RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16996
(268 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 = 34.3 bits (79), Expect = 0.068
Identities = 30/118 (25%), Positives = 39/118 (33%), Gaps = 18/118 (15%)
Query: 4 WMFQRFTVVMEYEQK-PALPPPF-IILSHILL----------FIKYLRRKCEGVRETYDN 51
W FQR + M YE++ PPPF II K +R C V E N
Sbjct: 626 WKFQRAKLWMSYEREGGTCPPPFNIIPGPKSFVGLFKRIEKHDGKKRQRWCRRVEE--VN 683
Query: 52 GLKLFLDKEDLERLYDFEEECVEGYFREKETKLAMSTDERIRNTTERVENINQKVEDI 109
E L + ++ K LA TTE E + +DI
Sbjct: 684 WTTWERKAETLIEDGLHYQRVMKRLI--KRYVLAEQRPRDDEGTTE--EETKELKQDI 737
>gnl|CDD|198308 cd03199, GST_C_GRX2, C-terminal, alpha helical domain of
Glutaredoxin 2. Glutathione S-transferase (GST)
C-terminal domain family, Glutaredoxin 2 (GRX2)
subfamily; composed of Escherichia coli GRX2 and similar
proteins. Escherichia coli GRX2 is an atypical GRX with
a molecular mass of about 24kD (most GRXs range from
9-12kD). It adopts a GST fold containing an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain. It contains a redox active CXXC motif located in
the N-terminal domain, but is not able to reduce
ribonucleotide reductase like other GRXs. However, it
catalyzes GSH-dependent protein disulfide reduction of
other substrates efficiently. GRX2 is thought to
function primarily in catalyzing the reversible
glutathionylation of proteins in cellular redox
regulation including stress responses.
Length = 128
Score = 29.8 bits (68), Expect = 0.60
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 76 YFREKETKLAMSTDERIRNTTERVENINQKVEDIN 110
YF K+ S +E + T E + +N +E ++
Sbjct: 39 YFIRKKEASIGSFEELLAKTPELIAELNADLEALD 73
>gnl|CDD|206779 cd11386, MCP_signal, Methyl-accepting chemotaxis protein (MCP),
signaling domain. Methyl-accepting chemotaxis proteins
(MCPs or chemotaxis receptors) are an integral part of
the transmembrane protein complex that controls
bacterial chemotaxis, together with the histidine kinase
CheA, the receptor-coupling protein CheW,
receptor-modification enzymes, and localized
phosphatases. MCPs contain a four helix trans membrane
region, an N-terminal periplasmic ligand binding domain,
and a C-terminal HAMP domain followed by a cytoplasmic
signaling domain. This C-terminal signaling domain
dimerizes into a four-helix bundle and interacts with
CheA through the adaptor protein CheW.
Length = 200
Score = 30.3 bits (69), Expect = 0.69
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 87 STDERIRNTTERVENINQKVEDINQKENSQNSSIQVMSS 125
T E + E VE + E+I IQ +S+
Sbjct: 142 ETSEEVEEGVELVEETGRAFEEIVASVEEVADGIQEISA 180
>gnl|CDD|185219 PRK15319, PRK15319, AIDA autotransporter-like protein ShdA;
Provisional.
Length = 2039
Score = 30.8 bits (69), Expect = 0.99
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 167 GEIPPPSAISGGPTARNFRRCRHASEMSNPEMAVYLEKEHLRDAEESDYHLMEEIIHTRF 226
G++ PP GG A +R + M N MA L+ + L D E S Y + + RF
Sbjct: 1712 GDVTPPD--HGGDVAPQYR-ADIGAYMGNQWMARNLQMQTLYDREGSQYRNADGSVWARF 1768
Query: 227 NNKEAGSDA 235
+A S+A
Sbjct: 1769 KAGKAESEA 1777
>gnl|CDD|236679 PRK10387, PRK10387, glutaredoxin 2; Provisional.
Length = 210
Score = 29.8 bits (68), Expect = 1.1
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 76 YFREKETKLAMSTDERIRNTTERVENINQKVEDIN---QKENSQNSSI 120
YF +K+ D + +T ++ IN + ++ K N+ N +
Sbjct: 121 YFIDKKEASIGDFDALLAHTPGLIKEINADLRALDPLIVKPNAVNGEL 168
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 30.0 bits (68), Expect = 1.7
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 8/95 (8%)
Query: 35 IKYLRRKCEGVRETYDNGL-------KLFLDKEDLERLYDFEEECVEGYFREKETKLA-M 86
I E E ++ L + LD E+L+ L + EE +E ++ E KL
Sbjct: 291 IDKYESHIEKALEELESILDTEKENSEFKLDVEELKALLEALEEILEKNLQKLEEKLKDP 350
Query: 87 STDERIRNTTERVENINQKVEDINQKENSQNSSIQ 121
ST + + T+ +E+IN ++ IN+ N I
Sbjct: 351 STSIELESITDLIESINDIIDAINELIREHNEKID 385
>gnl|CDD|165468 PHA03201, PHA03201, uracil DNA glycosylase; Provisional.
Length = 318
Score = 29.5 bits (66), Expect = 1.8
Identities = 18/42 (42%), Positives = 20/42 (47%), Gaps = 8/42 (19%)
Query: 153 SPPRSPR------LLSPPVPGEIPPPSAISGGPTARNFRRCR 188
+PPRSP SPP PG PPP +G R RR R
Sbjct: 21 TPPRSPDASPEETPPSPPGPGAEPPPGRAAGPAAPR--RRPR 60
>gnl|CDD|173155 PRK14692, PRK14692, lagellar hook-associated protein FlgL;
Provisional.
Length = 749
Score = 29.5 bits (66), Expect = 2.2
Identities = 18/94 (19%), Positives = 42/94 (44%), Gaps = 9/94 (9%)
Query: 48 TYDNGLKLFLDKEDLERLYDFEEECVEGYFREKETKLAMSTDERIRNTTERVENINQKVE 107
TY + +L + + LE++ E R +E + ++ + +++ + +E+ KV
Sbjct: 45 TYIDNTRLEYEIKTLEQV-------KESTSRAQE--MTQNSMKALQDMVKLLEDFKVKVT 95
Query: 108 DINQKENSQNSSIQVMSSLAFLRTTLVAFWNSGI 141
NSQ S + L ++ ++V N+ +
Sbjct: 96 QAASDSNSQTSREAIAKELERIKESIVQLANTSV 129
>gnl|CDD|220403 pfam09788, Tmemb_55A, Transmembrane protein 55A. Members of this
family catalyze the hydrolysis of the 4-position
phosphate of phosphatidylinositol 4,5-bisphosphate, in
the reaction: 1-phosphatidyl-myo-inositol
4,5-bisphosphate + H(2)O =
1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Length = 258
Score = 29.0 bits (65), Expect = 2.5
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 10/47 (21%)
Query: 154 PPRSPRLLS-----PPVPGEIPPP-----SAISGGPTARNFRRCRHA 190
PP P P + E+PPP S SG N R C+
Sbjct: 30 PPSKPPYDQNFAPFPVLLSELPPPYSPAQSPDSGSAPVVNCRVCQSL 76
>gnl|CDD|185278 PRK15380, PRK15380, pathogenicity island 1 protein SopD2;
Provisional.
Length = 319
Score = 28.7 bits (64), Expect = 3.2
Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 6/93 (6%)
Query: 57 LDKEDLERLYDFEEECVEGYFREKET----KLAMSTDERIRNTTERVENINQKVED-INQ 111
+DK +L RL + E C+ E E K+ + E+I E +E K++D +N+
Sbjct: 119 IDKCNLHRLLNVSENCIFKVMEEDEEELFFKICIKYGEKIARYPELLEGFANKLKDAVNE 178
Query: 112 KENSQNSSIQVMSSLAFLRTTLVAFWNSGITDE 144
++ ++ ++M S + V WN +T+E
Sbjct: 179 DDDIKDEVYKLMRSGEDRKMECVE-WNGTLTEE 210
>gnl|CDD|182086 PRK09802, PRK09802, DNA-binding transcriptional regulator AgaR;
Provisional.
Length = 269
Score = 28.7 bits (64), Expect = 3.2
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 8/36 (22%)
Query: 87 STDERIRNTTERVENINQKVEDINQKENSQNSSIQV 122
S ++R+ T+ER E I Q++ Q S+QV
Sbjct: 7 SGEKRVTGTSERREQIIQRLR--------QQGSVQV 34
>gnl|CDD|240502 cd13744, SPRY_PRY_TRIM62, PRY/SPRY domain in tripartite
motif-binding protein 62 (TRIM62). This domain,
consisting of the distinct N-terminal PRY subdomain
followed by the SPRY subdomain, is found at the
C-terminus of TRIM62. It is also called DEAR1 ductal
epithelium (associated RING chromosome 1) and is
involved in the morphogenesis of the mammary gland; loss
of TRIM62 gene expression in breast is associated with
increased risk of recurrence in early-onset breast
cancer and thus, TRIM62 is a predictive biomarker.
Length = 188
Score = 28.1 bits (62), Expect = 3.5
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 44 GVRETYDNGLKLFLDKEDLERLYDFEEE 71
GV YD GL +F + +D+ LY F E+
Sbjct: 134 GVYLDYDKGLLIFYNADDMSWLYTFREK 161
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 28.6 bits (64), Expect = 3.9
Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 6/94 (6%)
Query: 143 DELETVCGLLSPPRSPRLLSP-PVPGEIPPPSAISGGPTARNFRRCRHASEMSNPEMAVY 201
++L+ L+ PR+ RL P P P PPP + ++ + E
Sbjct: 249 EDLKLAVELVLLPRATRLPEPEPQPPPPPPPPEPPEPEEEPDEPD---QTDPDDGEETDQ 305
Query: 202 LEKEHLRDAEESDYHLMEEIIHTRFNNKEAGSDA 235
+ +E + DA E+D L + I+ T + A
Sbjct: 306 IPEELMFDAVEAD--LPDNILATLQTVQRRRGRA 337
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 27.9 bits (63), Expect = 5.4
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 178 GPT--ARNFRRCRHASE--MSNPEMAVYLEKEHLRDAEESDYHLMEEII 222
GPT A RH SE M +PEMA + + AEE +L ++++
Sbjct: 206 GPTFRAEKSNTRRHLSEFWMLDPEMAFADLNDVMDLAEELIKYLFKKVL 254
>gnl|CDD|214599 smart00283, MA, Methyl-accepting chemotaxis-like domains
(chemotaxis sensory transducer). Thought to undergo
reversible methylation in response to attractants or
repellants during bacterial chemotaxis.
Length = 262
Score = 27.6 bits (62), Expect = 5.7
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 2/59 (3%)
Query: 83 KLAMSTDERIRNTTERVENINQKVEDINQKENSQNSSIQVMSSLAFLRTTLVAFWNSGI 141
+ + E VE VE++ + + + V+ +A +T L+A N+ I
Sbjct: 60 EAVEDAITAMDQIREVVEEAVSAVEELEESSDEIGEIVSVIDDIAD-QTNLLAL-NAAI 116
>gnl|CDD|218850 pfam05999, Herpes_U5, Herpesvirus U5-like family. This family of
Herpesvirus includes U4, U5 and UL27.
Length = 447
Score = 27.8 bits (62), Expect = 5.9
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 37 YLRRKCEGVRETYDN--GLKLFLDKEDLERLYDF 68
YLR CE + + GL L+KE L L
Sbjct: 43 YLRYLCELLSSLFLQLDGLLNRLEKESLLVLGGC 76
>gnl|CDD|192200 pfam09058, L27_1, L27_1. The L27 domain is a protein interaction
module that exists in a large family of scaffold
proteins, functioning as an organisation centre of large
protein assemblies required for the establishment and
maintenance of cell polarity. L27 domains form specific
heterotetrameric complexes, in which each domain
contains three alpha-helices.
Length = 63
Score = 25.6 bits (56), Expect = 6.5
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 57 LDKEDLERLYDFEEECVEGYFREKETKLAMSTDERIRNTTERVENINQ 104
+ K+D +R EE ++KL+ + D +R++ ERV NI Q
Sbjct: 2 VKKQDTQRALQLLEEY--------QSKLSQTGDRGLRSSIERVINIFQ 41
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 28.0 bits (62), Expect = 8.0
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 150 GLLSPPRSPRLLSPPVPGEIPPPSAISGGPTAR--NFRR 186
G L PP S + +PP P PPPS GG A + RR
Sbjct: 2826 GPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRR 2864
>gnl|CDD|214826 smart00806, AIP3, Actin interacting protein 3. Aip3p/Bud6p is a
regulator of cell and cytoskeletal polarity in
Saccharomyces cerevisiae that was previously identified
as an actin-interacting protein. Actin-interacting
protein 3 (Aip3p) localizes at the cell cortex where
cytoskeleton assembly must be achieved to execute
polarized cell growth, and deletion of AIP3 causes gross
defects in cell and cytoskeletal polarity. Aip3p
localization is mediated by the secretory pathway,
mutations in early- or late-acting components of the
secretory apparatus lead to Aip3p mislocalization.
Length = 426
Score = 27.3 bits (61), Expect = 8.3
Identities = 15/92 (16%), Positives = 29/92 (31%), Gaps = 23/92 (25%)
Query: 88 TDERIRNTTERVENINQKVEDINQKENSQNSSIQVMSSLAFLRTTLVAFWNSGITDELET 147
DE ++ + ++ + +++++ Q SQ +IQ +
Sbjct: 76 LDEVKKHIDDEIDTLQNELDEVKQALESQREAIQRLKERQQ------------------- 116
Query: 148 VCGLLSPPRSPRLLSPPVPGEIPPPSAISGGP 179
S R + P P SAIS
Sbjct: 117 ----NSAANIARPAASPSPVLASSSSAISLAN 144
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 27.3 bits (60), Expect = 8.3
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 9/107 (8%)
Query: 32 LLFIKYLRRKC---EGVRETYDNGLKLFLDKEDLERLYDFEEECVEGYFREKETKLAMST 88
L+ I Y R K E +RE NG K FL + DL + D ++ VE E + ++ S
Sbjct: 32 LVAIHYGRNKQAADETIREIESNGGKAFLIEADLNSI-DGVKKLVEQLKNELQIRVGTSE 90
Query: 89 DERIRN-----TTERVENINQKVEDINQKENSQNSSIQVMSSLAFLR 130
+ + N T +EN +++ D N + + +L LR
Sbjct: 91 IDILVNNAGIGTQGTIENTTEEIFDEIMAVNIKAPFFLIQQTLPLLR 137
>gnl|CDD|235944 PRK07135, dnaE, DNA polymerase III DnaE; Validated.
Length = 973
Score = 27.7 bits (62), Expect = 8.6
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 191 SEMSNPEMAVYLEKEHLRDAEESDYHLMEEIIHTRFNNKEAGSDADKFDNNAFFLTVNE 249
S E AVY+++ L AE+++Y +I++ NNKE S+ FD +F ++E
Sbjct: 137 SNDPKIENAVYVQERKLLFAEDNEYL---KILNKIGNNKEENSNFKFFDFEKWFEDIDE 192
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 27.7 bits (62), Expect = 8.8
Identities = 20/76 (26%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 38 LRRKCEGVRETYDNGLKLFLDKEDLERLYDFEEECVEGYFREKETKLAMSTDERIRNTTE 97
LR + E + + +L + E+LE+ E E +EG R+ E K+ +ERI +
Sbjct: 219 LREELEKLEKEVKELEELKEEIEELEK----ELESLEGSKRKLEEKIR-ELEERIEELKK 273
Query: 98 RVENINQKVEDINQKE 113
+E + +KV+++ + +
Sbjct: 274 EIEELEEKVKELKELK 289
>gnl|CDD|233767 TIGR02182, GRXB, Glutaredoxin, GrxB family. Glutaredoxins are
thioltransferases (disulfide reductases) which utilize
glutathione and NADPH as cofactors. Oxidized glutathione
is regenerated by glutathione reductase. Together these
components compose the glutathione system. Glutaredoxins
utilize the CXXC motif common to thioredoxins and are
involved in multiple cellular processes including
protection from redox stress, reduction of critical
enzymes such as ribonucleotide reductase and the
generation of reduced sulfur for iron sulfur cluster
formation. Glutaredoxins are capable of reduction of
mixed disulfides of glutathione as well as the formation
of glutathione mixed disulfides. This model includes the
highly abundant E. coli GrxB (Grx2) glutaredoxin which
is notably longer than either GrxA or GrxC. Unlike the
other two E. coli glutaredoxins, GrxB appears to be
unable to reduce ribonucleotide reductase , and may have
more to do with resistance to redox stress [Energy
metabolism, Electron transport].
Length = 209
Score = 27.0 bits (60), Expect = 9.1
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 8/92 (8%)
Query: 65 LYDFEEECVEGYFREKETKLAMSTDERIRNTTERVENINQKVEDINQ---KENSQNSSIQ 121
L +F + YF +K+ A + + +T +E IN +E++++ N+ N +
Sbjct: 109 LPEFATQSARKYFTDKKEASAGNFSALLNHTPGLLEEINADLEELDKLIDGPNAVNGELS 168
Query: 122 VMSSLAF--LRT-TLVA--FWNSGITDELETV 148
L F LR TLVA W S + D L+ +
Sbjct: 169 EDDILVFPLLRNLTLVAGINWPSRVADYLDNM 200
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
0.317 0.134 0.390
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,028,260
Number of extensions: 1362034
Number of successful extensions: 1656
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1649
Number of HSP's successfully gapped: 52
Length of query: 268
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 173
Effective length of database: 6,723,972
Effective search space: 1163247156
Effective search space used: 1163247156
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.2 bits)