RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15134
(259 letters)
>gnl|CDD|233155 TIGR00860, LIC, Cation transporter family protein. The
Ligand-gated Ion Channel (LIC) Family of
Neurotransmitter Receptors TC 1.A.9)Members of the LIC
family of ionotropic neurotransmitter receptors are
found only in vertebrate and invertebrate animals. They
exhibit receptor specificity for (1)acetylcholine, (2)
serotonin, (3) glycine, (4) glutamate and (5)
g-aminobutyric acid (GABA). All of these receptor
channels are probably hetero- orhomopentameric. The best
characterized are the nicotinic acetyl-choline receptors
which are pentameric channels of a2bgd subunit
composition. All subunits arehomologous. The three
dimensional structures of the protein complex in both
the open and closed configurations have been solved at
0.9 nm resolution.The channel protein complexes of the
LIC family preferentially transport cations or anions
depending on the channel (e.g., the acetylcholine
receptors are cationselective while glycine receptors
are anion selective) [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 459
Score = 151 bits (383), Expect = 6e-43
Identities = 98/354 (27%), Positives = 143/354 (40%), Gaps = 112/354 (31%)
Query: 14 QNIWRPDCFFKNAKKVTFHEMSIPNHYLWLYHDKTLLY-----------MS--------- 53
+IW PD FF N K FH +++ N + ++ + ++LY M
Sbjct: 109 DSIWVPDIFFYNEKDARFHGITMTNVLVRIHPNGSVLYSPRITLTLACPMDLRNFPFDVQ 168
Query: 54 NCTAFI----------------QIFVKIKYSICMNAVLLGNFT----------------- 80
NC+ Q V++ S+ ++ L F
Sbjct: 169 NCSLKFESWGYTTNDIKLEWKEQGAVQVDDSLFIS---LPEFELLGVYGTRYCTSETNTG 225
Query: 81 ---CIAVVFNLRRRLGYHLFHTYIPSALIVVMSWISFWIKPEAIPARVTLGVTSLLTLAT 137
C+ F LRRR Y+L YIPS LIV++SW+SFW+ +A ARV+LG+T+LLT+ T
Sbjct: 226 EYPCLTFSFVLRRRPLYYLLQLYIPSILIVILSWVSFWLPADASGARVSLGITTLLTMTT 285
Query: 138 QNTQSQQSLPPVSYVKAIDIWMSSCSVFVFLSLMEFAVVNNY-------------MGPIA 184
++ ++SLP VSYVKAID++ + C FVFL+L+E A VN + A
Sbjct: 286 FSSGVRESLPAVSYVKAIDVYFAVCMAFVFLALLETAFVNYVHHKDPAQGKRHLLLERCA 345
Query: 185 TKAMKGYSEEDLRNNVDEFKNLDPTRSRSITIPQVPMYPT-------------------- 224
+ K ED R + +L R+ + PT
Sbjct: 346 WRLCKQEPGEDYRRPALDHASLSSVEMRAKDGGRGLESPTERQRLLHSPPPAEGDLDLAG 405
Query: 225 ----------FCNGREI----------ALYIDKFSRFFFPFSFFVLNILYWTSF 258
F E A IDK SR FP +F + NI YW S+
Sbjct: 406 ILEEVRIAHRFRKRDESEEVVRDWKFRAKVIDKLSRMAFPLAFLLFNIGYWMSY 459
>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel
transmembrane region. This family includes the four
transmembrane helices that form the ion channel.
Length = 228
Score = 107 bits (269), Expect = 3e-28
Identities = 31/79 (39%), Positives = 47/79 (59%)
Query: 99 TYIPSALIVVMSWISFWIKPEAIPARVTLGVTSLLTLATQNTQSQQSLPPVSYVKAIDIW 158
IP LI +SW+ FW+ +A P +VTLG+T+LLT+ ++SLP SYV +
Sbjct: 1 LIIPCVLISFLSWLVFWLPADAGPEKVTLGITTLLTMTVFLLLIRESLPKTSYVVPLIGK 60
Query: 159 MSSCSVFVFLSLMEFAVVN 177
++FVF + +E+AVV
Sbjct: 61 YLVFTMFVFTASVEYAVVV 79
Score = 33.4 bits (77), Expect = 0.080
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 235 IDKFSRFFFPFSFFVLNILYW 255
ID+ SR+ FP +F + ++YW
Sbjct: 208 IDRLSRWIFPIAFVLGTLVYW 228
>gnl|CDD|217293 pfam02931, Neur_chan_LBD, Neurotransmitter-gated ion-channel ligand
binding domain. This family is the extracellular ligand
binding domain of these ion channels. This domain forms
a pentameric arrangement in the known structure.
Length = 215
Score = 33.8 bits (78), Expect = 0.059
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 15 NIWRPDCFFKNAKKVTFHEMSIPNHYLWLYHDKTLLYM 52
IW+PD N K H+++ PN + +Y D T+L+
Sbjct: 81 KIWKPDIVLYN-KADGIHDITTPNTNVRVYPDGTVLWS 117
>gnl|CDD|112781 pfam03982, DAGAT, Diacylglycerol acyltransferase. The terminal
step of triacylglycerol (TAG) formation is catalyzed by
the enzyme diacylglycerol acyltransferase (DAGAT).
Length = 297
Score = 31.2 bits (71), Expect = 0.39
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 12/79 (15%)
Query: 11 NWLQN--IWRPDCFFKNAKKVTFHEMSIPNHYLWLYHDKTLLYM-------SNCTAFIQI 61
NW +N IW+ + K E+ +YL+ YH +L + +N T F+
Sbjct: 34 NWARNWRIWKWFANYFPVKLHKTAELPPNRNYLFGYHPHGILSVGAFSNFSTNATGFMDK 93
Query: 62 FVKIKYSICMNAVLLGNFT 80
F I+ +IC L G F
Sbjct: 94 FPGIRPNIC---TLAGQFY 109
>gnl|CDD|119131 pfam10611, DUF2469, Protein of unknown function (DUF2469).
Member proteins often found in Actinomycetes clustered
with signal peptidase and/or RNAse-HII.
Length = 101
Score = 28.5 bits (64), Expect = 1.3
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 4 EYRILDVNWLQNIWRPDCFFKNAKKVTFHEMSI 36
E + D W+ +++RP F KN + VTF +++I
Sbjct: 58 EVTMSDA-WVWDMYRPARFVKNVRVVTFKDVNI 89
>gnl|CDD|220557 pfam10086, DUF2324, Putative membrane peptidase family (DUF2324).
This domain, found in various hypothetical bacterial
proteins, has no known function. This family appears to
be related to the prenyl protease 2 family pfam02517,
suggesting this family may be peptidases.
Length = 222
Score = 29.6 bits (67), Expect = 1.5
Identities = 19/77 (24%), Positives = 29/77 (37%), Gaps = 7/77 (9%)
Query: 82 IAVVFNLRRR------LGYHLFHTYIPSALIVVMSWISFWIKPEAIPARVTLGVTSLLTL 135
+ + L+RR L Y L H I + L+ ++S + + I + L
Sbjct: 81 LGFRYLLKRRGGDGDALAYGLGHGGIEALLVGLLSLLQLVLFALLINRGQLDALLDLPEQ 140
Query: 136 ATQNTQSQ-QSLPPVSY 151
A Q Q SLP S
Sbjct: 141 ALQAIQDALASLPAWSI 157
>gnl|CDD|240088 cd04737, LOX_like_FMN, L-Lactate oxidase (LOX) FMN-binding domain.
LOX is a member of the family of FMN-containing
alpha-hydroxyacid oxidases and catalyzes the oxidation
of l-lactate using molecular oxygen to generate pyruvate
and H2O2. This family occurs in both prokaryotes and
eukaryotes. Members of this family include
flavocytochrome b2 (FCB2), glycolate oxidase (GOX),
lactate monooxygenase (LMO), mandelate dehydrogenase
(MDH), and long chain hydroxyacid oxidase (LCHAO).
Length = 351
Score = 28.6 bits (64), Expect = 3.0
Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 11/88 (12%)
Query: 119 EAIPARVTLGVTSLLTLATQNTQSQQSLPPVSYV-----KAIDIWMSSCSVFVFLSLMEF 173
E AR G+ + +L + +T S SL ++ K ++MS F SL++
Sbjct: 91 EVATAR---GMAEVGSLFSISTYSNTSLEEIAKASNGGPKWFQLYMSKDDGFN-RSLLDR 146
Query: 174 AVVNNYMGPIAT--KAMKGYSEEDLRNN 199
A I T + G E D+RN
Sbjct: 147 AKAAGAKAIILTADATVGGNREADIRNK 174
>gnl|CDD|215576 PLN03102, PLN03102, acyl-activating enzyme; Provisional.
Length = 579
Score = 28.8 bits (64), Expect = 3.2
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 74 VLLGNFTCIAVVFNLRRRLGYHLFHTY---IPSALIVVMSWISFWIK-PE----AIPARV 125
VL G A + +RLG+ + H Y + ++ W W + PE + AR
Sbjct: 305 VLTGGSPPPAALVKKVQRLGFQVMHAYGLTEATGPVLFCEWQDEWNRLPENQQMELKARQ 364
Query: 126 TLGVTSLLTLATQNTQSQQSLP 147
+ + L + +N ++Q+S+P
Sbjct: 365 GVSILGLADVDVKNKETQESVP 386
>gnl|CDD|183676 PRK12679, cbl, transcriptional regulator Cbl; Reviewed.
Length = 316
Score = 27.9 bits (62), Expect = 5.6
Identities = 12/22 (54%), Positives = 17/22 (77%), Gaps = 2/22 (9%)
Query: 133 LTLATQNTQSQQSLPPVSYVKA 154
LT+AT +TQ++ SLP V +KA
Sbjct: 95 LTIATTHTQARYSLPEV--IKA 114
>gnl|CDD|220215 pfam09379, FERM_N, FERM N-terminal domain. This domain is the
N-terminal ubiquitin-like structural domain of the FERM
domain.
Length = 79
Score = 26.0 bits (58), Expect = 6.5
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 38 NHYLWLYHDKTLL-YMSNCTAFIQIFVKIKY 67
N +WL DK L + +F ++K+
Sbjct: 47 NERIWLDLDKKLRKQGKDGDPPFTLFFRVKF 77
>gnl|CDD|237172 PRK12683, PRK12683, transcriptional regulator CysB-like protein;
Reviewed.
Length = 309
Score = 27.7 bits (62), Expect = 7.0
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 133 LTLATQNTQSQQSLPPV 149
LT+AT +TQ++ +LP V
Sbjct: 95 LTVATTHTQARYALPKV 111
>gnl|CDD|184978 PRK15017, PRK15017, cytochrome o ubiquinol oxidase subunit I;
Provisional.
Length = 663
Score = 27.2 bits (60), Expect = 9.3
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 68 SICMNAVLLGNFTCIAV---VFNLRRRLGYHLFHTYIPSALIVVMSWISFWIKPE 119
S+C N +++ +F + V + L R LG H F + +++ ++ I W PE
Sbjct: 232 SLCANVLIIASFPILTVTVALLTLDRYLGTHFFTNDMGGNMMMYINLIWAWGHPE 286
>gnl|CDD|238674 cd01378, MYSc_type_I, Myosin motor domain, type I myosins. Myosin I
generates movement at the leading edge in cell motility,
and class I myosins have been implicated in phagocytosis
and vesicle transport. Myosin I, an unconventional
myosin, does not form dimers. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Myosins are actin-dependent
molecular motors that play important roles in muscle
contraction, cell motility, and organelle transport. The
head domain is a molecular motor, which utilizes ATP
hydrolysis to generate directed movement toward the plus
end along actin filaments. A cyclical interaction
between myosin and actin provides the driving force.
Rates of ATP hydrolysis and consequently the speed of
movement along actin filaments vary widely, from about
0.04 micrometer per second for myosin I to 4.5
micrometer per second for myosin II in skeletal muscle.
Myosin II moves in discrete steps about 5-10 nm long and
generates 1-5 piconewtons of force. Upon ATP binding,
the myosin head dissociates from an actin filament. ATP
hydrolysis causes the head to pivot and associate with a
new actin subunit. The release of Pi causes the head to
pivot and move the filament (power stroke). Release of
ADP completes the cycle.
Length = 674
Score = 27.2 bits (61), Expect = 9.8
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 74 VLLGNFTCIAVVFNLRRRLGYHLFHTYIPSALIVV 108
VLL + A+V NL++R L +TYI LI V
Sbjct: 6 VLLSKISEEAIVENLKKRFQNDLIYTYIGPVLISV 40
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
0.329 0.139 0.449
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,499,425
Number of extensions: 1261189
Number of successful extensions: 1554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1551
Number of HSP's successfully gapped: 37
Length of query: 259
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 164
Effective length of database: 6,723,972
Effective search space: 1102731408
Effective search space used: 1102731408
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: 58 (26.0 bits)