RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy846
(103 letters)
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 49.4 bits (118), Expect = 3e-08
Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 33 YQTVYAS-TIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETPSGRIQ 91
Y +YA + G +++T LL S+ +L A+ LH + +L +P+SFF P GRI
Sbjct: 955 YNLIYALLSFGQVLVT-LLNSYWLIMSSLYAAKRLHDAMLGSILRAPMSFFHTNPLGRII 1013
Query: 92 NYFTKDMFEVYR 103
N F KD+ ++ R
Sbjct: 1014 NRFAKDLGDIDR 1025
>gnl|CDD|188098 TIGR00957, MRP_assoc_pro, multi drug resistance-associated protein
(MRP). This model describes multi drug
resistance-associated protein (MRP) in eukaryotes. The
multidrug resistance-associated protein is an integral
membrane protein that causes multidrug resistance when
overexpressed in mammalian cells. It belongs to ABC
transporter superfamily. The protein topology and
function was experimentally demonstrated by epitope
tagging and immunofluorescence. Insertion of tags in the
critical regions associated with drug efflux, abrogated
its function. The C-terminal domain seem to highly
conserved [Transport and binding proteins, Other].
Length = 1522
Score = 48.4 bits (115), Expect = 6e-08
Identities = 20/42 (47%), Positives = 27/42 (64%)
Query: 60 LKASHTLHAVLFKKMLYSPLSFFEETPSGRIQNYFTKDMFEV 101
++AS LH L L SP+SFFE TPSG + N F+K++ V
Sbjct: 1034 IQASRVLHQDLLHNKLRSPMSFFERTPSGNLVNRFSKELDTV 1075
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 47.3 bits (112), Expect = 2e-07
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 25 NANPDFYMYQTVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEE 84
+ +P FY+ VYA + + SF +L A+ LH + +L +P+ FF
Sbjct: 946 SYSPGFYIV--VYALLGFGQVAVTFTNSFWLISSSLHAAKRLHDAMLNSILRAPMLFFHT 1003
Query: 85 TPSGRIQNYFTKDMFEVYR 103
P+GR+ N F+KD+ ++ R
Sbjct: 1004 NPTGRVINRFSKDIGDIDR 1022
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 45.5 bits (108), Expect = 7e-07
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 24 INANPDFYMYQTVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFE 83
+ + + + + L+S++ +++ K L LF+K+L PLSFF+
Sbjct: 45 LADLGELLELLLLLLLLALLGGVLRALQSYLGSRLGQKIVADLRRDLFEKLLRLPLSFFD 104
Query: 84 ETPSGRIQNYFTKDMFEV 101
+ SG + + T D+ V
Sbjct: 105 KAKSGDLISRLTNDVEAV 122
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 43.6 bits (103), Expect = 3e-06
Identities = 20/66 (30%), Positives = 34/66 (51%)
Query: 33 YQTVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETPSGRIQN 92
Y VY + + + LR F+ + + S +H L + + +SFF+ TP GRI N
Sbjct: 1000 YLYVYLGIVLLGTFSVPLRFFLSYEAMRRGSRNMHRDLLRSVSRGTMSFFDTTPLGRILN 1059
Query: 93 YFTKDM 98
F++D+
Sbjct: 1060 RFSRDI 1065
>gnl|CDD|131258 TIGR02203, MsbA_lipidA, lipid A export permease/ATP-binding protein
MsbA. This family consists of a single polypeptide
chain transporter in the ATP-binding cassette (ABC)
transporter family, MsbA, which exports lipid A. It may
also act in multidrug resistance. Lipid A, a part of
lipopolysaccharide, is found in the outer leaflet of the
outer membrane of most Gram-negative bacteria. Members
of this family are restricted to the Proteobacteria
(although lipid A is more broadly distributed) and often
are clustered with lipid A biosynthesis genes [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides, Transport and
binding proteins, Other].
Length = 571
Score = 43.2 bits (102), Expect = 4e-06
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 34 QTVYASTIGIIIL---TSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETPSGRI 90
V IG+ +L S + +++ + V+ K + +F+K+L P+SFF+ P+G +
Sbjct: 54 WWVPLVVIGLAVLRGICSFVSTYLLSWVSNKVVRDIRVRMFEKLLGLPVSFFDRQPTGTL 113
Query: 91 QNYFTKDMFEV 101
+ T D +V
Sbjct: 114 LSRITFDSEQV 124
>gnl|CDD|216049 pfam00664, ABC_membrane, ABC transporter transmembrane region.
This family represents a unit of six transmembrane
helices. Many members of the ABC transporter family
(pfam00005) have two such regions.
Length = 274
Score = 39.6 bits (93), Expect = 6e-05
Identities = 11/73 (15%), Positives = 27/73 (36%)
Query: 26 ANPDFYMYQTVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEET 85
+ + + L ++ ++ + L L +++L P+SFF+
Sbjct: 36 ERSSLISLAILLIAVGVLQGLLLQGSFYLGERLGQRIRKRLFRALLRQILGLPMSFFDTN 95
Query: 86 PSGRIQNYFTKDM 98
G + + T D+
Sbjct: 96 SVGELTSRLTNDV 108
>gnl|CDD|233335 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor
regulator (CFTR). The model describes the cystis
fibrosis transmembrane conductor regulator (CFTR) in
eukaryotes. The principal role of this protein is
chloride ion conductance. The protein is predicted to
consist of 12 transmembrane domains. Mutations or
lesions in the genetic loci have been linked to the
aetiology of asthma, bronchiectasis, chronic obstructive
pulmonary disease etc. Disease-causing mutations have
been studied by 36Cl efflux assays in vitro cell
cultures and electrophysiology, all of which point to
the impairment of chloride channel stability and not the
biosynthetic processing per se [Transport and binding
proteins, Anions].
Length = 1490
Score = 34.1 bits (78), Expect = 0.007
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 20 YSDHINANPDFYMYQTVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPL 79
I +Y++ +Y T ++ R L S LH + +L +P+
Sbjct: 915 KPVIITPTSAYYIFY-IYVGTADSVLALGFFRGLPLVHTLLTVSKRLHEQMLHSVLQAPM 973
Query: 80 SFFEETPSGRIQNYFTKDM 98
+ +GRI N FTKDM
Sbjct: 974 AVLNTMKAGRILNRFTKDM 992
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 32.6 bits (75), Expect = 0.022
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 33 YQTVYASTIGIIILT------SLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETP 86
T+ IG+++ LLR+++ + + L F+ +L PLS+FE+
Sbjct: 190 RSTLTVLAIGLLLAALFEALLRLLRTYLIAHLGKRLDLELSGRFFRHLLRLPLSYFEKRS 249
Query: 87 SGRI 90
G I
Sbjct: 250 VGEI 253
>gnl|CDD|233596 TIGR01846, type_I_sec_HlyB, type I secretion system ABC
transporter, HlyB family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 694
Score = 31.3 bits (71), Expect = 0.062
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 48 SLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETPSGRI 90
LR+++F + + L A L++ +L PL +FE G
Sbjct: 196 GGLRTYLFAHLTSRIDVELGARLYRHLLGLPLGYFESRRVGDT 238
>gnl|CDD|183016 PRK11176, PRK11176, lipid transporter ATP-binding/permease protein;
Provisional.
Length = 582
Score = 30.8 bits (70), Expect = 0.079
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 5/76 (6%)
Query: 25 NANPDFYMYQTVYASTIGIIIL---TSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSF 81
A+ + + IG++IL TS + S+ + V+ K T+ LF M+ P+SF
Sbjct: 58 KADRSVLKWMPLV--VIGLMILRGITSFISSYCISWVSGKVVMTMRRRLFGHMMGMPVSF 115
Query: 82 FEETPSGRIQNYFTKD 97
F++ +G + + T D
Sbjct: 116 FDKQSTGTLLSRITYD 131
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 30.8 bits (70), Expect = 0.086
Identities = 26/101 (25%), Positives = 47/101 (46%), Gaps = 6/101 (5%)
Query: 8 ITEVQGNETVTYYSDHINANPDF--YMYQTVYASTIGIIILTSLLR---SFIFTKVALKA 62
EV G ++Y+ D++ A + + + A+ +G+ +L + L S +F + A+
Sbjct: 37 AAEVSGPLLISYFIDNMVAKGNLPLGLVAGLAAAYVGLQLLAAGLHYAQSLLFNRAAVGV 96
Query: 63 SHTLHAVLFKKMLYSPLSFFEETPSGRIQNYFTKDMFEVYR 103
L + L PLS F+ P G++ + T D EV R
Sbjct: 97 VQQLRTDVMDAALRQPLSAFDTQPVGQLISRVTNDT-EVIR 136
>gnl|CDD|132886 cd07046, BMC_PduU-EutS, 1,2-propanediol utilization protein U
(PduU)/ethanolamine utilization protein S (EutS),
Bacterial Micro-Compartment (BMC) domain. PduU
encapsulates several related enzymes within a shell
composed of a few thousand protein subunits. PduU
exists as a hexamer which might further assemble into
the flat facets of the polyhedral outer shell of the
pdu organelle. This proteinaceous noncarboxysome
microcompartment is involved in coenzyme B12-dependent
degradation of 1,2-propanediol. The core of PduU is
related to the typical BMC domain and its natural
oligomeric state is a cyclic hexamer. Unlike other
typical BMC domain proteins, the 3D topology of PduU
reveals a circular permuted variation on the typical
BMC fold which leads to several unique features. The
exact functions related to those unique features are
still not clear. Another difference is the presence of
a deep cavity on one side of the hexamer as well as an
intermolecular six-stranded beta barrel that seems to
block the central pore that is present in other BMC
domain proteins. EutS proteins included in this CD are
sequence homologs of PduU. They are encoded within eut
operon and may be required for the formation of the
outer shell of bacterial eut polyhedral organelles
which are involved in the cobalamin-dependent
degradation of ethanolamine. Although it has been
suggested that EutS might also form hexamers and play
similar functional roles in the construction of the eut
organelle outer shell at present no experimental
evidence directly supports this view.
Length = 110
Score = 26.8 bits (60), Expect = 1.3
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 23 HINANPDFYMYQ------TVYASTIGIIILTSLLRSFIFTKVALKAS 63
H+ ANPD +YQ V + IGI+ +T + I +A KA+
Sbjct: 17 HLIANPDPEIYQKLGLNPGVDEA-IGILTITPSEAAIIAADIATKAA 62
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1);
Provisional.
Length = 1466
Score = 26.5 bits (58), Expect = 3.2
Identities = 17/63 (26%), Positives = 33/63 (52%), Gaps = 4/63 (6%)
Query: 23 HINANPDFYMYQTVYASTIGIIILTS-LLRSFIFTKVALKASHTLHAVLFKKMLYSPLSF 81
++ AN + Y ++Y I I + S L+++ + K T+ LF+ +LY +SF
Sbjct: 860 NLEANSNKY---SLYILVIAIAMFISETLKNYYNNVIGEKVEKTMKRRLFENILYQEISF 916
Query: 82 FEE 84
F++
Sbjct: 917 FDQ 919
>gnl|CDD|184292 PRK13740, PRK13740, conjugal transfer protein TraY; Provisional.
Length = 70
Score = 25.1 bits (55), Expect = 3.5
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 11 VQGNETVTYYSDHINANPDFY 31
+ NE DH+ PDFY
Sbjct: 36 SKTNEVQIRLRDHLKRFPDFY 56
>gnl|CDD|220597 pfam10139, Virul_Fac, Putative bacterial virulence factor. Members
of this family of prokaryotic proteins include various
putative virulence factor effector proteins. Their exact
function is, as yet, unknown.
Length = 852
Score = 26.2 bits (58), Expect = 3.9
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 55 FTKVALKASHTLHAVLFKKMLYSPLS 80
T +H L + + LY+PLS
Sbjct: 225 LTDAYRHLAHALQRLGHAEELYAPLS 250
>gnl|CDD|177222 MTH00167, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 512
Score = 26.2 bits (58), Expect = 4.1
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 11/74 (14%)
Query: 20 YSDHINANPDFYMYQTVYA------STIGIIILTSLL-RSFIFTKVALKASHTLHAVLFK 72
YSD+ PD Y V + S + +I+ ++ +F + L T V +
Sbjct: 440 YSDY----PDAYTLWNVVSSIGSLISLVAVILFLFIIWEAFSSKRKLLPVELTSTNVEWL 495
Query: 73 KMLYSPLSFFEETP 86
P +EE P
Sbjct: 496 HGCPPPHHTWEEPP 509
>gnl|CDD|233506 TIGR01647, ATPase-IIIA_H, plasma-membrane proton-efflux P-type
ATPase. This model describes the plasma membrane proton
efflux P-type ATPase found in plants, fungi, protozoa,
slime molds and archaea. The best studied representative
is from yeast.
Length = 754
Score = 25.8 bits (57), Expect = 4.9
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 35 TVYASTIGIIILTSLLRSFIFTKVALKASHTLHAVLFKKMLYSPLSFFEETPS 87
T + G+ +L L+SFI+ +V++ HA +F + F+ E P
Sbjct: 688 TFFIDKFGLQLLHGNLQSFIYLQVSISG----HATIFVTRTHGF--FWSERPG 734
>gnl|CDD|200134 TIGR01842, type_I_sec_PrtD, type I secretion system ABC
transporter, PrtD family. Type I protein secretion is
a system in some Gram-negative bacteria to export
proteins (often proteases) across both inner and outer
membranes to the extracellular medium. This is one of
three proteins of the type I secretion apparatus.
Targeted proteins are not cleaved at the N-terminus,
but rather carry signals located toward the extreme
C-terminus to direct type I secretion [Protein fate,
Protein and peptide secretion and trafficking].
Length = 544
Score = 25.8 bits (57), Expect = 4.9
Identities = 18/72 (25%), Positives = 27/72 (37%), Gaps = 20/72 (27%)
Query: 28 PDFYMYQTVY------ASTIGIIILTSL-------------LRSFIFTKVALKASHTLHA 68
P YM Q VY S +++LT L LRSF+ ++ K L+
Sbjct: 25 PPLYMLQ-VYDRVLTSGSVPTLLMLTVLALGLYLFLGLLDALRSFVLVRIGEKLDGALNQ 83
Query: 69 VLFKKMLYSPLS 80
+F + L
Sbjct: 84 PIFAASFSATLR 95
>gnl|CDD|227147 COG4810, EutS, Ethanolamine utilization protein [Amino acid
transport and metabolism].
Length = 121
Score = 24.8 bits (54), Expect = 6.9
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 23 HINANPDFYMYQTV----YASTIGIIILTSLLRSFIFTKVALKA 62
H+ ANP + + + A IGI+ +T + I +A K+
Sbjct: 29 HLIANPGEDLAKKLGLDPDAGAIGILTITPGEAAIIAGDIATKS 72
>gnl|CDD|184696 PRK14474, PRK14474, F0F1 ATP synthase subunit B; Provisional.
Length = 250
Score = 25.2 bits (55), Expect = 7.0
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 35 TVYASTIGIIILTSLLRSFIFTKV 58
TV A I +IL LLR F++ +
Sbjct: 7 TVVAQIINFLILVYLLRRFLYKPI 30
>gnl|CDD|234096 TIGR03031, cas_csx12, CRISPR-associated protein Cas9/Csx12, subtype
II-B/NMENI. Members of this family of CRISPR-associated
(cas) protein are found, so far, in CRISPR/cas loci in
Wolinella succinogenes DSM 1740, Legionella pneumophila
str. Paris, and Francisella tularensis, where the last
probably is an example of a degenerate CRISPR locus,
having neither repeats nor a functional Cas1. The
characteristic repeat length is 37 base pairs and period
is about 72. One region of this large protein shows
sequence similarity to pfam01844, HNH endonuclease
[Mobile and extrachromosomal element functions, Other].
Length = 802
Score = 25.3 bits (55), Expect = 7.6
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 1 MFNLFQNITEVQGNETVTYYSDHINANPDFYMYQT 35
+ NL N++ +Q Y++D I+ PD + Q
Sbjct: 242 LSNLLGNLSNLQLKNLRRYFNDKIHKKPDQWDEQK 276
>gnl|CDD|187835 cd09704, Csx12, CRISPR/Cas system-associated protein Cas9. CRISPR
(Clustered Regularly Interspaced Short Palindromic
Repeats) and associated Cas proteins comprise a system
for heritable host defense by prokaryotic cells against
phage and other foreign DNA; Very large protein
containing McrA/HNH-nuclease related domain and a
RuvC-like nuclease domain; signature gene for type II.
Length = 804
Score = 25.3 bits (55), Expect = 7.9
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 1 MFNLFQNITEVQGNETVTYYSDHINANPDFYMYQT 35
+ NL N++ +Q Y++D I+A D + Q
Sbjct: 242 LVNLVGNLSNLQLKPLRRYFNDKIHAKADHWDEQK 276
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 25.1 bits (55), Expect = 8.3
Identities = 9/32 (28%), Positives = 17/32 (53%)
Query: 66 LHAVLFKKMLYSPLSFFEETPSGRIQNYFTKD 97
+ LF+ +L L FF+E +G + + + D
Sbjct: 236 IREDLFRSLLRQDLGFFDENKTGELTSRLSSD 267
>gnl|CDD|215235 PLN02426, PLN02426, cytochrome P450, family 94, subfamily C
protein.
Length = 502
Score = 25.0 bits (55), Expect = 8.9
Identities = 10/23 (43%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 60 LKASHTLHAVLFKKM-LYSPLSF 81
+K H LHA L++ M L+ P+ F
Sbjct: 350 MKEMHYLHAALYESMRLFPPVQF 372
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
0.326 0.137 0.396
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,188,092
Number of extensions: 427650
Number of successful extensions: 622
Number of sequences better than 10.0: 1
Number of HSP's gapped: 621
Number of HSP's successfully gapped: 41
Length of query: 103
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 34
Effective length of database: 7,877,176
Effective search space: 267823984
Effective search space used: 267823984
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: 53 (24.2 bits)