RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3710
(424 letters)
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 70.1 bits (170), Expect = 5e-13
Identities = 56/347 (16%), Positives = 113/347 (32%), Gaps = 23/347 (6%)
Query: 72 GTHPKYPNNRVMIWDDLKKQVVICLEFNAPVKGVRLRRDKIVVV---LEGLIKVYTFIQC 128
+ ++ + + D +++ +G IK++
Sbjct: 38 SGILLLALLSDSLVSLPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNG 97
Query: 129 PQQLHVFETNPNPKGLCVLCPNSN-NSLLAFPGRKSGHVHLVDLADPERPPLDIAAHEAP 187
+ + E + + + + NS+L G V L DL+ P + + H
Sbjct: 98 EKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSES 157
Query: 188 LSCIALNQTGTRLATASYKGTLIRVFDTGSG---QKLNELRRGLCVLCPNSNNSLLAFPG 244
++ +A + G LA+ S I+++D +G L + L + + LL G
Sbjct: 158 VTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASG 217
Query: 245 RKSGHVHLVDLADPERPPLDIAAHEAPLSCIALNQTGTRLATASYKGTLIRVFDTGSGQK 304
G + L DL+ + ++ H + + G+ LA+ S GT IR++D S
Sbjct: 218 SSDGTIRLWDLSTGKLLRSTLSGHSDS-VVSSFSPDGSLLASGSSDGT-IRLWDLRSSSS 275
Query: 305 LNELRR-------------DSSYLCVSSDHGTVHVFSVDEAQKINKQSSLASASFLPKY- 350
L D L S GTV ++ ++ + ++ + +
Sbjct: 276 LLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLS 335
Query: 351 FSSSWSFCKFQIPSDPPCICAFGADSNSIIVICADGSYYKFMFNSKG 397
FS S D + + + F+ G
Sbjct: 336 FSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDG 382
Score = 62.0 bits (149), Expect = 2e-10
Identities = 69/338 (20%), Positives = 120/338 (35%), Gaps = 21/338 (6%)
Query: 73 THPKYPNNRVMIWD--DLKKQVVICLEFNAPVKGVRLRRDKIVVVLE----GLIKVYTFI 126
+ V +WD K + + V + D ++ G IK++
Sbjct: 127 LASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLR 186
Query: 127 QCPQQLHVFETNPNPKGLCVLCPNSNNSLLAFPGRKSGHVHLVDLADPERPPLDIAAHEA 186
+ L + + L + + LL G G + L DL+ + ++ H
Sbjct: 187 T-GKPLSTL--AGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSD 243
Query: 187 PLSCIALNQTGTRLATASYKGTLIRVFDTGSGQKLNELRRG-----LCVLCPNSNNSLLA 241
+ + G+ LA+ S GT IR++D S L G L V L +
Sbjct: 244 S-VVSSFSPDGSLLASGSSDGT-IRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLAS 301
Query: 242 FPGRKSGHVHLVDLADPE-RPPLDIAAHEAPLSCIALNQTGTRLATASYKGTLIRVFDTG 300
G G V L DL + L + HE P+S ++ + G+ L + IR++D
Sbjct: 302 --GSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLR 359
Query: 301 SGQKLNELRRDSSYLCVSSDHGTVHVFSVDEAQKINKQSSLASASFLPKYFSSSWSFCKF 360
+G+ L L S+ L VS V S + + L++ S L +
Sbjct: 360 TGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTV-RLWDLSTGSLLRNLDGHTSRVTSL 418
Query: 361 QIPSDPPCICAFGADSNSIIVICADGSYYKFMFNSKGE 398
D + + G+ N+I + S F+ G+
Sbjct: 419 DFSPDGKSLAS-GSSDNTIRLWDLKTSLKSVSFSPDGK 455
>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 = 60.4 bits (147), Expect = 3e-10
Identities = 52/242 (21%), Positives = 101/242 (41%), Gaps = 23/242 (9%)
Query: 64 NYLALVGGGTHPKYPNNRVMIWDDLKKQVVICLE-FNAPVKGVRLRRDKIVVVLEGL--- 119
YLA + + +WD + V L + V V D ++
Sbjct: 64 TYLASGSS-------DKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT 116
Query: 120 IKVYTFIQCPQQLHVFETNPNPKGLCVLCPNSNNSLLAFPGRKSGHVHLVDLADPERPPL 179
IKV+ + L + + + + + + + +A + G + L DL +
Sbjct: 117 IKVWDVET-GKCLTTLRGHTDW--VNSVAFSPDGTFVAS-SSQDGTIKLWDLRT-GKCVA 171
Query: 180 DIAAHEAPLSCIALNQTGTRLATASYKGTLIRVFDTGSGQKLNELR---RGLCVLCPNSN 236
+ H ++ +A + G +L ++S GT I+++D +G+ L LR G+ + + +
Sbjct: 172 TLTGHTGEVNSVAFSPDGEKLLSSSSDGT-IKLWDLSTGKCLGTLRGHENGVNSVAFSPD 230
Query: 237 NSLLAFPGRKSGHVHLVDLADPERPPLDIAAHEAPLSCIALNQTGTRLATASYKGTLIRV 296
LLA G + G + + DL ++ H ++ +A + G RLA+ S GT IR+
Sbjct: 231 GYLLAS-GSEDGTIRVWDL-RTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGT-IRI 287
Query: 297 FD 298
+D
Sbjct: 288 WD 289
Score = 57.7 bits (140), Expect = 2e-09
Identities = 46/200 (23%), Positives = 82/200 (41%), Gaps = 34/200 (17%)
Query: 181 IAAHEAPLSCIALNQTGTRLATASYKGTLIRVFDTGSGQKLNELR-----RGLCVLCPNS 235
+ H ++C+A + G LAT S GT I+V+D +G+ L L+ +
Sbjct: 5 LKGHTGGVTCVAFSPDGKLLATGSGDGT-IKVWDLETGELLRTLKGHTGPVRDVAASADG 63
Query: 236 NNSLLAFPGRKSGHVHLVDLADPERPPL--DIAAHEAPLSCIALNQTGTRLATASYKGTL 293
L + + L D E + H + +S +A + G L+++S T
Sbjct: 64 -TYLAS-----GSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT- 116
Query: 294 IRVFDTGSGQKLNELR------------RDSSYLCVSSDHGTVHVFSVDEAQKINK---- 337
I+V+D +G+ L LR D +++ SS GT+ ++ + + +
Sbjct: 117 IKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGH 176
Query: 338 QSSLASASFLP---KYFSSS 354
+ S +F P K SSS
Sbjct: 177 TGEVNSVAFSPDGEKLLSSS 196
Score = 53.9 bits (130), Expect = 5e-08
Identities = 34/164 (20%), Positives = 67/164 (40%), Gaps = 21/164 (12%)
Query: 181 IAAHEAPLSCIALNQTGTRLATASYKGTLIRVFDTGSGQKLNEL----RRGLCVLCPNSN 236
+ H ++ +A + GT +A++S GT I+++D +G+ + L V + +
Sbjct: 131 LRGHTDWVNSVAFSPDGTFVASSSQDGT-IKLWDLRTGKCVATLTGHTGEVNSV-AFSPD 188
Query: 237 NSLLAFPGRKSGHVHLVDLADPERPPLDIAAHEAPLSCIALNQTGTRLATASYKGTLIRV 296
L G + L DL+ + + HE ++ +A + G L + + IRV
Sbjct: 189 GEKLLSSSS-DGTIKLWDLST-GKCLGTLRGHENGVNSVAFSPDG-YLLASGSEDGTIRV 245
Query: 297 FDTGSGQKLNELRR------------DSSYLCVSSDHGTVHVFS 328
+D +G+ + L D L S GT+ ++
Sbjct: 246 WDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 39.6 bits (93), Expect = 0.002
Identities = 42/244 (17%), Positives = 75/244 (30%), Gaps = 66/244 (27%)
Query: 21 DQGCFACGMEDGF-RIYNCDPLKEKERQDFTDGGLGHVEMLFRCNYLA----LVGGGTHP 75
D A G D R++ D + + T GH + + L
Sbjct: 62 DGTYLASGSSDKTIRLW--DLETGECVRTLT----GHTSYVSSVAFSPDGRILSSSSR-- 113
Query: 76 KYPNNRVMIWDDLKKQVVICLEF-NAPVKGVRLRRDKIVVV---LEGLIKVY-------- 123
+ + +WD + + L V V D V +G IK++
Sbjct: 114 ---DKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCV 170
Query: 124 -TF--------------------------------IQCPQQLHVFETNPNPKGLCVLCPN 150
T + + L + N + + +
Sbjct: 171 ATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENG--VNSVAFS 228
Query: 151 SNNSLLAFPGRKSGHVHLVDLADPERPPLDIAAHEAPLSCIALNQTGTRLATASYKGTLI 210
+ LLA G + G + + DL ++ H ++ +A + G RLA+ S GT I
Sbjct: 229 PDGYLLAS-GSEDGTIRVWDL-RTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGT-I 285
Query: 211 RVFD 214
R++D
Sbjct: 286 RIWD 289
>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 = 34.2 bits (79), Expect = 0.005
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 181 IAAHEAPLSCIALNQTGTRLATASYKGTLIRVFD 214
+ H P++ +A + G LA+ S GT I+++D
Sbjct: 8 LKGHTGPVTSVAFSPDGKYLASGSDDGT-IKLWD 40
Score = 34.2 bits (79), Expect = 0.005
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 265 IAAHEAPLSCIALNQTGTRLATASYKGTLIRVFD 298
+ H P++ +A + G LA+ S GT I+++D
Sbjct: 8 LKGHTGPVTSVAFSPDGKYLASGSDDGT-IKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 33.5 bits (77), Expect = 0.011
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 183 AHEAPLSCIALNQTGTRLATASYKGTLIRVFD 214
H P++ +A + G LA+ S GT +RV+D
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGT-VRVWD 39
Score = 33.5 bits (77), Expect = 0.011
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 267 AHEAPLSCIALNQTGTRLATASYKGTLIRVFD 298
H P++ +A + G LA+ S GT +RV+D
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGT-VRVWD 39
>gnl|CDD|213031 cd12105, HmuY, Bacterial proteins similar to Porphyromonas
gingivalis HmuY. HmuY is a hemophore that scavenges
heme from infected hosts and delivers it to the outer
membrane receptor HmuR. Related but uncharacterized
proteins do not appear to share the specific
heme-binding site.
Length = 121
Score = 29.6 bits (67), Expect = 1.2
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 371 AFGAD--SNSIIVI-CADGSYYKFMFNS 395
F D S+ + V+ ADG+Y K F S
Sbjct: 76 EFVVDTSSDKVYVVKTADGNYAKLQFTS 103
>gnl|CDD|240209 cd05704, S1_Rrp5_repeat_hs13, S1_Rrp5_repeat_hs13: Rrp5 is a
trans-acting factor important for biogenesis of both the
40S and 60S eukaryotic ribosomal subunits. Rrp5 has two
distinct regions, an N-terminal region containing
tandemly repeated S1 RNA-binding domains (12 S1 repeats
in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in
Homo sapiens Rrp5) and a C-terminal region containing
tetratricopeptide repeat (TPR) motifs thought to be
involved in protein-protein interactions. Mutational
studies have shown that each region represents a
specific functional domain. Deletions within the
S1-containing region inhibit pre-rRNA processing at
either site A3 or A2, whereas deletions within the TPR
region confer an inability to support cleavage of A0-A2.
This CD includes H. sapiens S1 repeat 13 (hs13). Rrp5 is
found in eukaryotes but not in prokaryotes or archaea.
Length = 72
Score = 27.3 bits (61), Expect = 3.2
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 155 LLAFPGRKSGHVHLVDLADPERP-PLD 180
+ P K+G V + L+D PL+
Sbjct: 21 TVQLPFGKTGLVSIFHLSDSYTENPLE 47
Score = 27.3 bits (61), Expect = 3.2
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 239 LLAFPGRKSGHVHLVDLADPERP-PLD 264
+ P K+G V + L+D PL+
Sbjct: 21 TVQLPFGKTGLVSIFHLSDSYTENPLE 47
>gnl|CDD|146808 pfam04361, DUF494, Protein of unknown function (DUF494). Members
of this family of uncharacterized proteins are often
named Smg.
Length = 155
Score = 28.7 bits (65), Expect = 3.5
Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 304 KLNELRRDSSYLCVSSDHGTVHVFSVDEAQKINKQS 339
L EL+ +S YL +SD +++ +E +K++ +
Sbjct: 49 NLAELQDESPYLAAASDSSI-RIYTDEEQEKLDTEC 83
>gnl|CDD|148609 pfam07100, ASRT, Anabaena sensory rhodopsin transducer. The family
of bacterial Anabaena sensory rhodopsin transducers are
likely to bind sugars or related metabolites. The entire
protein is comprised of a single globular domain with an
eight-stranded beta-sandwich fold. There are a few
characteristics which define this beta-sandwich fold as
being distinct from other so-named folds, and these are:
1) a well conserved tryptophan, usually following a
polar residue, present at the start of the first strand;
this tryptophan appears to be central to a hydrophobic
interaction required to hold the two beta-sheets of the
sandwich together, and 2) a nearly absolutely conserved
asparagine located at the end of the second beta-strand,
that hydrogen bonds with the backbone carbonyls of the
residues 2 and 4 positions downstream from it, thereby
stabilising the characteristic tight turn between
strands 2 and 3 of the structure.
Length = 120
Score = 28.0 bits (63), Expect = 4.0
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 159 PGRKSGHVHLVDLADPERPPLDI 181
P R++ H+ DL DPE P D
Sbjct: 63 PARRTRHLRFNDLIDPEPIPRDT 85
Score = 28.0 bits (63), Expect = 4.0
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 243 PGRKSGHVHLVDLADPERPPLDI 265
P R++ H+ DL DPE P D
Sbjct: 63 PARRTRHLRFNDLIDPEPIPRDT 85
>gnl|CDD|133433 cd05297, GH4_alpha_glucosidase_galactosidase, Glycoside Hydrolases
Family 4; Alpha-glucosidases and alpha-galactosidases.
Glucosidases cleave glycosidic bonds to release glucose
from oligosaccharides. Alpha-glucosidases and
alpha-galactosidases release alpha-D-glucose and
alpha-D-galactose, respectively, via the hydrolysis of
alpha-glycopyranoside bonds. Some bacteria
simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP-PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by the GH4 glycoside hydrolases such as the
alpha-glucosidases. Other organsisms (such as archaea
and Thermotoga maritima) lack the PEP-PTS system, but
have several enzymes normally associated with the
PEP-PTS operon. Alpha-glucosidases and
alpha-galactosidases are part of the NAD(P)-binding
Rossmann fold superfamily, which includes a wide variety
of protein families including the NAD(P)-binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 423
Score = 29.5 bits (67), Expect = 4.1
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 1/22 (4%)
Query: 155 LLAFPGRKSGHVHLVDLADPER 176
LL P + L+D+ D ER
Sbjct: 21 LLKTPELSGSTIALMDI-DEER 41
Score = 29.5 bits (67), Expect = 4.1
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 1/22 (4%)
Query: 239 LLAFPGRKSGHVHLVDLADPER 260
LL P + L+D+ D ER
Sbjct: 21 LLKTPELSGSTIALMDI-DEER 41
>gnl|CDD|217397 pfam03165, MH1, MH1 domain. The MH1 (MAD homology 1) domain is
found at the amino terminus of MAD related proteins such
as Smads. This domain is separated from the MH2 domain
by a non-conserved linker region. The crystal structure
of the MH1 domain shows that a highly conserved 11
residue beta hairpin is used to bind the DNA consensus
sequence GNCN in the major groove, shown to be vital for
the transcriptional activation of target genes. Not all
examples of MH1 can bind to DNA however. Smad2 cannot
bind DNA and has a large insertion within the hairpin
that presumably abolishes DNA binding. A basic helix
(H2) in MH1 with the nuclear localisation signal KKLKK
has been shown to be essential for Smad3 nuclear import.
Smads also use the MH1 domain to interact with
transcription factors such as Jun, TFE3, Sp1, and Runx.
Length = 103
Score = 27.7 bits (62), Expect = 4.7
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 5/45 (11%)
Query: 130 QQLHVFE----TNPNPKGLCVLCPNSNNSLLAFPGRKSGHVHLVD 170
QQL E + P CV P S + L GRK G H++
Sbjct: 17 QQLEELELAVESRGGPPTKCVTIPRSLDGRLQVAGRK-GLPHVIY 60
>gnl|CDD|241306 cd10570, PH-GRAM, Pleckstrin Homology-Glucosyltransferases,
Rab-like GTPase activators and Myotubularins (PH-GRAM)
domain. Myotubularin-related proteins are a subfamily
of protein tyrosine phosphatases (PTPs) that
dephosphorylate D3-phosphorylated inositol lipids.
Mutations in this family cause the human neuromuscular
disorders myotubular myopathy and type 4B
Charcot-Marie-Tooth syndrome. 6 of the 13 MTMRs (MTMRs
5, 9-13) contain naturally occurring substitutions of
residues required for catalysis by PTP family enzymes.
Although these proteins are predicted to be
enzymatically inactive, they are thought to function as
antagonists of endogenous phosphatase activity or
interaction modules. Most MTMRs contain a N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, a PTP domain (which may be active or inactive),
a SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is part
of a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 94
Score = 27.3 bits (61), Expect = 4.7
Identities = 8/34 (23%), Positives = 16/34 (47%)
Query: 371 AFGADSNSIIVICADGSYYKFMFNSKGECWRDVY 404
+ G +S + + C D +F F + RD++
Sbjct: 58 SSGENSYGLEITCKDMRNLRFAFKQEDHSRRDIF 91
>gnl|CDD|226738 COG4288, COG4288, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 124
Score = 27.9 bits (62), Expect = 5.5
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 159 PGRKSGHVHLVDLADPERPPLD 180
R++ H+ DL DPE P D
Sbjct: 65 AARRTLHLRFNDLGDPEAIPKD 86
Score = 27.9 bits (62), Expect = 5.5
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 243 PGRKSGHVHLVDLADPERPPLD 264
R++ H+ DL DPE P D
Sbjct: 65 AARRTLHLRFNDLGDPEAIPKD 86
>gnl|CDD|220674 pfam10282, Lactonase, Lactonase, 7-bladed beta-propeller. This
entry contains bacterial 6-phosphogluconolactonases
(6PGL)YbhE-type (EC:3.1.1.31) which hydrolyse
6-phosphogluconolactone to 6-phosphogluconate. The entry
also contains the fungal muconate lactonising enzyme
carboxy-cis,cis-muconate cyclase (EC:5.5.1.5) and
muconate cycloisomerase (EC:5.5.1.1), which convert
cis,cis-muconates to muconolactones and vice versa as
part of the microbial beta-ketoadipate pathway.
Structures of proteins in this family have revealed a
7-bladed beta-propeller fold.
Length = 344
Score = 28.7 bits (65), Expect = 6.0
Identities = 18/88 (20%), Positives = 32/88 (36%), Gaps = 29/88 (32%)
Query: 275 IALNQTGTRLATASYKGTLIRVFDTGSGQKLNEL--------------RRDSS------- 313
++++ G L A+Y G + V+ + L E R++
Sbjct: 91 LSVDPDGRFLFVANYGGGSVSVYPLDADGSLGEASQVVQHEGSGPNPERQEGPHAHSVVL 150
Query: 314 -----YLCVSSDHGT--VHVFSVDEAQK 334
+L V D GT V V+ +D+A
Sbjct: 151 TPDGKFLVV-PDLGTDRVRVYRLDDAGG 177
>gnl|CDD|163492 TIGR03780, Bac_Flav_CT_N, Bacteroides conjugative transposon TraN
protein. Members of this family are the TraN protein
encoded by transfer region genes of conjugative
transposons of Bacteroides. The family is related to
conjugative transfer proteins VirB9 and TrbG of
Agrobacterium Ti plasmids [Cellular processes, DNA
transformation].
Length = 285
Score = 28.5 bits (64), Expect = 6.9
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 381 VICADGSYYKFMFNSKGECWRDVYIQ---FLEMTNDSNLL 417
VI DG +Y F N E +D+ + FL + + L
Sbjct: 95 VITEDGRFYVFNLNYADEP-KDLNTEMEDFLADGDTVDYL 133
>gnl|CDD|235221 PRK04123, PRK04123, ribulokinase; Provisional.
Length = 548
Score = 28.3 bits (64), Expect = 9.5
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 9/44 (20%)
Query: 320 DHGTVHVFSVDEAQKINKQSSLASASFLPKY----FSSSWSFCK 359
DH + +EA++IN+ + + L +Y +SS W + K
Sbjct: 121 DHT-----AQEEAEEINRLAHERGEADLSRYIGGIYSSEWFWAK 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
0.321 0.138 0.430
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: 21,346,414
Number of extensions: 2024288
Number of successful extensions: 1523
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1500
Number of HSP's successfully gapped: 31
Length of query: 424
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 324
Effective length of database: 6,502,202
Effective search space: 2106713448
Effective search space used: 2106713448
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 (21.9 bits)
S2: 60 (26.9 bits)