RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14478
(206 letters)
>gnl|CDD|233161 TIGR00870, trp, transient-receptor-potential calcium channel
protein. The Transient Receptor Potential Ca2+ Channel
(TRP-CC) Family (TC. 1.A.4)The TRP-CC family has also
been called the store-operated calcium channel (SOC)
family. The prototypical members include the Drosophila
retinal proteinsTRP and TRPL (Montell and Rubin, 1989;
Hardie and Minke, 1993). SOC members of the family
mediate the entry of extracellular Ca2+ into cells in
responseto depletion of intracellular Ca2+ stores
(Clapham, 1996) and agonist stimulated production of
inositol-1,4,5 trisphosphate (IP3). One member of the
TRP-CCfamily, mammalian Htrp3, has been shown to form a
tight complex with the IP3 receptor (TC #1.A.3.2.1).
This interaction is apparently required for IP3
tostimulate Ca2+ release via Htrp3. The vanilloid
receptor subtype 1 (VR1), which is the receptor for
capsaicin (the ?hot? ingredient in chili peppers) and
servesas a heat-activated ion channel in the pain
pathway (Caterina et al., 1997), is also a member of
this family. The stretch-inhibitable non-selective
cation channel(SIC) is identical to the vanilloid
receptor throughout all of its first 700 residues, but
it exhibits a different sequence in its last 100
residues. VR1 and SICtransport monovalent cations as
well as Ca2+. VR1 is about 10x more permeable to Ca2+
than to monovalent ions. Ca2+ overload probably causes
cell deathafter chronic exposure to capsaicin.
(McCleskey and Gold, 1999) [Transport and binding
proteins, Cations and iron carrying compounds].
Length = 743
Score = 99.8 bits (249), Expect = 2e-24
Identities = 46/207 (22%), Positives = 76/207 (36%), Gaps = 47/207 (22%)
Query: 7 EEAILIFAVPGSWFLLMFFAGAIRLTGPFVTM-------------------------AFY 41
EEA+ FA+ SW L++ + GP M
Sbjct: 468 EEALFAFALVLSWLNLLYIFRGNQHLGPLQIMIGRMILGDILRFLFIYAVVLFGFACGLN 527
Query: 42 FLYK---------------GFPGVKTSLYSSYLSTWMALFQITLGDYNYPELSYTVYPTM 86
LY+ + + YS+ T LF +G + + +
Sbjct: 528 QLYQYYDELKLNECSNPHARSCEKQGNAYSTLFETSQELFWAIIGLGDLLANEHKFTEFV 587
Query: 87 SKIVFTVFMVLVPILLLNMLIAMMGNTYAHVIEQSEKEWMKQWAKIVVALERAVSQEDCH 146
++F + V++ ILLLNMLIAMMGNTY + + +++EW Q AK+ ++ ER
Sbjct: 588 GLLLFGAYNVIMYILLLNMLIAMMGNTYQLIADDADEEWKFQRAKLWMSYEREGG----- 642
Query: 147 RYLQEYSIKLGPGDEPGTEQRGVLVIK 173
++I GP + +
Sbjct: 643 TCPPPFNIIPGP--KSFVGLFKRIEKH 667
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 44.6 bits (106), Expect = 6e-06
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 4/94 (4%)
Query: 19 WFLLMFFAGAIRLTGPFVTMAFYFLYKGFPGVKTSLYSSYLSTWMALFQI--TLGDYNYP 76
L +F ++L G + G S + SY + LF+ T G +
Sbjct: 103 LLLFIFAIIGVQLFGGELDKCCDKNENPING--NSNFDSYGEALLWLFRTLTTEGWGDVM 160
Query: 77 ELSYTVYPTMSKIVFTVFMVLVPILLLNMLIAMM 110
+ + KI F +F++L +LLLN+LI ++
Sbjct: 161 YDTLVPGTVLGKIFFVIFIILGGVLLLNLLIGVI 194
>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel. This family
contains the cation channel region of PKD1 and PKD2
proteins.
Length = 423
Score = 38.9 bits (91), Expect = 0.001
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 6/92 (6%)
Query: 31 LTGPFVTMAFYFLYKGFPGV-----KTSLYSSYLSTWMALFQITLGDYNYPELSYTVYPT 85
L G V FL G + +S+++ + + LF+ GD+ Y E+
Sbjct: 333 LLGFAVMFVILFLAYAQLGYLLFGSQVDNFSNFVKSILTLFRTLCGDFGYTEIFS-GNRV 391
Query: 86 MSKIVFTVFMVLVPILLLNMLIAMMGNTYAHV 117
+ ++F F+ LV +LLN+ +A++ ++Y V
Sbjct: 392 LGPLLFLTFVFLVIFILLNLFLAIINDSYVEV 423
>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein. This small,
uncommon, poorly conserved protein is found primarily in
the Firmicutes. It features are pair of CxxC motifs
separated by about 20 amino acids, followed by a highly
hydrophobic region of about 45 amino acids. It has no
conserved gene neighborhood, and its function is
unknown.
Length = 94
Score = 28.5 bits (64), Expect = 0.82
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 61 TWMALFQITLGDYNY---PELSYTVYPTMSKIVFTVFMVLVPILLLNMLIAMMGNT 113
++ L + Y P Y T +V +V +P+LL+ L + G
Sbjct: 11 SYKELLKSLFSLYRPIKCPNCGTKQYLTAKSRKKSVLLVFIPLLLILFLSNIFGLP 66
>gnl|CDD|236901 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 29.6 bits (67), Expect = 1.3
Identities = 24/113 (21%), Positives = 40/113 (35%), Gaps = 20/113 (17%)
Query: 89 IVFTVFMVLVPILLLNMLIAMMGNTYAHVIEQSEKEWMKQWAKIVVALERAVSQED--CH 146
I+ + +V+VP LL+ ++ G + A + E+ +K L V+ D
Sbjct: 11 ILLVILLVIVPTLLIGYILETEGRS-AVLSEKEKK------------LSAVVNLLDQALG 57
Query: 147 RYLQEYSIKLGPGDEPGTEQRGVLVIKSKTAPEEPAPKF---EA--FSAALDV 194
Y G D P E+ L + E + A +S LD
Sbjct: 58 GRFDLYLASQGVADLPREEKIRALNAELAPVTENITHAYPGIGAGYYSKELDA 110
>gnl|CDD|184665 PRK14414, PRK14414, membrane protein; Provisional.
Length = 210
Score = 29.1 bits (65), Expect = 1.4
Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 12/63 (19%)
Query: 62 WMALFQITLGDYNYPELSYTV------------YPTMSKIVFTVFMVLVPILLLNMLIAM 109
++A F I + +P LSY + M K++F++ +V++PIL+ +
Sbjct: 128 YIACFLILMAITRFPTLSYGISFISFILVAWLGQHDMGKVLFSLLVVMIPILMYIPRMKE 187
Query: 110 MGN 112
+ N
Sbjct: 188 IKN 190
>gnl|CDD|190497 pfam02999, Borrelia_orfD, Borrelia orf-D family. Borrelia
burgdorferi supercoiled plasmids encode multicopy
tandem open reading frames called Orf-A, Orf-B, Orf-C
and Orf-D. This family corresponds to Orf-D. The
putative product of this gene has no known function.
Length = 97
Score = 27.5 bits (61), Expect = 2.0
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 51 KTSLYSSYLSTWMALFQITLGDYNYPELSYTVYPTMSK 88
+ S Y YL T++A ++ + D NYPE +Y T+
Sbjct: 23 QLSDYVMYLQTFLAKTKVKVNDPNYPEFTYFDLSTLKD 60
>gnl|CDD|224295 COG1377, FlhB, Flagellar biosynthesis pathway, component FlhB [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 363
Score = 28.3 bits (64), Expect = 2.6
Identities = 8/61 (13%), Positives = 23/61 (37%), Gaps = 1/61 (1%)
Query: 53 SLYSSYLSTWMALFQITLGDYNYPELS-YTVYPTMSKIVFTVFMVLVPILLLNMLIAMMG 111
S + + L +L + + ++ + L+P LL+ +++ ++
Sbjct: 48 FFGSYFARRLSGFLRAFLEFPESMDLDDESALELIKALLLEILKALLPFLLVLLVVGLLA 107
Query: 112 N 112
N
Sbjct: 108 N 108
>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373). Archaeal
domain of unknown function. Predicted to be an integral
membrane protein with six transmembrane regions.
Length = 344
Score = 28.3 bits (64), Expect = 3.1
Identities = 29/122 (23%), Positives = 41/122 (33%), Gaps = 23/122 (18%)
Query: 11 LIFAVPGSWFLL-----MFFAGAIRLTGPFVTMAFYFLYKGFPGVKTSLYSSYLSTWMAL 65
VPG L+ + A L + + Y LY+GF G+ L +L
Sbjct: 161 TFLGVPGLLLLIYGLLALANLPAYALGVILLILGLYLLYRGF-GLDDFLRELLKRVRESL 219
Query: 66 F--QITLGDY-------------NYPELSYTVYPTMSKIVFTVF-MVLVPILLLNMLIAM 109
+ +IT Y Y L + + V F VP L L LIA
Sbjct: 220 YEGRITFITYVVSIILILIGIIYGYLSLE-KLSAISAGGVAATFLNGAVPWLALAALIAF 278
Query: 110 MG 111
+G
Sbjct: 279 LG 280
>gnl|CDD|212094 cd11556, SLC6sbd_SERT-like_u1, uncharacterized subgroup of the
SERT-like Na(+)- and Cl(-)-dependent monoamine
transporter subfamily; solute binding domain. SERT-like
Na(+)- and Cl(-)-dependent monoamine transporters,
transport monoamine neurotransmitters from synaptic
spaces into presynaptic neurons. Members include: the
norepinephrine transporter NET, the serotonin
transporter SERT , and the dopamine transporter DAT1.
These latter may play a role in diseases or disorders
including depression, anxiety disorders, and
attention-deficit hyperactivity disorder, and in the
control of human behavior and emotional states. They
belongs to the solute carrier 6 (SLC6) transporter
family. Members of this subgroup are uncharacterized.
Length = 552
Score = 27.8 bits (62), Expect = 4.6
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 46 GF-PGVKTSLYSSYLSTWMALFQITLGDYNYPELSYT--VYPTMSKIVFTVF----MVLV 98
GF PG+ + +++ LF IT G NY L+Y YPT + ++ +F + ++
Sbjct: 467 GFRPGIYWKICWKFIAPIFLLFNITYGLINYQPLTYDDYTYPTWANVLGWIFAGSSISMI 526
Query: 99 PILLLNMLIAMMGNT 113
PI+ + ++ G
Sbjct: 527 PIVAIYQILNTPGTF 541
>gnl|CDD|176954 CHL00011, ndhD, NADH dehydrogenase subunit 4.
Length = 498
Score = 27.6 bits (62), Expect = 4.7
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 83 YPTMSKIVFTVF----MVLVPILLLNMLIAM 109
Y M KI+ T M+L PI LL+ML M
Sbjct: 410 YLLMPKILITFVMAIGMILTPIYLLSMLRQM 440
>gnl|CDD|135648 PRK05898, dnaE, DNA polymerase III DnaE; Validated.
Length = 971
Score = 27.5 bits (61), Expect = 7.1
Identities = 23/78 (29%), Positives = 31/78 (39%), Gaps = 18/78 (23%)
Query: 5 KTEEAILIFAVPGSWFLLMFFAGAI--RLTGPFVTMAFYFLYK----GFPGVKTSLYSSY 58
K +E ILI F GA+ P V F +++ GF SL SY
Sbjct: 632 KKDEKILI------QLKKDFIEGALKNNYKQPLVNQIFEYIFSFADYGF-NHSHSLAYSY 684
Query: 59 LSTWMALFQITLGDYNYP 76
+S WMA + + YP
Sbjct: 685 ISYWMAYLK-----HYYP 697
>gnl|CDD|227434 COG5103, CDC39, Cell division control protein, negative regulator
of transcription [Cell division and chromosome
partitioning / Transcription].
Length = 2005
Score = 27.3 bits (60), Expect = 7.3
Identities = 9/32 (28%), Positives = 17/32 (53%)
Query: 129 WAKIVVALERAVSQEDCHRYLQEYSIKLGPGD 160
W I + +R+ ++E+C R + +LG D
Sbjct: 822 WFSIYMVTQRSTAEENCRRLYGKVVERLGSKD 853
>gnl|CDD|216401 pfam01267, F-actin_cap_A, F-actin capping protein alpha subunit.
Length = 269
Score = 26.9 bits (60), Expect = 8.2
Identities = 10/36 (27%), Positives = 13/36 (36%), Gaps = 3/36 (8%)
Query: 53 SLYSSYLSTWMALFQITLGDY---NYPELSYTVYPT 85
L S L + L Y +YP + VYP
Sbjct: 100 ELESEELELYRKSLDKALSAYVKDHYPNGACGVYPK 135
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 0.137 0.416
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,773,403
Number of extensions: 1009727
Number of successful extensions: 1229
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1220
Number of HSP's successfully gapped: 83
Length of query: 206
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 114
Effective length of database: 6,857,034
Effective search space: 781701876
Effective search space used: 781701876
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: 41 (22.0 bits)
S2: 57 (25.7 bits)