RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1504
(153 letters)
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 69.8 bits (171), Expect = 1e-14
Identities = 41/154 (26%), Positives = 74/154 (48%), Gaps = 17/154 (11%)
Query: 2 VLGITRPFVLGMFLSYFKVASTTATETAAVAGGALVLITFLNSLLN---AH-YNTMSSHI 57
V +T P +L F+ + + T G LVL FL L+ H + +S
Sbjct: 258 VCTLTLPVLLKYFVKFLDADNATWGR-----GLGLVLTLFLTQLIQSVCLHRFYYISIRC 312
Query: 58 GLRMRAAVCSLVFRKCLKLDMVSTR-----ETAPGQIVNLVSNDVSRFDLVTVTSHFMWS 112
GL+ R+A+ +L+F KC +S++ + G+I+N++S DV R + ++WS
Sbjct: 313 GLQYRSALNALIFEKCF---TISSKSLAQPDMNTGRIINMMSTDVERINSFMQYCMYLWS 369
Query: 113 SPIISLIVTYIIYKDIGNAAFFGLAAAFCVIPLQ 146
SP++ L+ ++ + +G A +A +PL
Sbjct: 370 SPMVLLLSILLLSRLVGWCALMAVAVLLVTLPLN 403
>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 = 63.8 bits (155), Expect = 1e-12
Identities = 38/142 (26%), Positives = 75/142 (52%)
Query: 7 RPFVLGMFLSYFKVASTTATETAAVAGGALVLITFLNSLLNAHYNTMSSHIGLRMRAAVC 66
+P +LG ++ + + E A L L+ + +LL H+G++MR A+
Sbjct: 99 QPLLLGRIIASYDPFNAPEREIAYYLALGLCLLFIVRTLLLHPAIFGLHHLGMQMRIALF 158
Query: 67 SLVFRKCLKLDMVSTRETAPGQIVNLVSNDVSRFDLVTVTSHFMWSSPIISLIVTYIIYK 126
SL+++K LKL + + GQ+V+L+SN++++FD +HF+W +P+ +++ +I++
Sbjct: 159 SLIYKKTLKLSSRVLDKISTGQLVSLLSNNLNKFDEGLALAHFVWIAPLQVILLMGLIWE 218
Query: 127 DIGNAAFFGLAAAFCVIPLQLC 148
+ F GL + Q C
Sbjct: 219 LLEVNGFCGLGFLILLALFQAC 240
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 61.5 bits (149), Expect = 1e-11
Identities = 27/105 (25%), Positives = 54/105 (51%)
Query: 42 LNSLLNAHYNTMSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPGQIVNLVSNDVSRFD 101
L + Y +G R+R+ + + +F K L+L + + A G++ N+++ D +
Sbjct: 353 FGVLCESQYFQNVGRVGFRLRSTLVAAIFHKSLRLTHEARKNFASGKVTNMITTDANALQ 412
Query: 102 LVTVTSHFMWSSPIISLIVTYIIYKDIGNAAFFGLAAAFCVIPLQ 146
+ H +WS+P ++ ++Y+ +G A+ FG F +IPLQ
Sbjct: 413 QIAEQLHGLWSAPFRIIVSMVLLYQQLGVASLFGSLILFLLIPLQ 457
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 59.8 bits (145), Expect = 3e-11
Identities = 31/108 (28%), Positives = 53/108 (49%), Gaps = 4/108 (3%)
Query: 41 FLNSLLNAHY--NTMSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPGQIVNLVSNDVS 98
L L A Y N M +G R+R+ + + VFRK L+L ++ G+I NL++ D
Sbjct: 352 VLGVLCEAQYFQNVM--RVGFRLRSTLVAAVFRKSLRLTHEGRKKFTSGKITNLMTTDAE 409
Query: 99 RFDLVTVTSHFMWSSPIISLIVTYIIYKDIGNAAFFGLAAAFCVIPLQ 146
+ H +WS+P +I ++Y+ +G A+ G + P+Q
Sbjct: 410 ALQQICQQLHTLWSAPFRIIIAMVLLYQQLGVASLIGSLMLVLMFPIQ 457
>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 = 58.8 bits (142), Expect = 7e-11
Identities = 34/113 (30%), Positives = 62/113 (54%), Gaps = 2/113 (1%)
Query: 34 GALVLITFLNSLLNAHYNTMSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPGQIVNLV 93
G L + L +L+ Y + G+R++ AV V+RK L + + + + G+IVNL+
Sbjct: 362 GLLFVCACLQTLILHQYFHICFVSGMRIKTAVMGAVYRKALVITNSARKSSTVGEIVNLM 421
Query: 94 SNDVSRF-DLVTVTSHFMWSSPIISLIVTYIIYKDIGNAAFFGLAAAFCVIPL 145
S D RF DL T + +WS+P+ ++ Y ++ ++G + G+A ++PL
Sbjct: 422 SVDAQRFMDLATYIN-MIWSAPLQVILALYFLWLNLGPSVLAGVAVMVLMVPL 473
>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 = 51.9 bits (125), Expect = 1e-08
Identities = 27/147 (18%), Positives = 55/147 (37%), Gaps = 1/147 (0%)
Query: 2 VLGITRPFVLGMFLSYFKVASTTATETAAVAGGALVLITFLNSLLNAHYNTMSSHIGLRM 61
+ P +LG FL + + L+ + L LL + +G R+
Sbjct: 13 ATALVFPLLLGRFLDSLIDGNGDERSSLISLAILLIAVGVLQGLLLQGSFYLGERLGQRI 72
Query: 62 RAAVCSLVFRKCLKLDMVSTRETAPGQIVNLVSNDVSRFDLVTVTSHFMWSSPIISLIVT 121
R + + R+ L L M + G++ + ++NDVS+ ++ + +++
Sbjct: 73 RKRLFRALLRQILGLPMSFFDTNSVGELTSRLTNDVSKIRDGLGDKLGLFFQSLATVVGG 132
Query: 122 YIIYKDIGNAAFFG-LAAAFCVIPLQL 147
+I+ G LA +I L
Sbjct: 133 FIVMFYYGWKLTLVLLAILPLLILLSA 159
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 38.9 bits (91), Expect = 5e-04
Identities = 21/123 (17%), Positives = 49/123 (39%), Gaps = 4/123 (3%)
Query: 2 VLGITRPFVLGMFLSYFKVASTTATETAAVAGGALVLITFLNSLLNAHYNTMSSHIGLRM 61
+L + P ++G + E + +L L +L + + + I +
Sbjct: 28 LLSLLLPLLIGRIIDALLADLGELLELLLLLLLLALLGGVLRALQSYLGSRLGQKIVADL 87
Query: 62 RAAVCSLVFRKCLKLDMVSTRETAPGQIVNLVSNDVSRFDLVTVTSHFMWSSPIISLIVT 121
R +F K L+L + + G +++ ++NDV + T + + I+ LI +
Sbjct: 88 R----RDLFEKLLRLPLSFFDKAKSGDLISRLTNDVEAVSNLVSTVLVLVFTSILLLIGS 143
Query: 122 YII 124
++
Sbjct: 144 LVL 146
>gnl|CDD|184766 PRK14610, PRK14610, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 283
Score = 27.8 bits (62), Expect = 2.2
Identities = 17/44 (38%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 39 ITFLNSL-LNAHYNTMSSHIGLRMR-AAVCSLVFRKCLKLDMVS 80
+ F+NSL +N + NT+ IGL +R + V + V+ K +K VS
Sbjct: 53 VEFVNSLKINRYNNTVQRAIGLLLRHSPVRTNVYVKVIKNIPVS 96
>gnl|CDD|177641 PHA03413, PHA03413, putative internal core protein; Provisional.
Length = 1304
Score = 27.7 bits (61), Expect = 3.4
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 11/59 (18%)
Query: 106 TSHFMWSSPIISLIVTY----------IIYKDIGNAAFFGLAAAFCV-IPLQLCSTYTK 153
TSHF +PI +IV Y I+ +++ +A + GLA PL L +T+ K
Sbjct: 1153 TSHFAQFNPIGKIIVGYQSFAIAATNKILRRELNDADWAGLAHIMAYQFPLMLLATHAK 1211
>gnl|CDD|233147 TIGR00840, b_cpa1, sodium/hydrogen exchanger 3. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36)The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals.Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in(1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles.This model is specific for the
eukaryotic members members of this family [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 559
Score = 27.4 bits (61), Expect = 3.8
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 10/95 (10%)
Query: 36 LVLITFLNSLLN-----AHYNTMSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPGQIV 90
L +I F SLLN YNT VF C +V+ G +
Sbjct: 162 LYIIIFGESLLNDAVTVVLYNTFIKFHKTADEPVTIVDVFEGCASFFVVTCGGLLVGVVF 221
Query: 91 NLVSNDVSRFDLVTVTSHFMWSSPIISLIVTYIIY 125
+ ++RF T H P+ +++Y+ Y
Sbjct: 222 GFLVAFITRF-----THHIRQIEPLFVFLISYLSY 251
>gnl|CDD|214480 smart00034, CLECT, C-type lectin (CTL) or
carbohydrate-recognition domain (CRD). Many of these
domains function as calcium-dependent carbohydrate
binding modules.
Length = 124
Score = 26.4 bits (58), Expect = 4.9
Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 11/56 (19%)
Query: 16 SYFKVASTTATETAAVA-----GGALVLI------TFLNSLLNAHYNTMSSHIGLR 60
+K ++ T A A GG L I F+ SLL ++ IGL
Sbjct: 11 KCYKFSTEKKTWEDAQAFCQSLGGHLASIHSEAENDFVASLLKNSGSSDYYWIGLS 66
>gnl|CDD|211565 TIGR00286, TIGR00286, arginine decarboxylase, pyruvoyl-dependent.
The three copies present in Archeoglobus fulgidus, one
of which is only half-length and excluded from the seed
alignment, are very closely related and clearly arose
by duplication after the separation from well-studied
species. The other completed archaeal genomes each
contain a single copy. The lone, weak (below trusted
cutoff) hit to a non-archaeal sequence is to an
uncharacterized protein of Chlamydia, with the greatest
similarity in the amino-terminal half of the model
[Central intermediary metabolism, Polyamine
biosynthesis, Energy metabolism, Amino acids and
amines].
Length = 152
Score = 25.9 bits (57), Expect = 7.4
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 10/66 (15%)
Query: 28 TAAVAGGALVLITFLNSLLNAHYNTMSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPG 87
+ V G L F +LL+A IG V S++ +C ++V + PG
Sbjct: 9 VSGVGEGETPLNAFDLALLDAG-------IGNVNLIRVSSIMPPEC---EIVELPKLPPG 58
Query: 88 QIVNLV 93
QIV V
Sbjct: 59 QIVFCV 64
>gnl|CDD|131978 TIGR02932, vnfK_nitrog, V-containing nitrogenase, beta subunit.
Nitrogenase is the enzyme of biological nitrogen
fixation. The most wide-spread and most efficient
nitrogenase contains a molybdenum cofactor. This
protein family, VnfK, represents the beta subunit of
the vanadium (V)-containing alternative nitrogenase. It
is homologous to NifK and AnfK, of the
molybdenum-containing and the iron (Fe)-only types,
respectively [Central intermediary metabolism, Nitrogen
fixation].
Length = 457
Score = 26.3 bits (58), Expect = 7.9
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 4/31 (12%)
Query: 9 FVLGMFLSYFK----VASTTATETAAVAGGA 35
FV +F +FK +AST+ E +AV GGA
Sbjct: 44 FVRLLFAQHFKENFDIASTSLHEESAVFGGA 74
>gnl|CDD|165089 PHA02716, PHA02716, CPXV016; CPX019; EVM010; Provisional.
Length = 764
Score = 26.4 bits (58), Expect = 8.3
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 10/76 (13%)
Query: 53 MSSHIGLRMRAAVCSLVFRKCLKLDMVSTRETAPGQIVNLVSNDVSRFDLVTVTSHFMWS 112
HI R ++ ++ KC K D+++ RE NLV+ L + + +
Sbjct: 647 TKLHINSRSNISIYDILVSKCYKEDIITHRE-----NHNLVACCHGNDPLYDIINGY--- 698
Query: 113 SPIISLIVTYIIYKDI 128
I Y I DI
Sbjct: 699 --ITDARSMYYIANDI 712
>gnl|CDD|132469 TIGR03428, ureacarb_perm, permease, urea carboxylase system. A
number of bacteria obtain nitrogen by biotin- and
ATP-dependent urea degradation system distinct from
urease. The two characterized proteins of this system
are the enzymes urea carboxylase and allophanate
hydrolase, but other, uncharacterized proteins co-occur
as genes encoded nearby in multiple organisms. This
family includes predicted permeases of the amino acid
permease family, likely to transport either urea or a
compound from which urea is derived. It is found so far
only Actinobacteria, whereas a number of other species
with the urea carboxylase have an adjacent ABC
transporter operon.
Length = 475
Score = 26.3 bits (58), Expect = 8.5
Identities = 10/38 (26%), Positives = 22/38 (57%)
Query: 110 MWSSPIISLIVTYIIYKDIGNAAFFGLAAAFCVIPLQL 147
+ S +I ++ I+ ++GN+A F A+ C++ + L
Sbjct: 350 ILPSIVIGVLCIGILLINVGNSALFATLASVCIVLIYL 387
>gnl|CDD|226159 COG3633, SstT, Na+/serine symporter [Amino acid transport and
metabolism].
Length = 407
Score = 25.8 bits (57), Expect = 10.0
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 3 LGITRPFVLGMFLSYFKVASTTATETAAVAGGALVLITFLNSLLN 47
LGI + LS VAS A + VAGG+L+LI SL
Sbjct: 316 LGIPVDLPTALLLSV--VASVCACGASGVAGGSLLLIPLACSLFG 358
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
0.328 0.137 0.403
Gapped
Lambda K H
0.267 0.0597 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,491,899
Number of extensions: 650888
Number of successful extensions: 994
Number of sequences better than 10.0: 1
Number of HSP's gapped: 989
Number of HSP's successfully gapped: 43
Length of query: 153
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 64
Effective length of database: 6,990,096
Effective search space: 447366144
Effective search space used: 447366144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (25.3 bits)