RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15147
(100 letters)
>gnl|CDD|178466 PLN02878, PLN02878, homogentisate phytyltransferase.
Length = 280
Score = 27.4 bits (61), Expect = 1.1
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 44 IDKYVRPEIPCLSKRYTMAT---LTCVGFIISFGM 75
IDK +P +P S +++AT + I+SFGM
Sbjct: 50 IDKVNKPYLPLASGEFSVATGVAIVTSFAIMSFGM 84
>gnl|CDD|162338 TIGR01398, FlhA, flagellar biosynthesis protein FlhA. This model
describes flagellar biosynthesis protein FlhA, one of a
large number of genes associated with the biosynthesis
of functional bacterial flagella. Homologs of many such
proteins, including FlhA, function in type III protein
secretion systems. A separate model describes InvA
(Salmonella enterica), LcrD (Yersinia enterocolitica),
HrcV (Xanthomonas), etc., all of which score below the
noise cutoff for this model [Cellular processes,
Chemotaxis and motility].
Length = 678
Score = 27.6 bits (62), Expect = 1.2
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 13 SEEIVKYASTGGLPGGPSIDIPSPE-RPPLRHIDKYVRPEIPCLS 56
+ + K A G + + SP RP +R I + PE+P LS
Sbjct: 622 RKAVEKLA----NNGERPVLLTSPRVRPYVRRILERFFPELPVLS 662
>gnl|CDD|183854 PRK13042, PRK13042, superantigen-like protein; Reviewed.
Length = 291
Score = 26.9 bits (59), Expect = 2.0
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 1/64 (1%)
Query: 2 SPQQTHQYTSPSEEIVKYASTGGLPGGP-SIDIPSPERPPLRHIDKYVRPEIPCLSKRYT 60
+PQ T+P V+ P S + +P+ P + + + P+ L YT
Sbjct: 52 APQSKPNATTPPSTKVEAPQQTPNATTPSSTKVETPQSPTTKQVPTEINPKFKDLRAYYT 111
Query: 61 MATL 64
+L
Sbjct: 112 KPSL 115
>gnl|CDD|225330 COG2610, GntT, H+/gluconate symporter and related permeases
[Carbohydrate transport and metabolism / Amino acid
transport and metabolism].
Length = 442
Score = 26.4 bits (59), Expect = 2.9
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 52 IPCLSKRYTMATLTCVGFIISFGMKCNLGF 81
I ++ + L G I+ + ++GF
Sbjct: 90 IRKFGEKRALLALVLAGLILGIPVFFDVGF 119
>gnl|CDD|132736 cd06938, NR_LBD_EcR, The ligand binding domain (LBD) of the
Ecdysone receptor, a member of the nuclear receptors
super family. The ligand binding domain (LBD) of the
ecdysone receptor: The ecdysone receptor (EcR) belongs
to the superfamily of nuclear receptors (NRs) of
ligand-dependent transcription factors. Ecdysone
receptor is present only in invertebrates and regulates
the expression of a large number of genes during
development and reproduction. ECR functions as a
heterodimer by partnering with ultraspiracle protein
(USP), the ortholog of the vertebrate retinoid X
receptor (RXR). The natural ligands of ecdysone
receptor are ecdysteroids#the endogenous steroidal
hormones found in invertebrates. In addition,
insecticide bisacylhydrazine used against pests has
shown to act on EcR. EcR must be dimerised with a USP
for high-affinity ligand binding to occur. The ligand
binding triggers a conformational change in the
C-terminal part of the EcR ligand-binding domain that
leads to transcriptional activation of genes controlled
by EcR. Like other members of the nuclear receptor (NR)
superfamily of ligand-activated transcription factors,
ec dysone receptors have a central well conserved DNA
binding domain (DBD), a variable N-terminal domain, a
non-conserved hinge and a C-terminal ligand binding
domain (LBD).
Length = 231
Score = 25.5 bits (56), Expect = 4.8
Identities = 20/80 (25%), Positives = 27/80 (33%), Gaps = 22/80 (27%)
Query: 8 QYTSPSEEIVKYASTGGLPGGPSIDIPSPERPPLRHIDKYVRPEIPCLSKRYTMATLTCV 67
++ PSEE +K + D RHI + M LT V
Sbjct: 14 EFEQPSEEDLKRITEHPQNDEDQSD------MRFRHITE--------------MTILT-V 52
Query: 68 GFIISFGMKCNLGFAKLQFE 87
I+ F + GF KL E
Sbjct: 53 QLIVEFAKRLP-GFDKLSRE 71
>gnl|CDD|234234 TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family.
Members of this protein family are bacterial
lipoproteins largely from the Gammaproteobacteria.
Characterized members are expressed extracellularly and
have esterase activity. Members include the lipase Pla-1
from Aeromonas hydrophila (AF092033) and CHO cell
elongation factor (cef) from Vibrio hollisae.
Length = 792
Score = 25.5 bits (56), Expect = 6.3
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 8/44 (18%)
Query: 5 QTHQYTSPSEEIVKYASTGGLPGGPS-IDIPSPERPPLRHIDKY 47
Q T P+E++ ST L G + +D RH+ KY
Sbjct: 370 QAPFATDPAEQLKLVGSTLTLSDGDTALD-------SERHLTKY 406
>gnl|CDD|226684 COG4231, COG4231, Indolepyruvate ferredoxin oxidoreductase, alpha
and beta subunits [Energy production and conversion].
Length = 640
Score = 25.4 bits (56), Expect = 6.4
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 32 DIPSPERP-PLRHIDKYVRPEIPCLSKRYTM 61
I PE ++ +YVR L R+
Sbjct: 192 PIVEPEDEFFIKDPGRYVRVPANALRHRHRK 222
>gnl|CDD|213980 TIGR04367, HpnR_B12_rSAM, hopanoid C-3 methylase HpnR. Members of
this are family are a B12-binding domain/radical SAM
domain protein required for 3-methylhopanoid production.
Activity was confirmed by mutant phenotype by disrupting
this gene in Methylococcus capsulatus strain Bath. This
protein family should only occur in genomes that encode
a squalene-hopene cyclase (see TIGR01507) [Fatty acid
and phospholipid metabolism, Biosynthesis].
Length = 490
Score = 25.4 bits (56), Expect = 6.6
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 29 PSIDIPSPERPPLRHIDKYVRPEI-PCLSKRYT 60
PS+D P P R LRH KY + PC S +T
Sbjct: 160 PSLDEPRPARDLLRHRRKYFIGVLDPCASIEFT 192
>gnl|CDD|114205 pfam05467, Herpes_U47, Herpesvirus glycoprotein U47.
Length = 627
Score = 25.2 bits (54), Expect = 7.0
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 10 TSPSEEIVKYASTGGLPGGPSIDIPSPERPPL 41
T+PS +++ P PS +IP+PE PP+
Sbjct: 239 TTPSSTPSSTSASITSPHIPSTNIPTPEPPPV 270
>gnl|CDD|188314 TIGR03401, cyanamide_fam, HD domain protein, cyanamide hydratase
family. Members of this protein family are known, so
far, in the Ascomycota, a branch of the Fungi, and
contain an HD domain (pfam01966), found typically in
various metal-dependent phosphohydrolases. The only
characterized member of this family, from the soil
fungus Myrothecium verrucaria, is cyanamide hydratase
(EC 4.2.1.69), a zinc-containing homohexamer that adds
water to the fertilizer cyanamide (NCNH2), a nitrile
compound, to produce urea (NH2-CO-NH2). Homologs are
likely to be nitrile hydratases.
Length = 228
Score = 25.1 bits (55), Expect = 8.5
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 6 THQYTSPSEEIVKYASTGGLPGGPSI----DIPSPERPPLRHIDKYVRPEIP 53
+ +T+ + ST P D P P+ P ++ +Y + +P
Sbjct: 2 KYGFTAVPRDAKAAISTVPKVKPPPAQSVEDTPLPDTPLVKFAQEYAKARLP 53
>gnl|CDD|165452 PHA03181, PHA03181, helicase-primase primase subunit; Provisional.
Length = 764
Score = 24.9 bits (54), Expect = 8.6
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 10 TSPSEEIVKYASTGGLPGGPSIDIPSPERPPLRH-IDKYV 48
T+P E V YA G PG P + + ++ ID Y
Sbjct: 312 TNPRGEDVDYACIIGFPGWPMVKSSTASHLAIKEAIDSYA 351
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 0.138 0.432
Gapped
Lambda K H
0.267 0.0821 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,205,044
Number of extensions: 422547
Number of successful extensions: 355
Number of sequences better than 10.0: 1
Number of HSP's gapped: 355
Number of HSP's successfully gapped: 15
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
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: 53 (24.0 bits)