLEAKLEKKFG 136
>gnl|CDD|238756 cd01479, Sec24-like, Sec24-like: Protein and membrane traffic in
eukaryotes is mediated by at least in part by the
budding and fusion of intracellular transport vesicles
that selectively carry cargo proteins and lipids from
donor to acceptor organelles. The two main classes of
vesicular carriers within the endocytic and the
biosynthetic pathways are COP- and clathrin-coated
vesicles. Formation of COPII vesicles requires the
ordered assembly of the coat built from several
cytosolic components GTPase Sar1, complexes of
Sec23-Sec24 and Sec13-Sec31. The process is initiated by
the conversion of GDP to GTP by the GTPase Sar1 which
then recruits the heterodimeric complex of Sec23 and
Sec24. This heterodimeric complex generates the
pre-budding complex. The final step leading to membrane
deformation and budding of COPII-coated vesicles is
carried by the heterodimeric complex Sec13-Sec31. The
members of this CD belong to the Sec23-like family. Sec
24 is very similar to Sec23. The Sec23 and Sec24
polypeptides fold into five distinct domains: a
beta-barrel, a zinc finger, a vWA or trunk, an all
helical region and a carboxy Gelsolin domain. The
members of this subgroup carry a partial MIDAS motif and
have the overall Para-Rossmann type fold that is
characteristic of this superfamily.
Length = 244
Score = 28.0 bits (63), Expect = 9.9
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 180 IVFDLEDNIELPKPQGSFLCHP-EARDILRAFLEQYFALF----DTES 222
+V DL+D LP P G L + E+R ++ L+Q +F +TES
Sbjct: 70 VVSDLDD-PFLPLPDG-LLVNLKESRQVIEDLLDQIPEMFQDTKETES 115
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 0.134 0.383
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,172,465
Number of extensions: 2165751
Number of successful extensions: 2005
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1991
Number of HSP's successfully gapped: 52
Length of query: 442
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 342
Effective length of database: 6,502,202
Effective search space: 2223753084
Effective search space used: 2223753084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.3 bits)