RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5196
(252 letters)
>gnl|CDD|215631 PLN03202, PLN03202, protein argonaute; Provisional.
Length = 900
Score = 81.7 bits (202), Expect = 1e-17
Identities = 68/237 (28%), Positives = 106/237 (44%), Gaps = 50/237 (21%)
Query: 27 IPRRSNKDGGTLGRRTQVDTNHFAITFKNPNLVIFHYDVAI--DPDKPVR---YMRPVMQ 81
+ RR G+ G++ Q+ TNHF ++ NP+ FHY V++ + +PV R V+
Sbjct: 34 MARRGF---GSKGQKIQLLTNHFKVSVNNPDGHFFHYSVSLTYEDGRPVDGKGIGRKVID 90
Query: 82 KVAREY---FPNSPCGYDGKKNLFSKGTLPFGTAMNCTV--------------------- 117
KV Y YDG+K+LF+ G LP + TV
Sbjct: 91 KVQETYSSDLAGKDFAYDGEKSLFTVGALP-QNKLEFTVVLEDVSSNRNNGNGSPVGNGS 149
Query: 118 -SIFDEERMK----DKEYKVEIKKAQEISFASIVEFMR-TGVNRPQIAIQALDVVLREPC 171
+ D +R + K +KVEI A +I +I +R Q A++ LD++LR+
Sbjct: 150 PNGGDRKRSRRPYQSKTFKVEISFAAKIPMQAIANALRGQESENSQDALRVLDIILRQH- 208
Query: 172 SLNANFVRVGRSYFSPPDPNRLVDLGDGLHLWNGFYQSAGIGWRP-----YLNVDVA 223
+ + V +S+F DP VDLG G+ GF+ S +R LN+DV+
Sbjct: 209 AAKQGCLLVRQSFFH-NDPKNFVDLGGGVLGCRGFHSS----FRTTQGGLSLNIDVS 260
>gnl|CDD|219976 pfam08699, DUF1785, Domain of unknown function (DUF1785). This
region is found in argonaute proteins and often
co-occurs with pfam02179 and pfam02171.
Length = 52
Score = 56.8 bits (138), Expect = 3e-11
Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 178 VRVGRSYFSPPDPNRLVDLGDGLHLWNGFYQSAGIG-WRPYLNVDVAHKGFPEE 230
+ VGRS+FS +R DLG GL W GF+QS LNVDV+ F +
Sbjct: 1 IAVGRSFFSISFGHR--DLGGGLEAWRGFFQSVRPTQGGLSLNVDVSTTAFYKP 52
>gnl|CDD|180518 PRK06294, PRK06294, coproporphyrinogen III oxidase; Provisional.
Length = 370
Score = 29.7 bits (67), Expect = 1.2
Identities = 16/58 (27%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 116 TVSIFDEERMKDKEYKVEIKKAQEI---------SFASIVEFMRTGVNRPQIAIQALD 164
T S+ ++D +E A EI S + I TG+NR I +Q D
Sbjct: 68 TPSLVPPALIQDILKTLEAPHATEITLEANPENLSESYIRALALTGINRISIGVQTFD 125
>gnl|CDD|218712 pfam05710, Coiled, Coiled coil. This region is found in a group
of Dictyostelium discoideum proteins. It is likely to
form a coiled-coil. Some of the proteins are regulated
by cyclic AMP and are expressed late in development.
Length = 90
Score = 27.1 bits (60), Expect = 3.3
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 9/36 (25%)
Query: 1 MTIASS---------SSSSSISSAASGAGSKGLYQI 27
MTI +S SS SSISS S + S G I
Sbjct: 1 MTILASISSIGNSKSSSKSSISSFGSSSLSMGSNSI 36
>gnl|CDD|206115 pfam13944, Lipocalin_6, Lipocalin-like domain.
Length = 122
Score = 27.3 bits (61), Expect = 4.5
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 4/42 (9%)
Query: 95 YDGKKNL-FSKGTLPFGTAMNCTVSIFDEERMKDKEYKVEIK 135
Y G NL S P+G+ + V I D K+ +
Sbjct: 6 YKGTLNLSVSVVGTPYGSTEDQKVKITKAS---DGTVKLTLS 44
>gnl|CDD|198186 cd09932, SH2_C-SH2_PLC_gamma_like, C-terminal Src homology 2
(C-SH2) domain in Phospholipase C gamma. Phospholipase
C gamma is a signaling molecule that is recruited to
the C-terminal tail of the receptor upon
autophosphorylation of a highly conserved tyrosine.
PLCgamma is composed of a Pleckstrin homology (PH)
domain followed by an elongation factor (EF) domain, 2
catalytic regions of PLC domains that flank 2 tandem
SH2 domains (N-SH2, C-SH2), and ending with a SH3
domain and C2 domain. N-SH2 SH2 domain-mediated
interactions represent a crucial step in transmembrane
signaling by receptor tyrosine kinases. SH2 domains
recognize phosphotyrosine (pY) in the context of
particular sequence motifs in receptor phosphorylation
sites. Both N-SH2 and C-SH2 have a very similar binding
affinity to pY. But in growth factor stimulated cells
these domains bind to different target proteins. N-SH2
binds to pY containing sites in the C-terminal tails of
tyrosine kinases and other receptors. Recently it has
been shown that this interaction is mediated by
phosphorylation-independent interactions between a
secondary binding site found exclusively on the N-SH2
domain and a region of the FGFR1 tyrosine kinase
domain. This secondary site on the SH2 cooperates with
the canonical pY site to regulate selectivity in
mediating a specific cellular process. C-SH2 binds to
an intramolecular site on PLCgamma itself which allows
it to hydrolyze phosphatidylinositol-4,5-bisphosphate
into diacylglycerol and inositol triphosphate. These
then activate protein kinase C and release calcium. In
general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 104
Score = 26.8 bits (60), Expect = 5.2
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 4/31 (12%)
Query: 24 LYQIPRRSNKDGGTLGRRTQVDTNHFAITFK 54
L ++PR DG L R ++ D N FAI+F+
Sbjct: 20 LMRVPR----DGAFLVRPSETDPNSFAISFR 46
>gnl|CDD|219286 pfam07072, DUF1342, Protein of unknown function (DUF1342). This
family consists of several hypothetical bacterial
proteins of around 250 residues in length. Members of
this family are often known as YacF after the
Escherichia coli protein. The function of this family is
unknown.
Length = 211
Score = 27.5 bits (62), Expect = 5.5
Identities = 15/57 (26%), Positives = 17/57 (29%), Gaps = 20/57 (35%)
Query: 193 LVDLGDGLHLW----------------NGFYQSAGIGWRPY----LNVDVAHKGFPE 229
L L D L L NGFYQ R Y L + +PE
Sbjct: 144 LAPLRDALTLLLRLLRESGQFQPQTARNGFYQQMLEQGRSYQLLRLRIPPDLGVYPE 200
>gnl|CDD|236391 PRK09145, PRK09145, DNA polymerase III subunit epsilon; Validated.
Length = 202
Score = 27.2 bits (61), Expect = 6.4
Identities = 27/95 (28%), Positives = 39/95 (41%), Gaps = 30/95 (31%)
Query: 161 QALDVVLREPCSLNANFVRVGRSYFSPPDPNRLVDLGDGLHLWNGFYQ-SAGIGWRP--- 216
+ L++++R P SL+A +++ R R DL DGL Q A IG RP
Sbjct: 65 ERLELLVRPPQSLSAESIKIHRL--------RHQDLEDGLSEEEALRQLLAFIGNRPLVG 116
Query: 217 -YLNVDVAHKGFPEEKSVIKVIDEICR-----GLP 245
YL DVA +++ R LP
Sbjct: 117 YYLEFDVA------------MLNRYVRPLLGIPLP 139
>gnl|CDD|236896 PRK11301, livM, leucine/isoleucine/valine transporter permease
subunit; Provisional.
Length = 419
Score = 27.6 bits (62), Expect = 7.7
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 18/59 (30%)
Query: 20 GSKGLYQIPR---------RSNKDGGTLGRRTQVDTNH--FAITFKNPNLVIFHYDVAI 67
G G+ QIP+ R+ ++GG DT H F + + + VIF Y VA+
Sbjct: 218 GPNGISQIPKPTLFGLEFSRTAREGGW-------DTFHEFFGLKYDPSDRVIFLYLVAL 269
>gnl|CDD|237904 PRK15080, PRK15080, ethanolamine utilization protein EutJ;
Provisional.
Length = 267
Score = 27.1 bits (61), Expect = 8.5
Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 26/66 (39%)
Query: 76 MRPVMQKVA---REYFPNSP----------CGYDGKKNLFSKGT-------------LPF 109
++PV++K+A + C G + +F K T P
Sbjct: 202 VKPVVEKMASIVARHIEGQDVEDIYLVGGTCCLPGFEEVFEKQTGLPVHKPQHPLFVTPL 261
Query: 110 GTAMNC 115
G A++C
Sbjct: 262 GIALSC 267
>gnl|CDD|218099 pfam04465, DUF499, Protein of unknown function (DUF499). Family of
uncharacterized hypothetical prokaryotic proteins.
Length = 1025
Score = 27.5 bits (61), Expect = 9.4
Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 3/71 (4%)
Query: 120 FDEERMKD--KEYKVEIKKAQEISFASIVEFMRTGVNRPQIAIQALDVVLREPC-SLNAN 176
FD E + D K+ ++I K + + ++ + + P I + L +++ L
Sbjct: 637 FDFEWLIDILKDVGIKILKGEGYKVSELINVILSNPRLPMIRYERLIEAIKDAVKKLEIG 696
Query: 177 FVRVGRSYFSP 187
R G+ F
Sbjct: 697 IERKGKILFKK 707
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
0.319 0.136 0.410
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,106,118
Number of extensions: 1254884
Number of successful extensions: 1204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1195
Number of HSP's successfully gapped: 16
Length of query: 252
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 157
Effective length of database: 6,723,972
Effective search space: 1055663604
Effective search space used: 1055663604
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 (21.7 bits)
S2: 58 (26.1 bits)