RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6416
(193 letters)
>gnl|CDD|221573 pfam12430, ABA_GPCR, Abscisic acid G-protein coupled receptor.
This domain family is found in eukaryotes, and is
typically between 177 and 216 amino acids in length.
This family is part of the abscisic acid (ABA) G-protein
coupled receptor. ABA is a stress hormone in plants.
Length = 99
Score = 105 bits (264), Expect = 8e-30
Identities = 59/95 (62%), Positives = 75/95 (78%), Gaps = 3/95 (3%)
Query: 83 TSIRGLLLTLTKFFYAISSSKSS--NIIVLVLAQIMGMYFVSSVLLMRMNMPPEYRSIIS 140
TSIRG+L TL+ FF A+ SS N++VL LA+IMG+YF+S+VLL+R N+P EYRSII+
Sbjct: 2 TSIRGVLTTLSSFFRALPGLLSSSSNLLVLFLAEIMGIYFISTVLLLRSNLPAEYRSIIT 61
Query: 141 KVLG-DLQFNFYHRWFDVIFLLSALSSIVFLYLAH 174
+LG DL+F FY RWFD IFLLSAL + + LYLAH
Sbjct: 62 DILGSDLEFRFYDRWFDKIFLLSALLTAIGLYLAH 96
>gnl|CDD|224397 COG1480, COG1480, Predicted membrane-associated HD superfamily
hydrolase [General function prediction only].
Length = 700
Score = 31.2 bits (71), Expect = 0.30
Identities = 26/132 (19%), Positives = 53/132 (40%), Gaps = 12/132 (9%)
Query: 6 IFEILNILDSSSRYFHWNIVLYCMLFM-VIVLIPFYIGSRYF----HWN--IVLYCMLFM 58
+ IL++L S + +L ++ + ++L+ R N ++LY L +
Sbjct: 258 DYVILDLLGLLSLSVNILPLLGLLILVIFLILLFALYERRTKSPLKLRNSLLLLYLSLAI 317
Query: 59 VIVLIPFYIGYFIVTNIRFGCIVLTSIRG--LLLTLTKFFYAISSSKSSNIIVLVLAQIM 116
+ + + +GYF + ++ G LL+ L AI SS I +L L
Sbjct: 318 LTLSLLRIVGYFNYSASGL---LVPPALGPMLLILLVFLRIAIFSSSMIAIALLYLFGGS 374
Query: 117 GMYFVSSVLLMR 128
++ + L+
Sbjct: 375 YNSEIALIALLS 386
>gnl|CDD|131058 TIGR02003, PTS-II-BC-unk1, PTS system, IIBC component. This model
represents a family of fused B and C components of PTS
enzyme II. This clade is a member of a larger family
which contains enzyme II's specific for a variety of
sugars including glucose (TIGR02002) and
N-acetylglucosamine (TIGR01998). None of the members of
this clade have been experimentally characterized. This
clade includes sequences from Streptococcus and
Enterococcus which also include a C-terminal A domain as
well as Bacillus and Clostridium which do not. In nearly
all cases, these species also contain an authentic
glucose-specific PTS transporter [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 548
Score = 29.9 bits (67), Expect = 0.75
Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 8/88 (9%)
Query: 56 LFMVIVLIPFYIGYFIVTNIRFGCIVLTSIR----GLLLTLTKFFYAISSSKSSNIIVLV 111
LFM + P YI Y I F L ++R G + +T+ A+ + ++I V
Sbjct: 359 LFMFAAM-PLYIVYAITQGAAFALADLINLRVHAFGFIELITRTPMALKAGLGMDLINFV 417
Query: 112 LAQIMG---MYFVSSVLLMRMNMPPEYR 136
+ I+ M+F++ L+ + ++ R
Sbjct: 418 IVSILFAGIMFFIADFLIKKFHLATAGR 445
>gnl|CDD|213346 cd12207, RasGAP_IQGAP3, Ras-GTPase Activating Domain of IQ motif
containing GTPase activating protein 3. This family
represents the IQ motif containing GTPase activating
protein 3 (IQGAP3), which associates with Ras
GTP-binding proteins. A primary function of IQGAP
proteins is to modulate cytoskeletal architecture. There
are three known IQGAP family members: IQGAP1, IQGAP2 and
IQGAP3. Human IQGAP1 and IQGAP2 share 62% identity.
IQGAPs are multi-domain molecules having a
calponin-homology (CH) domain which binds F-actin,
IQGAP-specific repeats, a single WW domain, four IQ
motifs that mediate interactions with calmodulin, and a
RasGAP related domain that binds active Rho family
GTPases. IQGAP is an essential regulator of cytoskeletal
function. IQGAP1 negatively regulates Ras family GTPases
by stimulating their intrinsic GTPase activity, the
protein actually lacks GAP activity. Both IQGAP1 and
IQGAP2 specifically bind to Cdc42 and Rac1, but not to
RhoA. Despite of their similarities to part of the
sequence of RasGAP, neither IQGAP1 nor IQGAP2 interacts
with Ras. IQGAP3, only present in mammals, regulates the
organization of the cytoskeleton under the regulation of
Rac1 and Cdc42 in neuronal cells. The depletion of
IQGAP3 is shown to impair neurite or axon outgrowth in
neuronal cells with disorganized cytoskeleton.
Length = 350
Score = 28.3 bits (63), Expect = 2.9
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 15/76 (19%)
Query: 84 SIRGLLLTLTKFFYAISSSKSSNIIVLVLAQI-MGMYFVSSVLLMRM--NMPPEYRSIIS 140
+IR LL KF AI+SS + +I GM +V+ VL + P +
Sbjct: 132 AIRNLLAVTDKFLSAITSS---------VDKIPYGMRYVAKVLRDSLQEKFPGASEDEVY 182
Query: 141 KVLGDLQFNFYHRWFD 156
KV+G+L Y+R+ +
Sbjct: 183 KVVGNL---LYYRFMN 195
>gnl|CDD|224316 COG1398, OLE1, Fatty-acid desaturase [Lipid metabolism].
Length = 289
Score = 27.7 bits (62), Expect = 3.4
Identities = 15/64 (23%), Positives = 28/64 (43%)
Query: 29 MLFMVIVLIPFYIGSRYFHWNIVLYCMLFMVIVLIPFYIGYFIVTNIRFGCIVLTSIRGL 88
M I P+ + +HWN VL+ + +++ + FY +F + I G+
Sbjct: 1 MTSKHIAEAPWTLPKYPYHWNNVLFFIGPLIVAYLAFYPDFFSWLAELIFTLAYYLIGGI 60
Query: 89 LLTL 92
+TL
Sbjct: 61 GITL 64
>gnl|CDD|220381 pfam09753, Use1, Membrane fusion protein Use1. This entry is of a
family of proteins all approximately 300 residues in
length. The proteins have a single C-terminal
trans-membrane domain and a SNARE [soluble NSF
(N-ethylmaleimide-sensitive fusion protein) attachment
protein receptor] domain of approximately 60 residues.
The SNARE domains are essential for membrane fusion and
are conserved from yeasts to humans. Use1 is one of the
three protein subunits that make up the SNARE complex
and it is specifically required for Golgi-endoplasmic
reticulum retrograde transport.
Length = 251
Score = 27.0 bits (60), Expect = 5.7
Identities = 7/30 (23%), Positives = 18/30 (60%)
Query: 100 SSSKSSNIIVLVLAQIMGMYFVSSVLLMRM 129
+SK+S + ++ ++ F+S VL +++
Sbjct: 221 HASKASKCFLWLMIFLVMCIFISMVLFIKI 250
>gnl|CDD|212075 cd11506, SLC6sbd_GAT1, Na(+)- and Cl(-)-dependent GABA transporter
1; solute-binding domain. GAT1 transports
gamma-aminobutyric acid (GABA). GABA is the main
inhibitory neurotransmitter within the mammalian CNS.
Human GAT1 is encoded by the SLC6A1 gene. GAT1 is
expressed in brain and peripheral nervous system. The
antiepileptic drug, Tiagabine, inhibits GAT1. This
subgroup belongs to the solute carrier 6 (SLC6)
transporter family.
Length = 598
Score = 27.2 bits (60), Expect = 6.9
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 24 IVLYCMLFMVIVLIPFYIGSRYF-HWNI-VLYCMLFMVIVLIPFYIGYFIVT 73
IV LF + + P +G+ F W V + M +VLIP Y+ Y +T
Sbjct: 506 IVAGVFLFSAVQMTPLTMGNYVFPKWGQGVGWFMALSSMVLIPGYMAYMFLT 557
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
0.337 0.148 0.451
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,905,337
Number of extensions: 968804
Number of successful extensions: 3025
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2826
Number of HSP's successfully gapped: 418
Length of query: 193
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 101
Effective length of database: 6,857,034
Effective search space: 692560434
Effective search space used: 692560434
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 56 (25.2 bits)