RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy422
(164 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 = 78.8 bits (195), Expect = 2e-20
Identities = 24/40 (60%), Positives = 30/40 (75%)
Query: 118 SGGMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFMLHIWG 157
S G+ R+Y +++PGIKV P VLV+SL FIASV LHI G
Sbjct: 2 SAGLLRFYEEEAPGIKVDPKVVLVLSLGFIASVIALHILG 41
Score = 37.2 bits (87), Expect = 1e-04
Identities = 10/20 (50%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 50 SGGMWRYYTDDSPGIKVKSP 69
S G+ R+Y +++PGIKV P
Sbjct: 2 SAGLLRFYEEEAPGIKV-DP 20
>gnl|CDD|179263 PRK01253, PRK01253, preprotein translocase subunit SecG; Reviewed.
Length = 54
Score = 39.5 bits (93), Expect = 3e-05
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 108 AARSNRTGAGSG-GMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFMLHI 155
+ G S G+ RY+ +++ IK+ P V+ + L V +L+
Sbjct: 2 KKKKEGGGLMSSAGLIRYFEEETEAIKIDPKTVIAIGLALGIFVLVLNA 50
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 36.5 bits (85), Expect = 0.004
Identities = 17/125 (13%), Positives = 26/125 (20%), Gaps = 2/125 (1%)
Query: 1 PAPASSTSVGSGTRSPKAGGPG--GRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYT 58
PA+ + + AG + + A GG
Sbjct: 613 ARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAK 672
Query: 59 DDSPGIKVKSPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGS 118
PAPA + +P P T + P + A S
Sbjct: 673 AGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPS 732
Query: 119 GGMWR 123
Sbjct: 733 PAADD 737
>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 = 30.4 bits (68), Expect = 0.40
Identities = 17/120 (14%), Positives = 32/120 (26%), Gaps = 6/120 (5%)
Query: 5 SSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDDSPGI 64
+ S G + G + + + +A + S + + +
Sbjct: 72 NKASKDDGNINLTDTSENGDAS-KKGHGKSRVRSASAAAILEEDDSKDDMEFKANPNEAG 130
Query: 65 KVKSPAPAS-----STSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSG 119
K P S+S G S K+G G + + T + S G
Sbjct: 131 KPGKPKGNQGEGLASSSDGKSKASAKSGSKSASKHGESNSSDESATDSGKASASVAGIVG 190
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 30.5 bits (69), Expect = 0.46
Identities = 19/120 (15%), Positives = 35/120 (29%), Gaps = 8/120 (6%)
Query: 1 PAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDD 60
+ + S G S + P+ S ++ R++ + + S +
Sbjct: 272 ASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSS-------RES 324
Query: 61 SPGIKVKSPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGG 120
S S + +V G SP RP +R+ + A S G
Sbjct: 325 SSSSTSSSSESSRGAAVSPG-PSPSRSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAG 383
Score = 27.1 bits (60), Expect = 5.3
Identities = 22/103 (21%), Positives = 34/103 (33%), Gaps = 7/103 (6%)
Query: 1 PAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKP-------TTTTAARSNRTGAGSGGM 53
A+ + S +RSP P S+ R+R +A R R A +
Sbjct: 336 SRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTRRRARAAVA 395
Query: 54 WRYYTDDSPGIKVKSPAPASSTSVGSGTRSPKAGGPGGRPTGS 96
R D+ G S G+ + + A P P+G
Sbjct: 396 GRARRRDATGRFPAGRPRPSPLDAGAASGAFYARYPLLTPSGE 438
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 29.9 bits (67), Expect = 0.58
Identities = 27/116 (23%), Positives = 36/116 (31%), Gaps = 7/116 (6%)
Query: 10 GSGTRSPKAGGPGGRPTGSTV-----RQRKPTTTTAARSNRTGAGSGGMWRYYTDDSPGI 64
G G+RS G GGR G+ +RKP A + GA + + +
Sbjct: 440 GGGSRSGS-VGGGGRRDGAGADGKPRPRRKPRVEGEADAAAAGAETPVVAAAAAQAPGVV 498
Query: 65 KVKSPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGG 120
R + P P + RKPT A R A S G
Sbjct: 499 AADGERAPRKRRRRRNGRPVEGAEPVSTPVPAPAAPRKPTQVV-ATPVRAAAKSSG 553
>gnl|CDD|222011 pfam13257, DUF4048, Domain of unknown function (DUF4048). This
presumed domain is functionally uncharacterized. This
domain family is found in eukaryotes, and is typically
between 228 and 257 amino acids in length.
Length = 242
Score = 28.2 bits (63), Expect = 1.8
Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 1/80 (1%)
Query: 1 PAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQR-KPTTTTAARSNRTGAGSGGMWRYYTD 59
P P S S T + GG + S + T+ + +++ W +
Sbjct: 123 PPPRSRRSGSRSTSRSRLRLQGGSLSSSRSSRSSTSKGATSGKDSKSADIDVSFWSEFGI 182
Query: 60 DSPGIKVKSPAPASSTSVGS 79
D+PG K KSP ASST G+
Sbjct: 183 DTPGQKSKSPQKASSTPAGN 202
>gnl|CDD|240324 PTZ00234, PTZ00234, variable surface protein Vir12; Provisional.
Length = 433
Score = 28.1 bits (62), Expect = 2.2
Identities = 22/78 (28%), Positives = 32/78 (41%), Gaps = 11/78 (14%)
Query: 15 SPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGA-GSGGMWRYYTDDSPGIKVKSPAPAS 73
+P G PG + T + P +A R GA G+G + S AP+
Sbjct: 248 APSKGSPGAQEPAKTAVVKSPGGIPSAGGKRAGAEGAGA----------NKGLASVAPSQ 297
Query: 74 STSVGSGTRSPKAGGPGG 91
S V +GT++P P G
Sbjct: 298 SREVLNGTQNPVPVAPLG 315
>gnl|CDD|226510 COG4023, SBH1, Preprotein translocase subunit Sec61beta
[Intracellular trafficking and secretion].
Length = 57
Score = 25.9 bits (57), Expect = 2.8
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 108 AARSNRTGAGS---GGMWRYYTDDSP-GIKVGPVPVLVMSLLFIASVFMLHI 155
A+R G S G+ R++ ++ GIK+ P V+ + V HI
Sbjct: 2 ASRRKSEGLQSPAAAGLIRFFEEEEIKGIKIDPRLVVYAGIAVAILVIAAHI 53
>gnl|CDD|181922 PRK09512, rbsC, ribose ABC transporter permease protein; Reviewed.
Length = 320
Score = 27.4 bits (61), Expect = 3.6
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 136 PVPVLVMSLLFIASVFMLH 154
P PV +M+++F+A+ +MLH
Sbjct: 172 PTPVWIMAIVFLAAWYMLH 190
>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 = 27.1 bits (61), Expect = 4.6
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 139 VLVMSLLFIASVFMLHI-WG 157
V V++L FIA +F++ WG
Sbjct: 124 VAVIALSFIAELFLVKPDWG 143
>gnl|CDD|237539 PRK13878, PRK13878, conjugal transfer relaxase TraI; Provisional.
Length = 746
Score = 27.4 bits (61), Expect = 4.9
Identities = 17/80 (21%), Positives = 21/80 (26%), Gaps = 5/80 (6%)
Query: 31 RQRKPTTTTAARSNRTGAGSGGMWRYYTDDSPGIKVKSPAPASSTSVGSGTRSPKAGGPG 90
T RTG G GG P + A+ G G + G
Sbjct: 513 ENTHERTERPEHRGRTGRGRGG-----PGQRPAADQHAAGAAAVARAGDGRPAAGRGDRA 567
Query: 91 GRPTGSTVRQRKPTTTTAAR 110
G + RKP R
Sbjct: 568 GAGVHAAGVHRKPNVGRIGR 587
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 26.7 bits (59), Expect = 7.2
Identities = 15/89 (16%), Positives = 21/89 (23%), Gaps = 15/89 (16%)
Query: 1 PAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDD 60
AP+ + + PKA P VR+ R
Sbjct: 374 AAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPR---------------PVA 418
Query: 61 SPGIKVKSPAPASSTSVGSGTRSPKAGGP 89
P AP + + PK P
Sbjct: 419 PPVPHTPESAPKLTRAAIPVDEKPKYTPP 447
>gnl|CDD|223023 PHA03249, PHA03249, DNA packaging tegument protein UL25;
Provisional.
Length = 653
Score = 26.5 bits (58), Expect = 7.9
Identities = 24/101 (23%), Positives = 33/101 (32%), Gaps = 4/101 (3%)
Query: 5 SSTSVGSGTRSPKAGGP--GGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDDSP 62
S T GS + + GGR + +R TT S + + SP
Sbjct: 66 SETDSGSEAEAERGRRAGMGGRNKATKPSRRNKTTQCRPTSLALATAATMPATPSSGKSP 125
Query: 63 GIKVKSPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKP 103
KV SP S S +GG T + Q +P
Sbjct: 126 --KVSSPPSIPSLSEEDEGAERNSGGDDSSHTDNESTQSQP 164
>gnl|CDD|236779 PRK10864, PRK10864, putative methyltransferase; Provisional.
Length = 346
Score = 26.3 bits (58), Expect = 8.4
Identities = 20/66 (30%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 65 KVKSPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRY 124
KVK S T +P+ G GGRP+G + R AR +R W
Sbjct: 11 KVKVMYVRSDDDSDKRTHNPRTGKGGGRPSG---KSRADGGRRPARDDRNSQSRDRKWE- 66
Query: 125 YTDDSP 130
DSP
Sbjct: 67 ---DSP 69
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
0.309 0.127 0.384
Gapped
Lambda K H
0.267 0.0630 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,167,223
Number of extensions: 721229
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 705
Number of HSP's successfully gapped: 81
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.2 bits)