RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8772
(234 letters)
>gnl|CDD|218742 pfam05773, RWD, RWD domain. This domain was identified in WD40
repeat proteins and Ring finger domain proteins. The
function of this domain is unknown. GCN2 is the
alpha-subunit of the only translation initiation factor
(eIF2 alpha) kinase that appears in all eukaryotes. Its
function requires an interaction with GCN1 via the
domain at its N-terminus, which is termed the RWD domain
after three major RWD-containing proteins: RING
finger-containing proteins, WD-repeat-containing
proteins, and yeast DEAD (DEXD)-like helicases. The
structure forms an alpha + beta sandwich fold consisting
of two layers: a four-stranded antiparallel beta-sheet,
and three side-by-side alpha-helices.
Length = 113
Score = 94.7 bits (236), Expect = 5e-25
Identities = 38/113 (33%), Positives = 57/113 (50%), Gaps = 4/113 (3%)
Query: 2 DYQEEQSNEIEALDSIYYGDME--ILEKDPHVFTIPIQSECVDDEHQMN--CLLRFQYTP 57
+ +E Q E+EAL+SIY + E + E P FTI ++ + E +L F
Sbjct: 1 ESKELQEEELEALESIYPDEFEDEVKESSPPTFTIKLKLLTSEAESSPLVSLVLTFTLPE 60
Query: 58 KYPEEIPIIEIENCDNIDEDVERELKEYLLTQANENLGMVMIFTLVSSAQEWL 110
YP+E P I + + + + + +L + L A ENLG VMIF L+ QE L
Sbjct: 61 DYPDEPPKISLSSPWLLRDQDKLQLLKELEELAEENLGEVMIFELIEWLQENL 113
>gnl|CDD|214735 smart00591, RWD, domain in RING finger and WD repeat containing
proteins and DEXDc-like helicases subfamily related to
the UBCc domain.
Length = 107
Score = 78.2 bits (193), Expect = 8e-19
Identities = 40/106 (37%), Positives = 59/106 (55%), Gaps = 3/106 (2%)
Query: 10 EIEALDSIYYGDMEILEKDPHV--FTIPIQSECVDDEHQMNCL-LRFQYTPKYPEEIPII 66
E+EAL+SIY D E++++D + TI + + E Q L L+ + YP+E P I
Sbjct: 1 ELEALESIYPEDFEVIDEDARIPEITIKLSPSSDEGEDQYVSLTLQVKLPENYPDEAPPI 60
Query: 67 EIENCDNIDEDVERELKEYLLTQANENLGMVMIFTLVSSAQEWLST 112
+ N + + ++ EL + L A ENLG VMIF LV QE+LS
Sbjct: 61 SLLNSEGLSDEQLAELLKKLEEIAEENLGEVMIFELVEKLQEFLSE 106
>gnl|CDD|221493 pfam12256, TcdB_toxin_midN, Insecticide toxin TcdB
middle/N-terminal region. This domain family is found
in bacteria and archaea, and is typically between 164
and 180 amino acids in length. The family is found in
association with pfam05593. This family is the
N-terminal-sided middle region of the bacterial
insecticide toxin TcdB. This region appears related to
the FG-GAP repeat pfam01839.
Length = 171
Score = 33.6 bits (77), Expect = 0.040
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 83 KEYLLTQANENLGMVMIFTLVSSAQEWLSTKS 114
K YLL N+G SSAQ WL K+
Sbjct: 60 KPYLLKSITNNMGATTTLEYRSSAQFWLDDKA 91
>gnl|CDD|219565 pfam07773, DUF1619, Protein of unknown function (DUF1619). This is
a family of sequences derived from hypothetical
eukaryotic proteins. The region in question is
approximately 330 residues long and has a cysteine rich
amino-terminus.
Length = 292
Score = 32.5 bits (74), Expect = 0.14
Identities = 16/82 (19%), Positives = 23/82 (28%), Gaps = 10/82 (12%)
Query: 5 EEQSNEIEALDSIYYGDMEILEK----DPHVFTIPIQSECVDDEHQMNCLLRFQYTPKYP 60
Q E AL Y + +L V I +Q D + C P
Sbjct: 160 LSQCQECTALSLAQYSSLRLLSDPNDESGGVVFITVQLCLADSLDGLLCAES------TP 213
Query: 61 EEIPIIEIENCDNIDEDVEREL 82
+ CDN+ V+
Sbjct: 214 SLLSAGNGTQCDNVVVRVKYTF 235
>gnl|CDD|129022 smart00786, SHR3_chaperone, ER membrane protein SH3. This family
of proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). Shr3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of Shr3, AAPs are retained in the ER.
Length = 196
Score = 28.5 bits (64), Expect = 2.7
Identities = 17/62 (27%), Positives = 32/62 (51%)
Query: 77 DVERELKEYLLTQANENLGMVMIFTLVSSAQEWLSTKSDQLKKDKEEAEEKRIKAEEAAE 136
+V+R +L +N L V++ LV A W + + D +K++ AEE++ AA+
Sbjct: 123 EVDRNQGLAVLAASNTILLFVLVGVLVLQAGLWYAERKDAKQKEEFAAEERKEALAAAAK 182
Query: 137 QK 138
+
Sbjct: 183 KS 184
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 28.7 bits (65), Expect = 3.3
Identities = 29/105 (27%), Positives = 42/105 (40%), Gaps = 29/105 (27%)
Query: 52 RFQYTPKYPEEIPIIEIENCD-NID----EDVE----RELK----------------EYL 86
QY+P EEI +I + N ID ED E R+L+ E +
Sbjct: 192 SLQYSPS-DEEIRLI-VRNIPVEIDGEPTEDEEVSGHRDLERVETNRIRGGMLLVLAEGI 249
Query: 87 LTQANENLGMVMIFTLVSSAQEWLSTKSDQLKKDKEEAEEKRIKA 131
+A + L V + EWL K+ +EE E+K+IK
Sbjct: 250 ALKAPKILKYVDKLKIDG--WEWLEELISGKKEKEEEEEKKKIKP 292
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 27.8 bits (62), Expect = 3.6
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 110 LSTKSDQLKKDKEEAEEKRIKAEEAAEQKRFE 141
++ K D+L K K+ A++ ++AE+ + R E
Sbjct: 114 VNAKKDKLSKAKKAAKKAALEAEKKVNEARAE 145
>gnl|CDD|237954 PRK15386, PRK15386, type III secretion protein GogB; Provisional.
Length = 426
Score = 27.5 bits (61), Expect = 6.5
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 54 QYTPKYPEEIPIIEIENCDNI 74
+ P P E+ I IENC+N+
Sbjct: 65 ESLPVLPNELTEITIENCNNL 85
>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3. This family of
proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). SH3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of SH3, AAPs are retained in the ER.
Length = 196
Score = 26.9 bits (60), Expect = 6.9
Identities = 16/68 (23%), Positives = 27/68 (39%)
Query: 77 DVERELKEYLLTQANENLGMVMIFTLVSSAQEWLSTKSDQLKKDKEEAEEKRIKAEEAAE 136
+V+R +L +N L +V++ LV A W + D ++ AEE A E
Sbjct: 123 EVDRNTGLNVLAASNVILLLVLVGVLVLQAGLWYAEWKDAKLLEEFAAEEAEAAAAAKEE 182
Query: 137 QKRFEGTV 144
+
Sbjct: 183 ESAEGEKK 190
>gnl|CDD|183450 PRK12335, PRK12335, tellurite resistance protein TehB; Provisional.
Length = 287
Score = 27.2 bits (61), Expect = 7.5
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 17/70 (24%)
Query: 165 IFEEKNKAKEKTAGKLTGREMFMQDKSMNESDLKFIEESGDGGLDATESVEVNETLFQDM 224
+F+EK+ KE T KLT + + +LKF E + DG E++E +F
Sbjct: 22 MFQEKHNTKEGTWAKLT----------VLKGELKFYELTEDGE-------ELSEHIFDAE 64
Query: 225 NDLDSFTPAV 234
N P
Sbjct: 65 NQPPFIEPQA 74
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 27.3 bits (60), Expect = 7.7
Identities = 20/80 (25%), Positives = 31/80 (38%)
Query: 112 TKSDQLKKDKEEAEEKRIKAEEAAEQKRFEGTVVTLETFIAWKAKFDKDMAHIIFEEKNK 171
T+ ++ K + A + KA A+QKR VT E A KAK +
Sbjct: 86 TEEEKAKAKAKAAAAAKAKAAALAKQKREGTEEVTEEEKAAAKAKAAAAAKAKAAALAKQ 145
Query: 172 AKEKTAGKLTGREMFMQDKS 191
+E T E ++K+
Sbjct: 146 KREGTEEVTEEEEETDKEKA 165
>gnl|CDD|223560 COG0484, DnaJ, DnaJ-class molecular chaperone with C-terminal Zn
finger domain [Posttranslational modification, protein
turnover, chaperones].
Length = 371
Score = 27.2 bits (61), Expect = 7.7
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 5/26 (19%)
Query: 119 KDKEEAEEKRIKAEEAAE-----QKR 139
+EAEEK + EA E +KR
Sbjct: 38 PGDKEAEEKFKEINEAYEVLSDPEKR 63
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
0.312 0.130 0.359
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,930,737
Number of extensions: 1125110
Number of successful extensions: 1574
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1502
Number of HSP's successfully gapped: 115
Length of query: 234
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 140
Effective length of database: 6,768,326
Effective search space: 947565640
Effective search space used: 947565640
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 (21.8 bits)
S2: 57 (25.8 bits)