RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7928
(87 letters)
>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 = 48.1 bits (115), Expect = 5e-08
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 13 TIIVGTIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYFYLKNSGSDVSNIGW 72
+IIVG + T++A +VDR GRR LLL+ A MA+ +G +GS S G
Sbjct: 325 SIIVGAVNFAFTFVAIFLVDRFGRRPLLLIGAAGMAICLFVLGILGASFVTGSSKS-SGN 383
Query: 73 LPLGSLCVFIIVFSL 87
+ + + +FI F++
Sbjct: 384 VAIVFILLFIAFFAM 398
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 45.8 bits (109), Expect = 3e-07
Identities = 22/57 (38%), Positives = 33/57 (57%)
Query: 8 NPNLCTIIVGTIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYFYLKNSG 64
L TIIVG I + T +A M VD+ GR+ L ++ A+ MA+ ++G FY + G
Sbjct: 307 IALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQAPG 363
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 43.8 bits (104), Expect = 1e-06
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 8 NPNLCTIIVGTIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYFYLKNSGSDV 67
+ L TIIVG + V T+IA +VDR GRR LLL+ A MA+ L +G
Sbjct: 287 DSLLVTIIVGVVNFVFTFIAIFLVDRFGRRPLLLLGAAGMAICFLVLGVALLGVAKSKGA 346
Query: 68 SNIGWLPLGSLCVFIIVFSL 87
+ + + +FI F+L
Sbjct: 347 GIVA---IVFILLFIAFFAL 363
Score = 26.1 bits (58), Expect = 2.6
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 21 MVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMG 55
++ + A + DR GR+ LL+ V+ + L G
Sbjct: 60 LIGSLFAGKLGDRFGRKKSLLIGNVLFVIGALLQG 94
>gnl|CDD|213356 cd12822, TmCorA-like, Thermotoga maritima CorA-like family. This
family belongs to the MIT superfamily of essential
membrane proteins involved in transporting divalent
cations (uptake or efflux) across membranes. Members of
the Thermotoga maritima CorA_like family are found in
all three kingdoms of life. It is a functionally diverse
family, in addition to the CorA Co2+ transporter from
the hyperthermophilic Thermotoga maritima, it includes
three Saccharomyces cerevisiae members: two plasma
membrane proteins, the Mg2+ transporter Alr1p/Swc3p and
the putative Mg2+ transporter, Alr2p, and the vacuole
membrane protein Mnr2p, a putative Mg2+ transporter.
Thermotoga maritima CorA forms funnel-shaped
homopentamers, the tip of the funnel is formed from two
C-terminal transmembrane (TM) helices from each monomer,
and the large opening of the funnel from the N-terminal
cytoplasmic domains. The GMN signature motif of the MIT
superfamily occurs just after TM1, mutation within this
motif is known to abolish Mg2+ transport by Alr1p.
Natural variants in this signature sequence may be
associated with the transport of different divalent
cations. The functional diversity of the MIT superfamily
may also be due to minor structural differences
regulating gating, substrate selection, and transport.
Length = 289
Score = 29.8 bits (68), Expect = 0.11
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 6/54 (11%)
Query: 15 IVGTIMMVTTWIAT---MIVDRLG---RRILLLVSAVIMALSTLTMGYYFYLKN 62
I+ TI + T+I M + + + IM L + ++F K
Sbjct: 234 IITTIFLPLTFITGIYGMNFEYMPELHWPYGYFIVLGIMLLIAGGLLWWFRRKK 287
>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 = 29.6 bits (66), Expect = 0.16
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 15 IVGTIMMVTTWIATMIVDRLGRRILLLVS----AVIMALSTLTMGYYFYL 60
IV MMV + + D+LGR+ LL+ S+ GY F+L
Sbjct: 210 IVYLGMMVGAFFWGGLADKLGRKQCLLICLSVNGFFAFFSSFVQGYGFFL 259
>gnl|CDD|241451 cd13297, PH3_MyoX-like, Myosin X-like Pleckstrin homology (PH)
domain, repeat 3. MyoX, a MyTH-FERM myosin, is a
molecular motor that has crucial functions in the
transport and/or tethering of integrins in the
actin-based extensions known as filopodia, microtubule
binding, and in netrin-mediated axon guidance. It
functions as a dimer. MyoX walks on bundles of actin,
rather than single filaments, unlike the other
unconventional myosins. MyoX is present in organisms
ranging from humans to choanoflagellates, but not in
Drosophila and Caenorhabditis elegans.MyoX consists of
a N-terminal motor/head region, a neck made of 3 IQ
motifs, and a tail consisting of a coiled-coil domain,
a PEST region, 3 PH domains, a myosin tail homology 4
(MyTH4), and a FERM domain at its very C-terminus. The
first PH domain in the MyoX tail is a split-PH domain,
interupted by the second PH domain such that PH 1a and
PH 1b flanks PH 2. The third PH domain (PH 3) follows
the PH 1b domain. This cd contains the third MyoX PH
repeat. PLEKHH3/Pleckstrin homology (PH) domain
containing, family H (with MyTH4 domain) member 3 is
also part of this CD and like MyoX contains a FERM
domain, a MyTH4 domain, and a single PH domain. Not
much is known about the function of PLEKHH3. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 123
Score = 27.3 bits (61), Expect = 0.58
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 59 YLKNSGSDVSNIGWLPLGSLC 79
Y K+S + +G L L SLC
Sbjct: 45 YYKSSERNALKLGSLVLNSLC 65
>gnl|CDD|237902 PRK15075, PRK15075, citrate-proton symporter; Provisional.
Length = 434
Score = 27.6 bits (62), Expect = 0.75
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 31 VDRLGRRILLLVSAVIMALSTLT 53
+DR+GRR L+V+ IMA TL
Sbjct: 80 IDRVGRRKGLIVTLSIMASGTLL 102
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 27.7 bits (62), Expect = 0.80
Identities = 9/37 (24%), Positives = 24/37 (64%)
Query: 20 MMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGY 56
+++ +++ + DR GR+ +LL+S ++ A+S + +
Sbjct: 140 VLLGSFVFGYLSDRFGRKKVLLLSTLVTAVSGVLTAF 176
>gnl|CDD|237958 PRK15403, PRK15403, multidrug efflux system protein MdtM;
Provisional.
Length = 413
Score = 27.5 bits (61), Expect = 0.89
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 21 MVTTWIATMIVDRLGRRILLLVSAVIMALSTLTM 54
M W+ + DR+GRR +L+ A+I L+
Sbjct: 65 MALQWLLGPLSDRIGRRPVLITGALIFTLACAAT 98
>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 = 27.2 bits (61), Expect = 0.92
Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 13 TIIVGTIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYFYLKNSGS 65
++ + +T ++ + DR+GRR +L++ V+ AL + + L +SGS
Sbjct: 261 LMLSLILFFITIPLSGALSDRIGRRPVLIIFTVLAALLAVPL--LMALLDSGS 311
Score = 27.2 bits (61), Expect = 0.94
Identities = 9/24 (37%), Positives = 18/24 (75%)
Query: 32 DRLGRRILLLVSAVIMALSTLTMG 55
DR+GR+ L+++ ++M + TL +G
Sbjct: 60 DRIGRKKTLVITLLMMGIGTLLIG 83
>gnl|CDD|182486 PRK10473, PRK10473, multidrug efflux system protein MdtL;
Provisional.
Length = 392
Score = 26.5 bits (59), Expect = 1.7
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 20 MMVTTWIATMIVDRLGRRILLLVSAVIMALSTL 52
M A I DR GR+ + + A + +++L
Sbjct: 51 MAAAMLFAGKIADRSGRKPVAIPGAALFIIASL 83
>gnl|CDD|225700 COG3158, Kup, K+ transporter [Inorganic ion transport and
metabolism].
Length = 627
Score = 26.4 bits (59), Expect = 1.8
Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 14 IIVGTIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYFYLKNSGSDVSNIGWL 73
I V M++TT + T+++ + + LV+ +++ + + F+ N + + GWL
Sbjct: 374 IAVTGTMVITTILLTVVMRKKWKWRKWLVALILIVFLAIDIL--FFAANL-LKIHDGGWL 430
Query: 74 PLGSLCVFIIV 84
PL V V
Sbjct: 431 PLLLAAVIFFV 441
>gnl|CDD|182127 PRK09874, PRK09874, drug efflux system protein MdtG; Provisional.
Length = 408
Score = 26.4 bits (58), Expect = 2.0
Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 7/58 (12%)
Query: 2 GHGVLWNPNLCTIIVGTIMMVTTWIATM----IVDRLGRRILLLVSAVIMALSTLTMG 55
GH L N+ + +V +I + + IA+ + DR GR+I+LL SA+ M + + MG
Sbjct: 48 GHSAL---NMWSGLVFSITFLFSAIASPFWGGLADRKGRKIMLLRSALGMGIVMVLMG 102
>gnl|CDD|222572 pfam14155, DUF4307, Domain of unknown function (DUF4307). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 132 and 153 amino
acids in length. There is a single completely conserved
residue C that may be functionally important.
Length = 112
Score = 25.7 bits (57), Expect = 2.1
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 36 RRILLLVSAVIMALSTLTMGYYFYLKNSGSDVS 68
RR LL V AV++ ++ + + + Y + G DVS
Sbjct: 3 RRKLLAVGAVLVVVALVLVAWIGYQQVGGPDVS 35
>gnl|CDD|217947 pfam04184, ST7, ST7 protein. The ST7 (for suppression of
tumorigenicity 7) protein is thought to be a tumour
suppressor gene. The molecular function of this protein
is uncertain.
Length = 540
Score = 26.4 bits (58), Expect = 2.2
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 42 VSAVIMALSTLTMGYYFYLKNSGSDVSNI 70
++AV + L+TLT +Y L + S +S +
Sbjct: 33 LNAVTVFLNTLTPKFYVALTGTSSLISGL 61
>gnl|CDD|215077 PLN00148, PLN00148, potassium transporter; Provisional.
Length = 785
Score = 26.3 bits (58), Expect = 2.4
Identities = 16/70 (22%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 18 TIMMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGYYF---YLKNSGSDVSNIGWLP 74
T+M +TT++ +++ I + ++I+A L + YL + V GW+P
Sbjct: 428 TVMFITTFLMALVI------IFVWQKSIILAALFLLFFGFIEGVYLSAALMKVPQGGWVP 481
Query: 75 LGSLCVFIIV 84
L +F+ +
Sbjct: 482 LVLSAIFMSI 491
>gnl|CDD|235909 PRK07021, fliL, flagellar basal body-associated protein FliL;
Reviewed.
Length = 162
Score = 26.0 bits (58), Expect = 2.6
Identities = 5/31 (16%), Positives = 16/31 (51%)
Query: 36 RRILLLVSAVIMALSTLTMGYYFYLKNSGSD 66
R++ L++ +++ + GY ++L +
Sbjct: 16 RKLWLIILILLLLAAAAGAGYSWWLSKEQAT 46
>gnl|CDD|182611 PRK10642, PRK10642, proline/glycine betaine transporter;
Provisional.
Length = 490
Score = 25.8 bits (57), Expect = 3.2
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 29 MIVDRLGRRILLLVSAVIMALSTLTMG 55
M+ D+ GR+ +L ++ VIM++ST +G
Sbjct: 79 MLGDKYGRQKILAITIVIMSISTFCIG 105
>gnl|CDD|130559 TIGR01495, ETRAMP, Plasmodium ring stage membrane protein ETRAMP.
This model describes a family of proteins from the
malaria parasite Plasmodium falciparum, several of
which have been shown to be expressed specifically in
the ring stage as well as the rident parasite
Plasmodium yoelii. A homolog from Plasmodium chabaudi
was localized to the parasitophorous vacuole membrane.
Members have an initial hydrophobic, Phe/Tyr-rich
stretch long enough to span the membrane, a highly
charged region rich in Lys, a second putative
transmembrane region, and a second highly charged, low
complexity sequence region. Some members have up to 100
residues of additional C-terminal sequence. These genes
have been shown to be found in the sub-telomeric
regions of both P. falciparum and P. yoelii
chromosomes.
Length = 85
Score = 25.0 bits (55), Expect = 3.5
Identities = 9/37 (24%), Positives = 18/37 (48%), Gaps = 5/37 (13%)
Query: 36 RRILLLVSAVIMALSTLT-----MGYYFYLKNSGSDV 67
+ ++L S++ L+ L +GYY+ KN +
Sbjct: 48 NKKIILYSSIASGLALLVGAGVGLGYYYKKKNKDDEK 84
>gnl|CDD|236281 PRK08517, PRK08517, DNA polymerase III subunit epsilon;
Provisional.
Length = 257
Score = 25.4 bits (56), Expect = 4.2
Identities = 8/13 (61%), Positives = 8/13 (61%)
Query: 2 GHGVLWNPNLCTI 14
G G L N LCTI
Sbjct: 170 GLGPLLNRKLCTI 182
>gnl|CDD|129479 TIGR00383, corA, magnesium Mg(2+) and cobalt Co(2+) transport
protein (corA). The article in Microb Comp Genomics
1998;3(3):151-69 (Medline:98448512) discusses this
family and suggests that some members may have functions
other than Mg2+ transport [Transport and binding
proteins, Cations and iron carrying compounds].
Length = 318
Score = 25.4 bits (56), Expect = 4.4
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 15 IVGTIMMVTTWIAT---MIVD---RLGRRILLLVSAVIMALSTLTMGYYFYLKN 62
+V TI + T+IA M L + ++MA+ L YF K
Sbjct: 263 VVSTIFIPLTFIAGIYGMNFKFMPELNWKYGYPAVLIVMAVIALGPLIYFRRKG 316
>gnl|CDD|233175 TIGR00895, 2A0115, benzoate transport. [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 398
Score = 25.0 bits (55), Expect = 5.9
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 20 MMVTTWIATMIVDRLGRRILLLVSAVIMALSTLTMGY 56
M + DR+GRR +LL S ++ ++ TL
Sbjct: 65 MAFGALFFGPLADRIGRRRVLLWSILLFSVFTLLCAL 101
>gnl|CDD|182163 PRK09952, PRK09952, shikimate transporter; Provisional.
Length = 438
Score = 25.1 bits (55), Expect = 6.2
Identities = 9/24 (37%), Positives = 18/24 (75%)
Query: 32 DRLGRRILLLVSAVIMALSTLTMG 55
DRLGR+ +L+++ +M ++T +G
Sbjct: 89 DRLGRKRMLMLTVWMMGIATALIG 112
>gnl|CDD|218168 pfam04602, Arabinose_trans, Mycobacterial cell wall arabinan
synthesis protein. Arabinosyltransferase is involved in
arabinogalactan (AG) biosynthesis pathway in
mycobacteria. AG is a component of the macromolecular
assembly of the mycolyl-AG-peptidoglycan complex of the
cell wall. This enzyme has important clinical
applications as it is believed to be the target of the
antimycobacterial drug Ethambutol.
Length = 1075
Score = 24.7 bits (54), Expect = 7.4
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 17 GTIMMVTTWIATMIVDRLGRRILLLVSAV--IMALSTLTMGYYFYLKNSGSDVSNI 70
G + + + V R R + ++A+ ++AL+ ++Y+ N G +N
Sbjct: 570 GALGALAAVAVSRTVLRSRRNRTVFLAALLFVLALAFAGTNGWWYVSNYGVPWNNS 625
>gnl|CDD|213339 cd05137, RasGAP_CLA2_BUD2, Ras-GTPase Activating Domain of
CLA2/BUD2. CLA2/BUD2 functions as a GTPase-activating
protein (GAP) for BUD1/RSR1 and is necessary for proper
bud-site selection in yeast. BUD2 has sequence
similarity to the catalytic domain of RasGAPs, and
stimulates the hydrolysis of BUD1-GTP to BUD1-GDP.
Elimination of Bud2p activity by mutation causes a
random budding pattern with no growth defect.
Overproduction of Bud2p also alters the budding pattern.
Length = 356
Score = 24.8 bits (55), Expect = 7.4
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 36 RRILLLVSAVIMALSTLTM 54
+R L L++ V+ L+ LT
Sbjct: 242 QRTLTLIAKVLQNLANLTT 260
>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein
ArcB; Provisional.
Length = 779
Score = 24.5 bits (54), Expect = 9.8
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 33 RLG--RRILLLVSAVIMALSTLTMGYYFYLKNSGSDVSNIG 71
+LG R LLL A+++ + M L V +I
Sbjct: 17 KLGLVRFSLLLALALVVLAMVVQMAVTMVLH---GQVESID 54
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
0.331 0.144 0.460
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,485,449
Number of extensions: 366748
Number of successful extensions: 943
Number of sequences better than 10.0: 1
Number of HSP's gapped: 931
Number of HSP's successfully gapped: 187
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.1 bits)