RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9066
(275 letters)
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 31.7 bits (72), Expect = 0.48
Identities = 24/80 (30%), Positives = 31/80 (38%), Gaps = 18/80 (22%)
Query: 73 PVPVIVSNFNYFYHRETDQEDMQSQNFNHVTSCPYLPGTLGEWLVD----------NSSS 122
P+PV FYH ET + M + HV S G+ W +D + +S
Sbjct: 480 PIPV-------FYHVETKEPLMNEETIAHVKSIVAQKGSDAWWYMDVEDLLPEKYRDKAS 532
Query: 123 RSRKVAAATGLVHNDVGSSW 142
K T V D GSSW
Sbjct: 533 DYEK-GTDTMDVWFDSGSSW 551
>gnl|CDD|185636 PTZ00457, PTZ00457, acyl-CoA dehydrogenase; Provisional.
Length = 520
Score = 31.4 bits (71), Expect = 0.55
Identities = 25/90 (27%), Positives = 36/90 (40%), Gaps = 7/90 (7%)
Query: 130 ATGLVHNDVGSSWEDMQSQNFNHVTSCPYLPGTLGQHMKKSSLSESSSD---MM--ELEE 184
A L++ +VG++ + H C YL T+G K + SD MM EE
Sbjct: 83 AHALIYEEVGTNCDSKLLSTIQHSGFCTYLLSTVGSKELKGKYLTAMSDGTIMMGWATEE 142
Query: 185 GLLFGRDYSTSLTNKKLLSNNNLSLCNPKH 214
G G D S + T L + + L K
Sbjct: 143 G--CGSDISMNTTKASLTDDGSYVLTGQKR 170
>gnl|CDD|148679 pfam07218, RAP1, Rhoptry-associated protein 1 (RAP-1). This family
consists of several rhoptry-associated protein 1 (RAP-1)
sequences which appear to be specific to Plasmodium
falciparum.
Length = 790
Score = 30.8 bits (69), Expect = 0.90
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 122 SRSRKVAAATGLVHNDVGSSWEDMQSQNFNHVTSCPYLPGTLGQHMKKSSLSESSS 177
SR R +AA L +D E + N P G G+ + SS +S +
Sbjct: 100 SRVRSASAAAILEEDDSKDDMEFKANPNEAGKPGKP--KGNQGEGLASSSDGKSKA 153
>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 = 29.2 bits (66), Expect = 2.0
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 5/58 (8%)
Query: 24 DLVVEAMWQMWGTNTRTELLFGIH---IRPVGVWGKIVG-SLCAIAGVLTIALPVPVI 77
D EA+ ++ T T TE + + P V GKI + GVL + L + VI
Sbjct: 138 DSYGEALLWLFRTLT-TEGWGDVMYDTLVPGTVLGKIFFVIFIILGGVLLLNLLIGVI 194
>gnl|CDD|176413 cd01818, TIAM1_RBD, Ubiquitin domain of Tiam1 guanine nucleotide
exchange factor. Tiam1 (T lymphoma invasion and
metastasis 1) a guanine nucleotide exchange factor that
activates Rac, is an important regulator of Rho GTPase
functions in tumor cells including regulation of cell
shape and invasiveness in epithelial cells and
fibroblasts. TIAM1 has an RBD (Ras-binding domain)
similar to that of Raf kinase as well as PH (pleckstrin
homology), PDZ, and RhoGEF domains.
Length = 77
Score = 27.1 bits (60), Expect = 3.2
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 80 NFNYFYHRETDQEDMQSQNFNHVTSCP 106
N YFY ED+ + + CP
Sbjct: 51 NHEYFYIPN-PLEDIYDLLYKEIEICP 76
>gnl|CDD|107359 cd06364, PBP1_CaSR, Ligand-binding domain of the CaSR
calcium-sensing receptor, which is a member of the
family C receptors within the G-protein coupled receptor
superfamily. Ligand-binding domain of the CaSR
calcium-sensing receptor, which is a member of the
family C receptors within the G-protein coupled receptor
superfamily. CaSR provides feedback control of
extracellular calcium homeostasis by responding
sensitively to acute fluctuations in extracellular
ionized Ca2+ concentration. This ligand-binding domain
has homology to the bacterial leucine-isoleucine-valine
binding protein (LIVBP) and a leucine binding protein
(LBP). CaSR is widely expressed in mammalian tissues and
is active in tissues that are not directly involved in
extracellular calcium homeostasis. Moreover, CaSR
responds to aromatic, aliphatic, and polar amino acids,
but not to positively charged or branched chain amino
acids, which suggests that changes in plasma amino acid
levels are likely to modulate whole body calcium
metabolism. Additionally, the family C GPCRs includes at
least two receptors with broad-spectrum amino
acid-sensing properties: GPRC6A which recognizes basic
and various aliphatic amino acids, its gold-fish homolog
the 5.24 chemoreceptor, and a specific taste receptor
(T1R) which responds to aliphatic, polar, charged, and
branched amino acids, but not to aromatic amino acids.
Length = 510
Score = 28.8 bits (64), Expect = 3.6
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 11/65 (16%)
Query: 209 LCNPKHNIMSIETDWDHYKRMKLVLVSF-LYKYWYNVDHPVP--HSCSLGLGRGSQGLFG 265
LC NI S+ET + Y ++ +S+ +Y Y++ H + ++C+ G +GLF
Sbjct: 374 LCTGDENIASVETPYLDYTHLR---ISYNVYLAVYSIAHALQDIYTCTPG-----KGLFT 425
Query: 266 VGSCA 270
GSCA
Sbjct: 426 NGSCA 430
>gnl|CDD|218495 pfam05203, Hom_end_hint, Hom_end-associated Hint. Homing
endonucleases are encoded by mobile DNA elements that
are found inserted within host genes in all domains of
life. The crystal structure of the homing nuclease
PI-Sce revealed two domains: an endonucleolytic centre
resembling the C-terminal domain of Drosophila
melanogaster Hedgehog protein, and a a second domain
containing the protein-splicing active site. This Domain
corresponds to the latter protein-splicing domain.
Length = 392
Score = 28.6 bits (64), Expect = 3.9
Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 84 FYHRETDQEDMQSQNFNHVTSCPYLPGTLGEWLVDNSSSRS 124
Y E + Q F +T P L LG WL D +
Sbjct: 125 LYENGILSEFLTPQKFL-ITPAPTLAYLLGLWLGDGTKKEP 164
>gnl|CDD|227002 COG4655, COG4655, Predicted membrane protein [Function unknown].
Length = 565
Score = 28.7 bits (64), Expect = 4.0
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 167 MKKSSLSESSSDMMELEEGLLFGRDYSTSLTNKKLLSNNNLSLCNPKHNI 216
SSL+ SD+ + RD S +LT LL N LS+ I
Sbjct: 459 PPASSLTFFQSDIPYRTIKSVSTRDTSVTLT-GSLLGNLLLSINLLGLTI 507
>gnl|CDD|233760 TIGR02171, Fb_sc_TIGR02171, Fibrobacter succinogenes paralogous
family TIGR02171. This model describes a paralogous
family of the rumen bacterium Fibrobacter succinogenes.
Eleven members are found in Fibrobacter succinogenes
S85, averaging over 900 amino acids in length. More than
half are predicted lipoproteins. The function is
unknown.
Length = 912
Score = 27.9 bits (62), Expect = 7.1
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 192 YSTSLTNKKLLSNNNLSLCNPKHNIMSIET-DWDHYKRMKLVLVSFLYKYWYN 243
Y TS+ +K L N S + ++ + H K++K V+V +W+N
Sbjct: 668 YPTSIKSKFAL-NMGYSGGDIHASLYLLMNYAIPHAKKLKYVVVELSLDFWWN 719
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
0.320 0.134 0.429
Gapped
Lambda K H
0.267 0.0533 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,597,406
Number of extensions: 1226818
Number of successful extensions: 966
Number of sequences better than 10.0: 1
Number of HSP's gapped: 966
Number of HSP's successfully gapped: 10
Length of query: 275
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 179
Effective length of database: 6,679,618
Effective search space: 1195651622
Effective search space used: 1195651622
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.6 bits)