RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13326
(143 letters)
>gnl|CDD|217390 pfam03151, TPT, Triose-phosphate Transporter family. This family
includes transporters with a specificity for triose
phosphate.
Length = 149
Score = 78.8 bits (195), Expect = 2e-19
Identities = 30/86 (34%), Positives = 52/86 (60%)
Query: 5 HGNSQFSSDSSTKVIFLLCLDGMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSL 64
F +++ + LL L G+L++L N+ AF ++ + LT +VA KR+ VI +S+
Sbjct: 63 FILKFFGDLKTSRYVLLLLLSGVLAFLYNLSAFGLLGRTSPLTSSVAGTVKRVVVIVLSV 122
Query: 65 LALGNPVTGTNVFGMMLAICGVLAYN 90
+ G+PVT N+ G+ +AI GV+ Y+
Sbjct: 123 IIFGDPVTFLNILGLAIAILGVVLYS 148
>gnl|CDD|240371 PTZ00343, PTZ00343, triose or hexose phosphate/phosphate
translocator; Provisional.
Length = 350
Score = 60.1 bits (146), Expect = 1e-11
Identities = 25/74 (33%), Positives = 39/74 (52%)
Query: 16 TKVIFLLCLDGMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTN 75
+IF + G+ +L N +AF + V +T+AVA+ KR+ +I S++ VT
Sbjct: 273 GIIIFKIFFSGVWYYLYNEVAFYCLGKVNQVTHAVANTLKRVVIIVSSIIIFQTQVTLLG 332
Query: 76 VFGMMLAICGVLAY 89
GM +AI G L Y
Sbjct: 333 YLGMAVAILGALLY 346
>gnl|CDD|129898 TIGR00817, tpt, Tpt phosphate/phosphoenolpyruvate translocator.
The 6-8 TMS Triose-phosphate Transporter (TPT) Family
(TC 2.A.7.9)Functionally characterized members of the
TPT family are derived from the inner envelope membranes
of chloroplasts and nongreen plastids of plants.
However,homologues are also present in yeast.
Saccharomyces cerevisiae has three functionally
uncharacterized TPT paralogues encoded within its
genome. Under normal physiologicalconditions,
chloroplast TPTs mediate a strict antiport of
substrates, frequently exchanging an organic three
carbon compound phosphate ester for inorganic phosphate
(Pi).Normally, a triose-phosphate, 3-phosphoglycerate,
or another phosphorylated C3 compound made in the
chloroplast during photosynthesis, exits the organelle
into thecytoplasm of the plant cell in exchange for Pi.
However, experiments with reconstituted translocator in
artificial membranes indicate that transport can also
occur by achannel-like uniport mechanism with up to
10-fold higher transport rates. Channel opening may be
induced by a membrane potential of large magnitude
and/or by high substrateconcentrations. Nongreen plastid
and chloroplast carriers, such as those from maize
endosperm and root membranes, mediate transport of C3
compounds phosphorylated atcarbon atom 2, particularly
phosphenolpyruvate, in exchange for Pi. These are the
phosphoenolpyruvate:Pi antiporters (PPT). Glucose-6-P
has also been shown to be asubstrate of some plastid
translocators (GPT). The three types of proteins (TPT,
PPT and GPT) are divergent in sequence as well as
substrate specificity, but their substratespecificities
overlap [Hypothetical proteins, Conserved].
Length = 302
Score = 56.7 bits (137), Expect = 2e-10
Identities = 23/60 (38%), Positives = 37/60 (61%)
Query: 33 NILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMMLAICGVLAYNKV 92
+AF ++ V+ LT++V + KR+ VI VS+L G ++ VFG +AI GV Y++V
Sbjct: 235 QQVAFMLLGRVSPLTHSVGNCMKRVVVIVVSILFFGTKISPQQVFGTGIAIAGVFLYSRV 294
>gnl|CDD|224987 COG2076, EmrE, Membrane transporters of cations and cationic drugs
[Inorganic ion transport and metabolism].
Length = 106
Score = 31.7 bits (73), Expect = 0.040
Identities = 11/59 (18%), Positives = 27/59 (45%)
Query: 35 LAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMMLAICGVLAYNKVS 93
L+ ++ ++ + YA+ + + V +L G ++ + G+ L + GV+ S
Sbjct: 47 LSLALKTIPLGVAYAIWTGIGIVGTALVGVLLFGESLSLIKLLGLALILAGVIGLKLGS 105
>gnl|CDD|225308 COG2510, COG2510, Predicted membrane protein [Function unknown].
Length = 140
Score = 30.0 bits (68), Expect = 0.25
Identities = 17/82 (20%), Positives = 33/82 (40%)
Query: 6 GNSQFSSDSSTKVIFLLCLDGMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLL 65
GN Q + K L L G+ L +L F + + + + + +S+L
Sbjct: 54 GNWQAGGEIGPKSWLFLILSGLAGGLSWLLYFRALKKGKASRVVPLDKTSVVLAVLLSIL 113
Query: 66 ALGNPVTGTNVFGMMLAICGVL 87
LG ++ G++L + G +
Sbjct: 114 FLGERLSLPTWIGIVLIVIGAI 135
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 29.6 bits (67), Expect = 0.62
Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 13/75 (17%)
Query: 20 FLLCLDGMLSWLQNILAF-----------SVMSLVTSLTYAVASASKRIFVIAVSLLALG 68
+L +G+LS L ++L++ S+ S+V +T + + ++ + +L G
Sbjct: 551 GILGFEGVLSLLSDVLSYLRLLALGLAGASIASVVNLMTGLLIGSVPFGIILGIIILIFG 610
Query: 69 NPVTGTNVFGMMLAI 83
+ ++ A
Sbjct: 611 H--LLNIALSILGAG 623
>gnl|CDD|137367 PRK09541, emrE, multidrug efflux protein; Reviewed.
Length = 110
Score = 27.6 bits (61), Expect = 1.2
Identities = 17/63 (26%), Positives = 29/63 (46%)
Query: 34 ILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMMLAICGVLAYNKVS 93
+LA ++ + T + YA+ S + + +S G + + GMML GVL N +S
Sbjct: 46 LLAQTLAYIPTGIAYAIWSGVGIVLISLLSWGFFGQRLDLPAIIGMMLICAGVLVINLLS 105
Query: 94 TYT 96
Sbjct: 106 RSA 108
>gnl|CDD|227281 COG4945, COG4945, Membrane-anchored protein predicted to be
involved in regulation of amylopullulanase [Carbohydrate
transport and metabolism].
Length = 570
Score = 28.4 bits (63), Expect = 1.6
Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 5/64 (7%)
Query: 33 NILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMMLAICGVLAYNKV 92
++L S M V +LT + S S + I S + NP G + L + +
Sbjct: 451 DLLGESYMQQVAALTSLMPSCSMYTYPIMSSAFDIPNPYIAYTQGGSI-----TLTWTQT 505
Query: 93 STYT 96
T T
Sbjct: 506 YTLT 509
>gnl|CDD|218842 pfam05987, DUF898, Bacterial protein of unknown function (DUF898).
This family consists of several bacterial proteins of
unknown function. Some of the family members are
described as putative membrane proteins.
Length = 339
Score = 27.9 bits (63), Expect = 1.7
Identities = 18/110 (16%), Positives = 35/110 (31%), Gaps = 13/110 (11%)
Query: 6 GNSQFSSDSSTKVIFLLCLDGMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLL 65
G +FS +++ + L +L L + ++ + + A A+ + AV +
Sbjct: 169 GTLRFSFEATAGDFYKAYLLALLVALLFLAVLGLLLALAAGALAGAAPLGGFGLAAVGAI 228
Query: 66 ALGNPVTGTNVFGMMLAICGVLAYNKVSTYTGCARKTL--TMAQGRHHFQ 113
LG + + AY T G H F+
Sbjct: 229 ILG-------YLVLFVGYLVAAAY----YRARLRNLVWNNTTLDGEHRFR 267
>gnl|CDD|223459 COG0382, UbiA, 4-hydroxybenzoate polyprenyltransferase and related
prenyltransferases [Coenzyme metabolism].
Length = 289
Score = 28.0 bits (63), Expect = 1.9
Identities = 22/73 (30%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 18 VIFLLCLDGMLSWLQNILAFSVM--SLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTN 75
I LL L L+ L N LAF + +LV +L Y KR + +L L G
Sbjct: 100 AILLLLLGLALALLLNPLAFLLSLAALVLALAYPFL---KRFTFLPQLVLGL---AFGLG 153
Query: 76 VFGMMLAICGVLA 88
A+ G L
Sbjct: 154 ALAGAAAVGGSLP 166
>gnl|CDD|201495 pfam00893, Multi_Drug_Res, Small Multidrug Resistance protein.
This family is the Small Multidrug Resistance (SMR)
family. Several members have been shown to export a
range of toxins, including ethidium bromide and
quaternary ammonium compounds, through coupling with
proton influx.
Length = 92
Score = 26.8 bits (60), Expect = 1.9
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 35 LAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMML 81
L+ ++ S+ + YAV S + V +L G P++ + G+ L
Sbjct: 45 LSKALKSIPLGVAYAVWSGIGTVGTTLVGILLFGEPLSLKKIIGLAL 91
>gnl|CDD|234093 TIGR03025, EPS_sugtrans, exopolysaccharide biosynthesis polyprenyl
glycosylphosphotransferase. Members of this family are
generally found near other genes involved in the
biosynthesis of a variety of exopolysaccharides. These
proteins consist of two fused domains, an N-terminal
hydrophobic domain of generally low conservation and a
highly conserved C-terminal sugar transferase domain
(pfam02397). Characterized and partially characterized
members of this subfamily include Salmonella WbaP
(originally RfbP) , E. coli WcaJ , Methylobacillus EpsB,
Xanthomonas GumD, Vibrio CpsA, Erwinia AmsG, Group B
Streptococcus CpsE (originally CpsD), and Streptococcus
suis Cps2E. Each of these is believed to act in
transferring the sugar from, for instance, UDP-glucose
or UDP-galactose, to a lipid carrier such as
undecaprenyl phosphate as the first (priming) step in
the synthesis of an oligosaccharide "block". This
function is encoded in the C-terminal domain. The
liposaccharide is believed to be subsequently
transferred through a "flippase" function from the
cytoplasmic to the periplasmic face of the inner
membrane by the N-terminal domain. Certain closely
related transferase enzymes such as Sinorhizobium ExoY
and Lactococcus EpsD lack the N-terminal domain and are
not found by this model.
Length = 445
Score = 27.2 bits (61), Expect = 3.6
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 31 LQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLLAL 67
++ + ++SL + A KR+F I +SLLAL
Sbjct: 234 IEELGGVPLLSLSDFPLSGLNRALKRLFDIVLSLLAL 270
>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi. This family includes
the fifth essential DNA polymerase in yeast EC:2.7.7.7.
Pol5p is localised exclusively to the nucleolus and
binds near or at the enhancer region of rRNA-encoding
DNA repeating units.
Length = 784
Score = 27.1 bits (60), Expect = 3.7
Identities = 20/101 (19%), Positives = 32/101 (31%), Gaps = 8/101 (7%)
Query: 11 SSDSSTKVIFLLCLDGMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNP 70
S + L L +L++LQ+I A V+ + S K + L
Sbjct: 14 SDREKARTGAALALTELLNYLQDIAAHIVLDFLDK-LNTEPSVLK---GMEAPELY---- 65
Query: 71 VTGTNVFGMMLAICGVLAYNKVSTYTGCARKTLTMAQGRHH 111
T V + + G+L KVS K +
Sbjct: 66 KGATLVGNLDALLLGLLLKEKVSLDEPLFSKLFLLLVLSGS 106
>gnl|CDD|188997 cd06459, M3B_PepF, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 450
Score = 27.1 bits (60), Expect = 4.0
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 9 QFSSDSSTKVIFLLCLDGMLSWLQNILAF 37
F SD K + LD ++++L +AF
Sbjct: 296 FFGSDEEDKYMLAHKLDTLVAFLVRQVAF 324
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family protein.
[Transport and binding proteins, Other].
Length = 1394
Score = 27.0 bits (60), Expect = 5.1
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 12/63 (19%)
Query: 26 GMLSWLQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALGNPVTGTNVFGMMLAICG 85
G+L WL S M + T VI+ + A V + +F M L+ CG
Sbjct: 1216 GVLFWL-----LSTMFFLYFSTLG-------QMVISFNPNADNAAVLASLLFTMCLSFCG 1263
Query: 86 VLA 88
VLA
Sbjct: 1264 VLA 1266
>gnl|CDD|235569 PRK05702, flhB, flagellar biosynthesis protein FlhB; Reviewed.
Length = 359
Score = 26.7 bits (60), Expect = 5.3
Identities = 11/54 (20%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 17 KVIFLLCLDGMLSW--LQNILAFSVMSLVTSLTYAVASASKRIFVIAVSLLALG 68
KV+ + + + W L +L+ + L +L +A+ K + ++ ++LL +
Sbjct: 152 KVLLVGGVAYFVLWSNLDELLSLAAEPLEAALGHALDLVLKLLLLVVLALLVIA 205
>gnl|CDD|216831 pfam01988, VIT1, VIT family. This family includes the vacuolar
Fe2+/Mn2+ uptake transporter, Ccc1 and the vacuolar iron
transporter VIT1.
Length = 209
Score = 26.1 bits (58), Expect = 7.5
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 35 LAFSVMSLVTSLTYAVASASKRIFVIAVSLLALG 68
L+F + L+ L Y +A S I IAV+LLAL
Sbjct: 138 LSFILGGLIPLLPYLLAPPSALIVSIAVTLLALF 171
>gnl|CDD|184426 PRK13968, PRK13968, putative succinate semialdehyde dehydrogenase;
Provisional.
Length = 462
Score = 26.0 bits (57), Expect = 8.0
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 50 VASASKRIFVIAVSLLALGNPVTGTNVFGMM 80
+ASA FV A + L +G+P N G M
Sbjct: 280 IASAFTERFVAAAAALKMGDPRDEENALGPM 310
>gnl|CDD|215884 pfam00375, SDF, Sodium:dicarboxylate symporter family.
Length = 388
Score = 25.9 bits (58), Expect = 10.0
Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 15 STKVIFLLCLDGM-LSWLQNILAFSVMSLVTSL-TYAVASASKRIFVIAVSLLALGNPVT 72
+ IF+ G+ LS Q +L + + + S+ V + +A+ L ALG PV
Sbjct: 298 AVAAIFIAQAYGVDLSLGQ-LLLLILTATLASIGAAGVPGGG--LVALALVLSALGLPVE 354
Query: 73 GTNVFGMMLAI 83
G ++LAI
Sbjct: 355 G---IALILAI 362
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 0.132 0.380
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: 6,679,788
Number of extensions: 567435
Number of successful extensions: 828
Number of sequences better than 10.0: 1
Number of HSP's gapped: 827
Number of HSP's successfully gapped: 71
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.5 bits)