RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10147
(179 letters)
>gnl|CDD|129972 TIGR00894, 2A0114euk, Na(+)-dependent inorganic phosphate
cotransporter. [Transport and binding proteins,
Anions].
Length = 465
Score = 70.5 bits (173), Expect = 1e-14
Identities = 38/149 (25%), Positives = 66/149 (44%), Gaps = 6/149 (4%)
Query: 35 WISFISHWSLWSVYIAHFAMNWSTYIIMQWLPTYMSSYLGANSHSLSF-TAMPYVLNSLF 93
+ +W+++ A F W I+ +LPT++S L + +++PY+ L
Sbjct: 254 IKAIPKSLPVWAIWFAIFGHFWLYTILPTYLPTFISWVLRVSGKENGLLSSLPYLFAWLC 313
Query: 94 CIVAGHFADNLVSHSWTVLT-VRRLMTSIGLIGPAVFLIFF----CAVDNLLFAVIISMG 148
I AG+ AD L S LT R++ IG +GP +F A + + ++
Sbjct: 314 SIFAGYLADFLKSSKTLSLTAARKIFNGIGGLGPGIFAYALPYLSAAFYLTIIILTLANA 373
Query: 149 LSAFNSAGFLASHADIAPNHAGVTFAISN 177
+S+ AG L + D+AP G I+
Sbjct: 374 VSSGPLAGVLINSLDLAPRFLGFIKGITG 402
>gnl|CDD|233174 TIGR00893, 2A0114, D-galactonate transporter. [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 399
Score = 41.2 bits (97), Expect = 1e-04
Identities = 22/110 (20%), Positives = 45/110 (40%), Gaps = 3/110 (2%)
Query: 44 LWSVYIAHFAMNWSTYIIMQWLPTYMSSYLGANS-HSLSFTAMPYVLNSLFCIVAGHFAD 102
+W + + F +N + W PTY+ G + + ++P ++ + I+ G +D
Sbjct: 217 VWGLALGQFLVNIGLGFFLTWFPTYLVQERGLSILEAGFMASLPGIVGFIGMILGGRLSD 276
Query: 103 NLVSHSWTVLTVRRLMTSIGLIGPAVFLIFFCAVDNLLFAVIISMGLSAF 152
L+ + L R I + L+F N+ +A + + L F
Sbjct: 277 LLLRRGKS-LVFARKTAIIAGLV-LSLLMFATNYVNIPYAALALVALGFF 324
>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 = 36.5 bits (85), Expect = 0.004
Identities = 23/146 (15%), Positives = 54/146 (36%), Gaps = 5/146 (3%)
Query: 35 WISFISHWSLWSVYIAHFAMNWSTYIIMQWLPTYMSSYLG-ANSHSLSFTAMPYVLNSLF 93
+ L + +A F +++ Y ++ +LP Y+ LG + + + ++ + L
Sbjct: 168 LLLLFLLRLLLLLALAFFLLSFGYYGLLTYLPLYLQEVLGLSAAEAGLLLSLFGLGGILG 227
Query: 94 CIVAGHFADNLVSHSWTVLTVRRLMTSIGLIGPAVFLIFFCAVDNLLFAVIISMGLSAFN 153
++ G +D L +L + + +G + + L+ +++ GL
Sbjct: 228 ALLGGLLSDRLGRRRLLLL----IGLLLAALGLLLLALAPSLALLLVALLLLGFGLGFAF 283
Query: 154 SAGFLASHADIAPNHAGVTFAISNTL 179
A + P G + NT
Sbjct: 284 PALLTLASELAPPEARGTASGLFNTF 309
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 34.7 bits (80), Expect = 0.018
Identities = 22/168 (13%), Positives = 55/168 (32%), Gaps = 2/168 (1%)
Query: 12 RPTVPPPQPPPSAKMVTITNGPRWISFISHWSLWSVYIAHFAMNWSTYIIMQWLPTYMSS 71
P PP P + + + +A ++ + ++ +LP Y
Sbjct: 172 LPRPPPESKRPKPAEEAPAPLVPAWKLLLRDPVLWLLLALLLFGFAFFALLTYLPLYQEV 231
Query: 72 YLGANSHSLSFTAMPYVLNSLFCIVAGHFADNLVSHSWTVLTVRRLMTSIGLIGPAVFLI 131
+ + + +L ++ ++ G +D L +L + L+ + +G A+ +
Sbjct: 232 LGLSALLAGLLLGLAGLLGAIGRLLLGRLSDRLGRRRRLLLAL--LLLILAALGLALLSL 289
Query: 132 FFCAVDNLLFAVIISMGLSAFNSAGFLASHADIAPNHAGVTFAISNTL 179
++ L+ +++ G A G + NT
Sbjct: 290 TESSLWLLVALLLLGFGAGLVFPALNALVSDLAPKEERGTASGLYNTA 337
Score = 27.4 bits (61), Expect = 5.0
Identities = 23/117 (19%), Positives = 46/117 (39%), Gaps = 10/117 (8%)
Query: 47 VYIAHFAMNWSTYIIMQWLPTYMSSYLGANSHSLSF-TAMPYVLNSLFCIVAGHFADNLV 105
+++A F ++ LP Y++ LG + + + +L +AG +D
Sbjct: 1 LFLAAFLAGLGRSLLGPALPLYLAEDLGISPTEIGLLLTAFSLGYALAQPLAGRLSDRFG 60
Query: 106 SHSWTVLTVRRLMTSIGLIGPAVFLIFFCAVDNLLFAVIISMGLSAFNSAGFLASHA 162
RR + IGL+ A+ L+ +L +++ + A F A+ A
Sbjct: 61 ---------RRRVLLIGLLLFALGLLLLLFASSLWLLLVLRVLQGLGGGALFPAAAA 108
>gnl|CDD|233175 TIGR00895, 2A0115, benzoate transport. [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 398
Score = 34.3 bits (79), Expect = 0.022
Identities = 32/140 (22%), Positives = 50/140 (35%), Gaps = 20/140 (14%)
Query: 44 LWSVYIAHFAMNWSTYIIMQWLPTYMSSYLGANSHSLSFTAMPYVLNSLFCIVAGHFADN 103
LW +Y F + Y + WLP M + S + + A+ + I+ G AD
Sbjct: 255 LWLLY---FMLLVGVYFLTNWLPKLMVELGFSLSLAATGGALFNFGGVIGSIIFGWLADR 311
Query: 104 LVSHSWTVLTVRRLMTSIGLIGPAVFLI----FFCAVDNLLFAVIISMGLSAFNSAGFLA 159
L +T++ L+ AVF + + LL I+ +G A
Sbjct: 312 L----------GPRVTALLLLLGAVFAVLVGSTLFSPTLLLLLGAIAGFFVNGGQSGLYA 361
Query: 160 SHADIAPNHA---GVTFAIS 176
A P GV +AI
Sbjct: 362 LMALFYPTAIRATGVGWAIG 381
>gnl|CDD|236658 PRK10153, PRK10153, DNA-binding transcriptional activator CadC;
Provisional.
Length = 517
Score = 30.4 bits (69), Expect = 0.45
Identities = 21/131 (16%), Positives = 40/131 (30%), Gaps = 19/131 (14%)
Query: 4 PDVEPVSRRPTVPPPQPPPSAKMVTITNGPRWISFISHWSLWSVYIAHFAMNWSTYIIMQ 63
P S P PP + + + + W L F ++ +++
Sbjct: 128 PATAEPSESANAQFPAPPLTRAVCQSPAKSKRFTTFWVWRL-------FLLSLGICVLL- 179
Query: 64 WLPTYMSSYLGANSHSLSFTAMPYVLNS---LFCIVAGHFADNLVS-HSWTVLTVRRLMT 119
MSS ++ + +LN F G+ +N S S+ + LM
Sbjct: 180 ---VAMSSL----TYRQPVVKIRQLLNPRDIDFRFQNGNSCNNWSSQLSYADGIGQLLMA 232
Query: 120 SIGLIGPAVFL 130
+ + V
Sbjct: 233 DLNTVSTFVVH 243
>gnl|CDD|227459 COG5130, YIP3, Prenylated rab acceptor 1 and related proteins
[Intracellular trafficking and secretion / Signal
transduction mechanisms].
Length = 169
Score = 29.5 bits (66), Expect = 0.74
Identities = 22/97 (22%), Positives = 33/97 (34%), Gaps = 6/97 (6%)
Query: 68 YMSSYLGANSHSLSFTAMPYVLNSLFCI---VAGHFADNLVSHSWTVLTVRRLMTS---I 121
SS A L+ + Y L L I VAG + + V + S
Sbjct: 60 RFSSNYLAIIAILTIYYLLYNLLLLIVIGIVVAGVYGIRKLRGRPLVCNIELEPRSVLYA 119
Query: 122 GLIGPAVFLIFFCAVDNLLFAVIISMGLSAFNSAGFL 158
GL+ + FF + L + + G+ F A L
Sbjct: 120 GLVCVLIPFGFFASPIVTLLWLSGASGVVVFGHAALL 156
>gnl|CDD|192726 pfam11232, Med25, Mediator complex subunit 25 PTOV activation and
synapsin 2. Mediator is a large complex of up to 33
proteins that is conserved from plants to fungi to
humans - the number and representation of individual
subunits varying with species. It is arranged into four
different sections, a core, a head, a tail and a
kinase-active part, and the number of subunits within
each of these is what varies with species. Overall,
Mediator regulates the transcriptional activity of RNA
polymerase II but it would appear that each of the four
different sections has a slightly different function.
The overall function of the full-length Med25 is
efficiently to coordinate the transcriptional activation
of RAR/RXR (retinoic acid receptor/retinoic X receptor)
in higher eukaryotic cells. Human Med25 consists of
several domains with different binding properties, the
N-terminal, VWA domain, an SD1 - synapsin 1 - domain
from residues 229-381, a PTOV(B) or ACID domain from
395-545, an SD2 domain from residues 564-645 and a
C-terminal NR box-containing domain (646-650) from
646-747. This family is the combined PTOV and SD2
domains. the PTOV domain being the domain through which
Med25 co-operates with the histone acetyltransferase
CBP, but the function of the SD2 domain is unclear.
Length = 151
Score = 29.0 bits (65), Expect = 0.93
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 9/72 (12%)
Query: 39 ISHWSLWSVYIAH----FAMNWSTYIIMQWLPTYMSSYLGA---NSH--SLSFTAMPYVL 89
I+ VY+ W +IMQ +P + LG NS FT L
Sbjct: 28 ITRTLQCQVYVNIKEGIKTEQWPQKLIMQLIPQQLLGTLGPLFKNSKMVQFHFTNDGESL 87
Query: 90 NSLFCIVAGHFA 101
SL I+ FA
Sbjct: 88 KSLARIMGNGFA 99
>gnl|CDD|218549 pfam05308, Mito_fiss_reg, Mitochondrial fission regulator. In
eukaryotes, this family of proteins induces
mitochondrial fission.
Length = 248
Score = 29.3 bits (66), Expect = 1.1
Identities = 12/28 (42%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 2 SSPDVEPVS-RRPTVPPPQPPPSAKMVT 28
S P EPV P PPP PPP +
Sbjct: 173 SPPTEEPVLEVPPPPPPPPPPPPPSLQQ 200
>gnl|CDD|221121 pfam11489, DUF3210, Protein of unknown function (DUF3210). This is
a family of proteins conserved in yeasts. The function
is not known. The Schizosaccharomyces pombe member is
SPBC18E5.07 and the Saccharomyces cerevisiae member is
AIM21.
Length = 671
Score = 29.5 bits (66), Expect = 1.1
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 7/37 (18%)
Query: 11 RRPTVPPPQPPPSAKMVTITNGPRWISFISHWSLWSV 47
RR P + K+ I + +S I WS+W +
Sbjct: 641 RRK---PATVAATEKLPEIPS----VSIIEIWSVWQI 670
>gnl|CDD|130403 TIGR01336, psaB, photosystem I core protein PsaB. The core
proteins of photosystem I are PsaA and PsaB, homologous
integral membrane proteins that form a heterodimer. The
heterodimer binds the electron-donating chlorophyll
dimer P700, as well as chlorophyll, phylloquinone, and
4FE-4S electron acceptors. This model describes PsaB
only [Energy metabolism, Photosynthesis].
Length = 734
Score = 29.2 bits (65), Expect = 1.4
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 9/61 (14%)
Query: 35 WISFISHW---SLWSVYIAHFAMNWSTYIIMQWLPTYMSSYLGANSHSLSFTAMPYVLNS 91
W++F HW ++W ++ F N S+ +M W YL NS L PY +N+
Sbjct: 589 WVTFYWHWKHITIWQGNVSQF--NESSTYLMGWF----RDYLWLNSSQLINGYNPYGMNN 642
Query: 92 L 92
L
Sbjct: 643 L 643
>gnl|CDD|234098 TIGR03044, PS_II_psb27, photosystem II protein Psb27. Members of
this family are the Psb27 protein of the cyanobacterial
photosynthetic supracomplex, photosystem II. Although
most protein components of both cyanobacterial and
chloroplast versions of photosystem II are closely
related and described together by single family models,
this family is strictly bacterial. Some uncharacterized
proteins with highly divergent sequences from
Arabidopsis are not, at this time, assigned as
functionally equivalent photosystem II proteins [Energy
metabolism, Photosynthesis].
Length = 135
Score = 28.1 bits (63), Expect = 1.4
Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 68 YMSSYLGANSHS--LSFTAMPYVLNSLFCIVAGHFA 101
Y+S Y + SFT M LNSL AGH+
Sbjct: 75 YISRYRRRPRVNGLSSFTTMQTALNSL----AGHYK 106
>gnl|CDD|217310 pfam02993, MCPVI, Minor capsid protein VI. This minor capsid
protein may act as a link between the external capsid
and the internal DNA-protein core. The C-terminal 11
residues may function as a protease cofactor leading to
enzyme activation.
Length = 238
Score = 28.2 bits (63), Expect = 1.9
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 4 PDVEPVSRRPTVPPPQPPPSAKMVTITNGPR 34
P P VP PPS + TI GP
Sbjct: 131 PRPRPDVEEVLVPAAPEPPSYE-ETIKPGPA 160
>gnl|CDD|236768 PRK10819, PRK10819, transport protein TonB; Provisional.
Length = 246
Score = 28.1 bits (63), Expect = 2.5
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 2 SSPDVEPVSRRPTVPPPQPPPSAKMVTITNGPRWIS 37
+SP RPT S + ++++GPR +S
Sbjct: 129 ASPFENTAPARPTSSTATAAASKPVTSVSSGPRALS 164
>gnl|CDD|226165 COG3639, COG3639, ABC-type phosphate/phosphonate transport system,
permease component [Inorganic ion transport and
metabolism].
Length = 283
Score = 28.0 bits (63), Expect = 2.8
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 100 FADNLVSHSWTVLTVRRLMTSIGLIGPAV-FLIFFCAVDNLLFAVIISMGLSAFNSAGFL 158
A NL W VRRL+ I I V L+F A FA ++++G + G L
Sbjct: 116 AARNLSPKRWISFPVRRLLDFIRTIPELVWALLFVAAFGLGPFAGVLALG---IYTIGIL 172
Query: 159 A 159
Sbjct: 173 G 173
>gnl|CDD|234155 TIGR03282, methan_mark_13, putative methanogenesis marker 13
metalloprotein. Members of this protein family, to
date, are found in a completed prokaryotic genome if and
only if the species is one of the archaeal methanogens.
The exact function is unknown, but likely is linked to
methanogenesis or a process closely connected to it.
This metal cluster-binding family is related to
nitrogenase structural protein NifD and accessory
protein NifE, among others [Energy metabolism,
Methanogenesis].
Length = 352
Score = 27.0 bits (60), Expect = 5.1
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 4 PDVEPVSRRPTVPPPQPPPSAKMVTITNGPR 34
PD ++ P P + + + +T+GPR
Sbjct: 280 PDFAVITGVPHAVPIEELDGIECIAVTDGPR 310
>gnl|CDD|223042 PHA03322, PHA03322, tegument protein VP11/12; Provisional.
Length = 674
Score = 27.3 bits (60), Expect = 5.9
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 86 PYVLNSL-----FCIVAGHFADNLVSHSWTVL 112
Y+L++L F AG + HSW L
Sbjct: 359 TYILSALRSQGRFLYFAGRLVPTMSVHSWVEL 390
>gnl|CDD|225371 COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport
and metabolism].
Length = 394
Score = 26.8 bits (60), Expect = 6.6
Identities = 25/168 (14%), Positives = 61/168 (36%), Gaps = 15/168 (8%)
Query: 14 TVPPPQPPPSAKMVTITNGPRWISFISHWSLWSVYIAHFAMNWSTYIIMQWLPTYMSSYL 73
+PP + S + + + +A F + + ++ ++ S
Sbjct: 187 LLPPSEISGSLP----GPLRTLLRLLRRPGVLLGLLATFLFMTGHFALYTYIRPFLESVA 242
Query: 74 GANSHSLSFTAMPYVLNSLF-CIVAGHFADNLVSHSWTVLTVRRLMTSIGLIGPAVFLIF 132
G + ++S + + + ++ G AD R L+ ++ L+ A+ +
Sbjct: 243 GFSVSAVSLVLLAFGIAGFIGNLLGGRLADR--------GPRRALIAALLLLALALLALT 294
Query: 133 FCAVDNLLFAVIISMGLSAFNSA--GFLASHADIAPNHAGVTFAISNT 178
F L ++ + AF+ A G A +AP+ A + +++
Sbjct: 295 FTGASPALALALLFLWGFAFSPALQGLQTRLARLAPDAADLAGSLNVA 342
>gnl|CDD|221035 pfam11225, DUF3024, Protein of unknown function (DUF3024). This
family of proteins has no known function.
Length = 57
Score = 25.0 bits (55), Expect = 7.0
Identities = 6/25 (24%), Positives = 10/25 (40%)
Query: 35 WISFISHWSLWSVYIAHFAMNWSTY 59
++F LW +Y + W Y
Sbjct: 8 KLTFDKSTGLWKLYWMDHDLKWHPY 32
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 26.6 bits (58), Expect = 8.0
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 4/26 (15%)
Query: 4 PDVE--PVSRRPTVPPPQPPP--SAK 25
P VE PV+ +P P PPP SAK
Sbjct: 199 PKVESAPVAEKPKAPSSPPPPKQSAK 224
>gnl|CDD|220240 pfam09435, DUF2015, Fungal protein of unknown function (DUF2015).
This is a fungal family of uncharacterized proteins.
Length = 124
Score = 25.8 bits (57), Expect = 8.1
Identities = 9/43 (20%), Positives = 15/43 (34%)
Query: 37 SFISHWSLWSVYIAHFAMNWSTYIIMQWLPTYMSSYLGANSHS 79
S + + + W + +P+Y S L NS S
Sbjct: 7 SLVLSVLVCGTALYLTRHRWLPLLARVPIPSYFYSRLPLNSSS 49
>gnl|CDD|147296 pfam05038, Cytochrom_B558a, Cytochrome Cytochrome b558
alpha-subunit. Cytochrome b-245 light chain (p22-phox)
is one of the key electron transfer elements of the
NADPH oxidase in phagocytes.
Length = 186
Score = 26.0 bits (57), Expect = 9.7
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 4 PDVEPVSRRPTVPPPQPPPSAK 25
P + + P+ PPP+PP A+
Sbjct: 142 PVGGTIKQPPSNPPPRPPAEAR 163
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
0.325 0.135 0.438
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,389,654
Number of extensions: 861765
Number of successful extensions: 1805
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1781
Number of HSP's successfully gapped: 95
Length of query: 179
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 88
Effective length of database: 6,901,388
Effective search space: 607322144
Effective search space used: 607322144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.3 bits)