RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13127
(64 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 55.6 bits (135), Expect = 1e-12
Identities = 23/43 (53%), Positives = 29/43 (67%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+R RT F+P QL +LE FEKN Y ER++LA+ L LTE Q
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQ 43
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 53.0 bits (128), Expect = 1e-11
Identities = 21/44 (47%), Positives = 30/44 (68%)
Query: 20 PKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+R RT+F+P QL +LE F+KN Y ER++LA+ L L+E Q
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQ 44
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved
in the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 51.9 bits (125), Expect = 3e-11
Identities = 23/43 (53%), Positives = 29/43 (67%)
Query: 21 KRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTETQ 63
+R RT F+P QL +LE FEKN Y ER++LA+ L LTE Q
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQ 43
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 28.9 bits (65), Expect = 0.095
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 19 KPKRIRTAFSPSQLLKLEHAFEKNHYVVGAERKQLAQSLSLTE 61
K KR RT + QL+ LE FE N Y R +L+ L++
Sbjct: 52 KSKRRRT--TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPP 92
>gnl|CDD|205978 pfam13805, Pil1, Eisosome component PIL1. In the budding yeast,
S. cerevisiae, Pil1 and another cytoplasmic protein,
Lsp1, together form large immobile assemblies at the
plasma membrane that mark sites for endocytosis, called
eisosomes. Endocytosis functions to recycle plasma
membrane components, to regulate cell-surface
expression of signalling receptors and to internalise
nutrients in all eukaryotic cells.
Length = 271
Score = 27.1 bits (60), Expect = 0.51
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 30 SQLLKLEHAFEKNHYVVGAERKQLAQSLSL 59
SQL+K+E ++ V ER+ A+ LSL
Sbjct: 60 SQLVKMEKNVMRSMEVTARERRDAAKQLSL 89
>gnl|CDD|221839 pfam12898, Stc1, Stc1 domain. The domain contains 8 conserved
cysteines that may bind to zinc. In S. pombe this
protein acts as a protein linker which links the
chromatin modifying CLRC complex to RNAi by tethering
it to the RITS complex. The region is reported as a LIM
domain here, but has a slightly different arrangement
of its CxxC pairs from the Pfam LIM domain pfam00412,
hence why it is not part of that family. The tandem
zinc-finger structure could mediate protein-protein
interactions.
Length = 84
Score = 26.2 bits (58), Expect = 0.66
Identities = 12/31 (38%), Positives = 13/31 (41%)
Query: 18 RKPKRIRTAFSPSQLLKLEHAFEKNHYVVGA 48
K R R+AFS QL KL A N
Sbjct: 5 CKKIRPRSAFSKRQLEKLRKALRGNGINALG 35
>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
Length = 1017
Score = 25.2 bits (55), Expect = 2.4
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 3 NGIRPDIPGFLLQPFRKPKRIRTAFSPSQLLKLEH 37
NG++ I GFLL+P+ + +R + P KLE
Sbjct: 600 NGVQSGIGGFLLKPWNERERTQMELLPLVQAKLEE 634
>gnl|CDD|238269 cd00483, HPPK,
7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase
(HPPK). Folate derivatives are essential cofactors in
the biosynthesis of purines, pyrimidines, and amino
acids as well as formyl-tRNA. Mammalian cells are able
to utilize pre-formed folates after uptake by a
carrier-mediated active transport system. Most microbes
and plants lack this system and must synthesize folates
de novo from guanosine triphosphate. One enzyme from
this pathway is HPPK which catalyzes pyrophosphoryl
transfer from ATP to 6-hydroxymethyl-7,8-dihydropterin
(HP). The functional enzyme is a monomer. Mammals lack
many of the enzymes in the folate pathway including,
HPPK.
Length = 128
Score = 24.7 bits (55), Expect = 2.6
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNHYVVGAERKQ 52
+ T+ SP +LL A E+ G RK+
Sbjct: 57 ELETSLSPLELLDALQAIEQRL---GRVRKE 84
>gnl|CDD|223872 COG0801, FolK,
7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase
[Coenzyme metabolism].
Length = 160
Score = 24.9 bits (55), Expect = 3.2
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 3/30 (10%)
Query: 23 IRTAFSPSQLLKLEHAFEKNHYVVGAERKQ 52
+ T SP +LL A E+ G R +
Sbjct: 61 VETTLSPRELLARLQAIERRL---GRVRSE 87
>gnl|CDD|177188 MTH00130, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 261
Score = 24.7 bits (54), Expect = 3.5
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 43 HYVVGAERKQLAQSLSLT 60
H ++ ERKQ QSL+LT
Sbjct: 149 HSIMEGERKQAIQSLTLT 166
>gnl|CDD|216414 pfam01288, HPPK,
7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase
(HPPK).
Length = 127
Score = 24.0 bits (53), Expect = 5.8
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 22 RIRTAFSPSQLLKLEHAFEKNH 43
+ T SP +LL L A E
Sbjct: 56 ELETTLSPEELLALLQAIEAKL 77
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
0.322 0.136 0.391
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,228,575
Number of extensions: 228718
Number of successful extensions: 188
Number of sequences better than 10.0: 1
Number of HSP's gapped: 188
Number of HSP's successfully gapped: 11
Length of query: 64
Length of database: 10,937,602
Length adjustment: 35
Effective length of query: 29
Effective length of database: 9,385,212
Effective search space: 272171148
Effective search space used: 272171148
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 (21.9 bits)
S2: 53 (24.1 bits)