RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy424
(98 letters)
>gnl|CDD|202805 pfam03911, Sec61_beta, Sec61beta family. This family consists of
homologues of Sec61beta - a component of the
Sec61/SecYEG protein secretory system. The domain is
found in eukaryotes and archaea and is possibly
homologous to the bacterial SecG. It consists of a
single putative transmembrane helix, preceded by a
short stretch containing various charged residues; this
arrangement may help determine orientation in the cell
membrane.
Length = 41
Score = 74.9 bits (185), Expect = 6e-20
Identities = 24/40 (60%), Positives = 30/40 (75%)
Query: 52 SGGMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFMLHIWG 91
S G+ R+Y +++PGIKV P VLV+SL FIASV LHI G
Sbjct: 2 SAGLLRFYEEEAPGIKVDPKVVLVLSLGFIASVIALHILG 41
>gnl|CDD|179263 PRK01253, PRK01253, preprotein translocase subunit SecG;
Reviewed.
Length = 54
Score = 38.7 bits (91), Expect = 1e-05
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 42 AARSNRTGAGSG-GMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFMLHI 89
+ G S G+ RY+ +++ IK+ P V+ + L V +L+
Sbjct: 2 KKKKEGGGLMSSAGLIRYFEEETEAIKIDPKTVIAIGLALGIFVLVLNA 50
>gnl|CDD|181922 PRK09512, rbsC, ribose ABC transporter permease protein; Reviewed.
Length = 320
Score = 27.0 bits (60), Expect = 1.6
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 70 PVPVLVMSLLFIASVFMLH 88
P PV +M+++F+A+ +MLH
Sbjct: 172 PTPVWIMAIVFLAAWYMLH 190
>gnl|CDD|226510 COG4023, SBH1, Preprotein translocase subunit Sec61beta
[Intracellular trafficking and secretion].
Length = 57
Score = 25.5 bits (56), Expect = 1.8
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 42 AARSNRTGAGS---GGMWRYYTDDSP-GIKVGPVPVLVMSLLFIASVFMLHI 89
A+R G S G+ R++ ++ GIK+ P V+ + V HI
Sbjct: 2 ASRRKSEGLQSPAAAGLIRFFEEEEIKGIKIDPRLVVYAGIAVAILVIAAHI 53
>gnl|CDD|183558 PRK12495, PRK12495, hypothetical protein; Provisional.
Length = 226
Score = 26.4 bits (58), Expect = 2.3
Identities = 12/48 (25%), Positives = 15/48 (31%)
Query: 2 TPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTG 49
P ASSTS + R + +P T RS R
Sbjct: 113 APPEASSTSATDEAATDPPATAAARDGPTPDPTAQPATPDERRSPRQR 160
>gnl|CDD|236779 PRK10864, PRK10864, putative methyltransferase; Provisional.
Length = 346
Score = 26.3 bits (58), Expect = 2.5
Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 7/58 (12%)
Query: 7 SSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDDSP 64
S T +P+ G GGRP+G + R AR +R W DSP
Sbjct: 19 SDDDSDKRTHNPRTGKGGGRPSG---KSRADGGRRPARDDRNSQSRDRKWE----DSP 69
>gnl|CDD|223061 PHA03369, PHA03369, capsid maturational protease; Provisional.
Length = 663
Score = 26.5 bits (58), Expect = 2.9
Identities = 19/73 (26%), Positives = 25/73 (34%), Gaps = 3/73 (4%)
Query: 4 APASSTSVGSGTR---SPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYT 60
A A+ +V + + P RP G + TA G G+ Y
Sbjct: 361 AAAAKVAVIAAPQTHTGPADRQRPQRPDGIPYSVPARSPMTAYPPVPQFCGDPGLVSPYN 420
Query: 61 DDSPGIKVGPVPV 73
SPG GP PV
Sbjct: 421 PQSPGTSYGPEPV 433
>gnl|CDD|216575 pfam01566, Nramp, Natural resistance-associated macrophage protein.
The natural resistance-associated macrophage protein
(NRAMP) family consists of Nramp1, Nramp2, and yeast
proteins Smf1 and Smf2. The NRAMP family is a novel
family of functional related proteins defined by a
conserved hydrophobic core of ten transmembrane domains.
This family of membrane proteins are divalent cation
transporters. Nramp1 is an integral membrane protein
expressed exclusively in cells of the immune system and
is recruited to the membrane of a phagosome upon
phagocytosis. By controlling divalent cation
concentrations Nramp1 may regulate the interphagosomal
replication of bacteria. Mutations in Nramp1 may
genetically predispose an individual to susceptibility
to diseases including leprosy and tuberculosis
conversely this might however provide protection form
rheumatoid arthritis. Nramp2 is a multiple divalent
cation transporter for Fe2+, Mn2+ and Zn2+ amongst
others it is expressed at high levels in the intestine;
and is major transferrin-independent iron uptake system
in mammals. The yeast proteins Smf1 and Smf2 may also
transport divalent cations.
Length = 364
Score = 26.0 bits (58), Expect = 3.5
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 73 VLVMSLLFIASVFMLHI-WG 91
V V++L FIA +F++ WG
Sbjct: 124 VAVIALSFIAELFLVKPDWG 143
>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated.
Length = 343
Score = 25.7 bits (57), Expect = 4.1
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 9/46 (19%)
Query: 42 AARSNRTGAGSGGMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFML 87
AR R G W PG V + L++ ++F+ +VF++
Sbjct: 3 LARRRRRRRG-VDYW-------PGF-VDALSTLLLVIMFLLTVFVV 39
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
0.313 0.129 0.392
Gapped
Lambda K H
0.267 0.0651 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,860,734
Number of extensions: 390323
Number of successful extensions: 425
Number of sequences better than 10.0: 1
Number of HSP's gapped: 423
Number of HSP's successfully gapped: 44
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.4 bits)