RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7519
(213 letters)
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 81.6 bits (202), Expect = 4e-18
Identities = 41/101 (40%), Positives = 63/101 (62%), Gaps = 2/101 (1%)
Query: 79 LMTLGFAPG--SFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVPAGVA 136
L+ L F P F+ +LA++GKF I+S+ ++ +YTAEL+PT +RNLGVG S A V
Sbjct: 399 LLLLLFVPVDLYFLRTALAVLGKFGITSAFQMVYLYTAELYPTVVRNLGVGVCSTMARVG 458
Query: 137 LILIPYLWHMQSINIHFPMGLLGVVGVLGGLSVLLLPDTTG 177
I+ P+L ++ + P+ L G + +L G+ L LP+T G
Sbjct: 459 SIISPFLVYLGEKWLFLPLVLFGGLALLAGILTLFLPETKG 499
>gnl|CDD|150467 pfam09803, DUF2346, Uncharacterized conserved protein (DUF2346).
Members of this family of proteins have no known
function.
Length = 80
Score = 66.8 bits (163), Expect = 7e-15
Identities = 24/64 (37%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 1 MGLYMIFPVGLFHYFNQPEYFENFVINYNKEKYI--DKNNVVLMKNTIKEMREKSDKEYL 58
M LYM FPV +F FNQPEYFE +V +E Y ++ + +++ + +REK + L
Sbjct: 11 MALYMTFPVAMFWIFNQPEYFEEWVTKRKRELYPPENEQHRKELEDFKERLREKHEARLL 70
Query: 59 EKLE 62
+E
Sbjct: 71 RAME 74
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 43.5 bits (103), Expect = 3e-05
Identities = 20/97 (20%), Positives = 38/97 (39%), Gaps = 2/97 (2%)
Query: 79 LMTLGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVPAGVALI 138
L+ L AP + + ++ F + + + +EL P + R G + +
Sbjct: 256 LLLLALAPSLALLLVALLLLGFGLGFAFPALLTLASELAPPEARGTASGLFNTFGSLGGA 315
Query: 139 LIPYL--WHMQSINIHFPMGLLGVVGVLGGLSVLLLP 173
L P L + + +L + +L L +LLLP
Sbjct: 316 LGPLLAGLLLDTGGYGGVFLILAALALLAALLLLLLP 352
Score = 36.5 bits (85), Expect = 0.007
Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 9/103 (8%)
Query: 79 LMTLGFAPGSFIT------ISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVP 132
L LG +F + + ++G + AE FP K R +G S
Sbjct: 73 LFALGSLLLAFASSLWLLLVGRFLLG-LGGGALYPAAAALIAEWFPPKERGRALGLFSAG 131
Query: 133 AGVALILIPYL--WHMQSINIHFPMGLLGVVGVLGGLSVLLLP 173
G+ +L P L +S+ + +L ++G+L L +L L
Sbjct: 132 FGLGALLGPLLGGLLAESLGWRWLFLILAILGLLLALLLLFLL 174
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 35.3 bits (81), Expect = 0.018
Identities = 24/85 (28%), Positives = 35/85 (41%), Gaps = 2/85 (2%)
Query: 94 LAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVPAGVALIL-IPYLWHMQSINIH 152
L + G +I++ N + + T EL+P+ R G + A +L I I
Sbjct: 655 LCLFGGLSIAAWNAL-DVLTVELYPSDKRATAFGFLNALCKAAAVLGILIFGSFVGITKA 713
Query: 153 FPMGLLGVVGVLGGLSVLLLPDTTG 177
P+ GGL L LPDT G
Sbjct: 714 APILFASAALACGGLLALKLPDTRG 738
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 34.7 bits (80), Expect = 0.028
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 2/93 (2%)
Query: 82 LGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVPAGVALILIP 141
L FA ++ + L ++ + A+ FP + R +G S G+ L P
Sbjct: 79 LLFASSLWLLLVLRVLQGLGGGALFPAAAALIADWFPPEERGRALGLLSAGFGLGAALGP 138
Query: 142 YL--WHMQSINIHFPMGLLGVVGVLGGLSVLLL 172
L +L ++ +L + LL
Sbjct: 139 LLGGLLASLFGWRAAFLILAILALLAAVLAALL 171
>gnl|CDD|182433 PRK10406, PRK10406, alpha-ketoglutarate transporter; Provisional.
Length = 432
Score = 32.5 bits (74), Expect = 0.15
Identities = 17/51 (33%), Positives = 22/51 (43%)
Query: 79 LMTLGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGAS 129
L L + L M +S I I AE+FP ++R LGVG S
Sbjct: 327 LSALQNVSSPYAAFGLVMCALLIVSFYTSISGILKAEMFPAQVRALGVGLS 377
>gnl|CDD|129965 TIGR00887, 2A0109, phosphate:H+ symporter. This model represents
the phosphate uptake symporter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Anions].
Length = 502
Score = 32.0 bits (73), Expect = 0.23
Identities = 23/80 (28%), Positives = 34/80 (42%), Gaps = 12/80 (15%)
Query: 111 IYTAELFPTKMRNL--GVGASSVPAG--VALILIPYLWHMQSINIHFPMG--------LL 158
I E+FPT+ R+ G+ A+S AG + YL +P G +
Sbjct: 415 IVPGEVFPTRYRSTAHGISAASGKAGAIIGQFGFLYLAQHGDPTKGYPTGIWMGHVLEIF 474
Query: 159 GVVGVLGGLSVLLLPDTTGL 178
+ LG L LL+P+T G
Sbjct: 475 ALFMFLGILFTLLIPETKGK 494
>gnl|CDD|214492 smart00055, FCH, Fes/CIP4 homology domain. Alignment extended
from original report. Highly alpha-helical. Also known
as the RAEYL motif or the S. pombe Cdc15 N-terminal
domain.
Length = 87
Score = 28.8 bits (65), Expect = 0.59
Identities = 14/36 (38%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 36 KNNVVLMKNTIKEMRE--KSDKEYLEKLEKNSNGWQ 69
KN + L+++ K MRE K ++EY +KL+K S +
Sbjct: 19 KNGLRLLEDLKKFMRERAKIEEEYAKKLQKLSKKLR 54
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 30.3 bits (69), Expect = 0.65
Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 3/92 (3%)
Query: 89 FITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVPAGVALILIPYLWHMQS 148
I L + FA+ + + +ELFP +R + ++ +A LI +L+ + +
Sbjct: 350 AIVFILLFIAFFALGW-GPVPWVIVSELFPLGVRPKAMAIATAANWLANFLIGFLFPIIT 408
Query: 149 INIHFPMGLL-GVVGVLGGLSV-LLLPDTTGL 178
I + L+ + VL L V +P+T G
Sbjct: 409 GAIGGYVFLVFAGLLVLFILFVFFFVPETKGR 440
>gnl|CDD|212954 cd12021, SH3_p47phox_1, First or N-terminal Src homology 3 domain
of the p47phox subunit of NADPH oxidase, also called
Neutrophil Cytosolic Factor 1. p47phox, or NCF1, is a
cytosolic subunit of the phagocytic NADPH oxidase
complex (also called Nox2 or gp91phox), which plays a
key role in the ability of phagocytes to defend against
bacterial infections. NADPH oxidase catalyzes the
transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p47phox is required for activation of NADH
oxidase and plays a role in translocation. It contains
an N-terminal Phox homology (PX) domain, tandem SH3
domains (N-SH3 and C-SH3), a polybasic/autoinhibitory
region, and a C-terminal proline-rich region (PRR).
This model characterizes the first SH3 domain (or
N-SH3) of p47phox. In its inactive state, the tandem
SH3 domains interact intramolecularly with the
autoinhibitory region; upon activation, the tandem SH3
domains are exposed through a conformational change,
resulting in their binding to the PRR of p22phox and
the activation of NADPH oxidase. SH3 domains are
protein interaction domains that bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs. They play versatile and
diverse roles in the cell including the regulation of
enzymes, changing the subcellular localization of
signaling pathway components, and mediating the
formation of multiprotein complex assemblies.
Length = 53
Score = 28.0 bits (62), Expect = 0.67
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 43 KNTIKEMREKSDKEYLEKLEKNSNGWQVCNIFIKRHLMTLGFAPGSFI 90
K++ EM K+ + +E +EK+ NGW C + KR G+ P S++
Sbjct: 10 KSSKSEMALKTG-DVVEVVEKSENGWWFCQLKAKR-----GWVPASYL 51
>gnl|CDD|201463 pfam00831, Ribosomal_L29, Ribosomal L29 protein.
Length = 58
Score = 27.5 bits (62), Expect = 0.91
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 11/39 (28%)
Query: 46 IKEMREKSDKEYLEKLEKNSNGWQVCNIFIKRHLMTLGF 84
KE+RE SD+E EKL++ +K+ L L F
Sbjct: 1 AKELRELSDEELKEKLKE-----------LKKELFNLRF 28
>gnl|CDD|212953 cd12020, SH3_Tks5_5, Fifth (C-terminal) Src homology 3 domain of
Tyrosine kinase substrate with five SH3 domains. Tks5,
also called SH3 and PX domain-containing protein 2A
(SH3PXD2A) or Five SH (FISH), is a scaffolding protein
and Src substrate that is localized in podosomes, which
are electron-dense structures found in Src-transformed
fibroblasts, osteoclasts, macrophages, and some
invasive cancer cells. It binds and regulates some
members of the ADAMs family of transmembrane
metalloproteases, which function as sheddases and
mediators of cell and matrix interactions. It is
required for podosome formation, degradation of the
extracellular matrix, and cancer cell invasion. Tks5
contains an N-terminal Phox homology (PX) domain and
five SH3 domains. This model characterizes the fifth
(C-terminal) SH3 domain of Tks5. SH3 domains are
protein interaction domains that bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs. They play versatile and
diverse roles in the cell including the regulation of
enzymes, changing the subcellular localization of
signaling pathway components, and mediating the
formation of multiprotein complex assemblies.
Length = 57
Score = 27.2 bits (60), Expect = 1.2
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 58 LEKLEKNSNGWQVCNIF 74
+E LEKN NGW C I
Sbjct: 23 MEVLEKNPNGWWYCQIL 39
>gnl|CDD|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase/S1 RNA-binding domain protein; Reviewed.
Length = 647
Score = 29.9 bits (68), Expect = 1.2
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 25 VINYNKEKYIDKNNVVL-MKNTIKEMREKSDKEYLEKLEK 63
+I +N+++ + VVL K ++E +EK +E LE+
Sbjct: 441 IIEFNRKR---RKKVVLSRKAILEEEKEKKKEETWNSLEE 477
>gnl|CDD|233168 TIGR00883, 2A0106, metabolite-proton symporter. This model
represents the metabolite:H+ symport subfamily of the
major facilitator superfamily (pfam00083), including
citrate-H+ symporters, dicarboxylate:H+ symporters, the
proline/glycine-betaine transporter ProP, etc [Transport
and binding proteins, Unknown substrate].
Length = 394
Score = 29.2 bits (66), Expect = 1.5
Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 9/73 (12%)
Query: 79 LMTLGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVG---------AS 129
LM L + + L + + + ELFPT++R G
Sbjct: 303 LMALLDSGSFTLFFFLVLGMALIGGMYTGPMGSFLPELFPTEVRYTGASLAYNLAGAIFG 362
Query: 130 SVPAGVALILIPY 142
+A L+
Sbjct: 363 GFAPYIAAALVAM 375
>gnl|CDD|178971 PRK00306, PRK00306, 50S ribosomal protein L29; Reviewed.
Length = 66
Score = 27.1 bits (61), Expect = 1.5
Identities = 11/21 (52%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 42 MKNTIKEMREKSDKEYLEKLE 62
MK KE+RE S +E EKL
Sbjct: 1 MK--AKELRELSVEELNEKLL 19
>gnl|CDD|226404 COG3887, COG3887, Predicted signaling protein consisting of a
modified GGDEF domain and a DHH domain [Signal
transduction mechanisms].
Length = 655
Score = 29.2 bits (66), Expect = 1.8
Identities = 11/55 (20%), Positives = 26/55 (47%)
Query: 5 MIFPVGLFHYFNQPEYFENFVINYNKEKYIDKNNVVLMKNTIKEMREKSDKEYLE 59
M + LF+ N+ E+ F + I ++ L+ +K++ +K+Y++
Sbjct: 84 MPIGIILFNETNKVEWVNPFASKIFNKNEIGESLSELIPEILKQLARNDEKQYIK 138
>gnl|CDD|233174 TIGR00893, 2A0114, D-galactonate transporter. [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 399
Score = 28.5 bits (64), Expect = 2.5
Identities = 25/105 (23%), Positives = 37/105 (35%), Gaps = 17/105 (16%)
Query: 79 LMTLGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMR-------NLGVGASSV 131
L A S + ++G A + I + A FP R N G +
Sbjct: 75 LQAFAGAYVSLYILR-VLLG-AAEAPFFPGIILIVASWFPASERATAVSIFNSAQGLGGI 132
Query: 132 PAG--VALILIPYLWHMQSINIHFPMGLLGVVGVLGGLSVLLLPD 174
G V ILI + W G+LG+ + G L + +PD
Sbjct: 133 IGGPLVGWILIHFSWQW----AFIIEGVLGI--IWGVLWLKFIPD 171
>gnl|CDD|204467 pfam10376, Mei5, Double-strand recombination repair protein. Mei5
is one of a pair of meiosis-specific proteins which
facilitate the loading of Dmc1 on to Rad51 on DNA at
double-strand breaks during recombination. Recombination
is carried out by a large protein complex based around
the two RecA homologues, Rad51 and Dmc1. This complex
may play both a catalytic and a structural role in the
interaction between homologous chromosomes during
meiosis. Mei5 is seen to contain a coiled-coli region.
Length = 212
Score = 28.2 bits (63), Expect = 2.7
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 31 EKYIDKNNVVLMKNTIKEMREKSDKEYLEKLEK 63
EKY KN++ ++ IK+ + +E LEKL+K
Sbjct: 152 EKYEIKNDLSELQELIKKWEKAKQRE-LEKLQK 183
>gnl|CDD|222937 PHA02864, PHA02864, hypothetical protein; Provisional.
Length = 240
Score = 28.3 bits (63), Expect = 2.7
Identities = 14/39 (35%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 37 NNVVLMKNTIKEMRE-KSDKEYLEKLEKNSNGWQVCNIF 74
++ V++KN IK+ R + ++Y++KL K+ Q C+IF
Sbjct: 2 SSCVIVKNFIKDYRSGRIIRKYIKKLSKDEFK-QFCSIF 39
>gnl|CDD|236927 PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter
MhpT; Provisional.
Length = 406
Score = 28.4 bits (64), Expect = 2.9
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 79 LMTLGFAPGSFITISLA--MVGKFAISSSNVIIPIYTAELFPTKMRNLGVGAS 129
L L AP F + LA G F + +V+ + +PT++R GVGA+
Sbjct: 299 LAALAAAPS-FAGMLLAGFAAGLFVVGGQSVLYAL-APLFYPTQVRGTGVGAA 349
>gnl|CDD|240396 PTZ00388, PTZ00388, 40S ribosomal protein S8-like; Provisional.
Length = 223
Score = 28.1 bits (63), Expect = 3.3
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 28 YNKEKYIDKNNVVLMKNTIKEMREKSDKE 56
+NK++Y +K MK TIK EK KE
Sbjct: 13 FNKKRYAEK---AEMKKTIKAHEEKDVKE 38
>gnl|CDD|220714 pfam10357, Kin17_mid, Domain of Kin17 curved DNA-binding protein.
Kin17_mid is the conserved central 169 residue region of
a family of Kin17 proteins. Towards the N-terminal end
there is a zinc-finger domain, and in human and mouse
members there is a RecA-like domain further downstream.
The Kin17 protein in humans forms intra-nuclear foci
during cell proliferation and is re-distributed in the
nucleoplasm during the cell cycle.
Length = 127
Score = 27.2 bits (61), Expect = 3.4
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 32 KYIDKNNVVLMKNTIKEMREKSDKEYLEKLEK 63
YID++ L + +EK +K E+ +K
Sbjct: 89 TYIDRSPEALKRQEELRKKEKQEKTDEEREQK 120
>gnl|CDD|129223 TIGR00117, acnB, aconitate hydratase 2. Aconitate hydratase
(aconitase) is an enzyme of the TCA cycle. This model
describes aconitase 2, AcnB, which has weak similarity
to aconitase 1. It is found almost exclusively in the
Proteobacteria [Energy metabolism, TCA cycle].
Length = 844
Score = 28.3 bits (63), Expect = 3.6
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 25 VINYNKEKYID--KNNVVLMKNTIKEMREKSDKEYLEKLEKNSNGW 68
I NKE I+ +N+VL+K I E D+ LE+ + W
Sbjct: 598 TIKLNKEPIIEYLNSNIVLLKWMIAEGYG--DRRTLERRIQGMEKW 641
>gnl|CDD|223333 COG0255, RpmC, Ribosomal protein L29 [Translation, ribosomal
structure and biogenesis].
Length = 69
Score = 26.1 bits (58), Expect = 3.9
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 42 MKNTIKEMREKSDKEYLEKL 61
MK KE+REKS +E E+L
Sbjct: 1 MKAKRKELREKSVEELEEEL 20
>gnl|CDD|223964 COG1033, COG1033, Predicted exporters of the RND superfamily
[General function prediction only].
Length = 727
Score = 28.0 bits (63), Expect = 4.6
Identities = 25/119 (21%), Positives = 40/119 (33%), Gaps = 8/119 (6%)
Query: 79 LMT-LGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELF-----PTKMRNLGVGASSVP 132
L T GF S +T S+ + +F I S II + + L +
Sbjct: 304 LTTAAGFL--SLLTSSIPAIKEFGILLSIGIILAFLSSLTVLPALLILIPKGRKKREEKK 361
Query: 133 AGVALILIPYLWHMQSINIHFPMGLLGVVGVLGGLSVLLLPDTTGLADNLHQLENDVPI 191
L L + I P+ +L V ++ G+S+ D L D+P
Sbjct: 362 DSKKGKLEKRLSKIAKIIARHPVTVLVVALIIVGVSLYGASKVKIETDIEKYLPQDLPA 420
>gnl|CDD|224086 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 27.7 bits (62), Expect = 5.8
Identities = 7/44 (15%), Positives = 22/44 (50%)
Query: 23 NFVINYNKEKYIDKNNVVLMKNTIKEMREKSDKEYLEKLEKNSN 66
+ + +K + + L+++ +E+R+ + + + EK+ N
Sbjct: 180 PDIGDAKGKKLTLEQLLNLLEDPDREVRKAAYEALYKAYEKHRN 223
>gnl|CDD|234844 PRK00816, rnfD, electron transport complex protein RnfD; Reviewed.
Length = 350
Score = 27.2 bits (61), Expect = 6.4
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 142 YLWHMQSINIHFPMGLLGVVGVLGGLSVLLLPDTT 176
+L ++I H P+ L + + L L PDT
Sbjct: 232 FLLWQKAIRWHIPVAFLATLALCATLGWLFSPDTL 266
>gnl|CDD|237778 PRK14653, PRK14653, UDP-N-acetylenolpyruvoylglucosamine reductase;
Provisional.
Length = 297
Score = 27.1 bits (60), Expect = 6.5
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 24 FVINYNKEKYIDKNNVVLMKNTIKEMREKSDKEYLEKLEKNSNGW 68
F+INYN K D + I+ +++K + Y +LE W
Sbjct: 259 FIINYNNAKAED------VLKLIEYVKDKIYENYNVELETEIEIW 297
>gnl|CDD|221906 pfam13057, DUF3919, Protein of unknown function (DUF3919). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 251 and 262 amino
acids in length. There is a conserved YLNG sequence
motif.
Length = 228
Score = 26.9 bits (60), Expect = 6.9
Identities = 12/64 (18%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 9 VGLFHYFNQPEYFEN------FVINYNKEKYIDKNNVVLMKNTIKEMREKSDKEYLEKLE 62
+ + + N N N K + ++ L+KN+IK++++ +D + ++KL
Sbjct: 109 LDYLYTPSNLSNIINSANEVIIFDNNNNGKKLGSSDKELIKNSIKKLKKITDNKEIQKLT 168
Query: 63 KNSN 66
+
Sbjct: 169 NSKE 172
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 27.3 bits (61), Expect = 7.8
Identities = 21/111 (18%), Positives = 42/111 (37%), Gaps = 8/111 (7%)
Query: 73 IFIKRHLMTLGFAPGSFITISLAMVGKFAISSSNVIIPIYTAELFPTKMRNLGVGASSVP 132
+ + + I L + FA+ V + +E+FP +R G+ +
Sbjct: 369 LGASFVTGSSKSSGNVAIVFILLFIAFFAMGWGPVPW-VIVSEIFPLSLRPKGISIAVAA 427
Query: 133 AGVALILIPYLWHMQSINIHFP-----MGLLGVVGVLGGLSVLLLPDTTGL 178
+A ++ +L+ +I G L V+G++ LP+T G
Sbjct: 428 NWLANFIVGFLFPTMLESIGVGGVFIFFGGLNVLGLI--FVYFFLPETKGR 476
>gnl|CDD|188683 cd08728, RGS-like_2, Uncharacterized Regulator of G protein
Signaling (RGS) domain subfamily, child 2. These
uncharacterized RGS-like domains consists largely of
hypothetical proteins. The RGS domain is an essential
part of the Regulator of G-protein Signaling (RGS)
protein family, a diverse group of multifunctional
proteins that regulate cellular signaling events
downstream of G-protein coupled receptors (GPCRs). RGS
proteins regulate many aspects of embryonic development
such as glial differentiation, embryonic axis formation,
skeletal and muscle development, cell migration during
early embryogenesis, as well as apoptosis, cell
proliferation, and modulation of cardiac development.
Several RGS proteins can fine-tune immune responses,
while others play an important role in neuronal signal
modulation. Some RGS proteins are the principal elements
needed for proper vision.
Length = 179
Score = 26.7 bits (59), Expect = 8.1
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 40 VLMKNTIKEMREKSDKEYLEKLEKNSNGWQVCNIFIKRHLM 80
V IK + + + + W++ FI+ +
Sbjct: 114 VEPDEEIKVPLKPTKLKAPHVISSQKRAWEIFISFIRSFIK 154
>gnl|CDD|214896 smart00899, FeoA, This entry represents the core domain of the
ferrous iron (Fe2+) transport protein FeoA found in
bacteria. This domain also occurs at the C-terminus in
related proteins. The transporter Feo is composed of
three proteins: FeoA a small, soluble SH3-domain
protein probably located in the cytosol; FeoB, a large
protein with a cytosolic N-terminal G-protein domain
and a C-terminal integral inner-membrane domain
containing two 'Gate' motifs which likely functions as
the Fe2+ permease; and FeoC, a small protein apparently
functioning as an [Fe-S]-dependent transcriptional
repressor. Feo allows the bacterial cell to acquire
iron from its environment.
Length = 72
Score = 25.2 bits (56), Expect = 9.5
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 75 IKRHLMTLGFAPGSFITI 92
+ R L+ LG PG+ +T+
Sbjct: 24 LLRRLLELGLVPGTEVTV 41
>gnl|CDD|221853 pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase
domain. This domain represents the N-terminal
glycosyltransferase from a set of toxins found in some
bacteria. This domain in TcdB glycosylates the host
RhoA protein.
Length = 472
Score = 27.0 bits (60), Expect = 9.7
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 28 YNKEKYIDKNN--VVLMKNTIKEMREKSDKEYLEKLEKNSNGWQVCNIFIKR 77
Y + D N K+T+KE E L E ++ N FI++
Sbjct: 31 YTFNLWYDSNAFLAAKFKSTLKESAFDHALESLR--ENLNDPSFDSNKFIRK 80
>gnl|CDD|211393 cd11381, NSA2, pre-ribosomal protein NSA2 (Nop seven-associated
2). NSA2 appears to be a protein required for the
maturation of 27S pre-rRNA in yeast; it has been
characterized in mammalian cells as a nucleolar protein
that might play a role in the regulation of the cell
cycle and in cell proliferation.
Length = 257
Score = 26.4 bits (59), Expect = 10.0
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 28 YNKEKYIDKNNVVLMKNTIKEMREKSDKE 56
YNK++Y +K + MK TIK E++ K+
Sbjct: 47 YNKKRYKEK---IQMKKTIKMHEERNVKQ 72
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
0.323 0.140 0.424
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,175,549
Number of extensions: 1069993
Number of successful extensions: 1376
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1371
Number of HSP's successfully gapped: 85
Length of query: 213
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 120
Effective length of database: 6,812,680
Effective search space: 817521600
Effective search space used: 817521600
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: 57 (25.6 bits)