RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3204
(264 letters)
>gnl|CDD|238327 cd00584, Prefoldin_alpha, Prefoldin alpha subunit; Prefoldin is a
hexameric molecular chaperone complex, found in both
eukaryotes and archaea, that binds and stabilizes newly
synthesized polypeptides allowing them to fold
correctly. The complex contains two alpha and four beta
subunits, the two subunits being evolutionarily related.
In archaea, there is usually only one gene for each
subunit while in eukaryotes there two or more paralogous
genes encoding each subunit adding heterogeneity to the
structure of the hexamer. The structure of the complex
consists of a double beta barrel assembly with six
protruding coiled-coils.
Length = 129
Score = 85.7 bits (213), Expect = 4e-21
Identities = 30/85 (35%), Positives = 58/85 (68%)
Query: 162 GALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVE 221
L A +++ +KE+L+ + + +G +VPL ++V+ K+ D DKV++D+GTG+YVE
Sbjct: 23 ARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYYVE 82
Query: 222 KSIPDAQDYFKRRVAFVTQQMEKLQ 246
K + +A ++ +++ +T+Q+EKLQ
Sbjct: 83 KDLEEAIEFLDKKIEELTKQIEKLQ 107
>gnl|CDD|202504 pfam02996, Prefoldin, Prefoldin subunit. This family comprises of
several prefoldin subunits. The biogenesis of the
cytoskeletal proteins actin and tubulin involves
interaction of nascent chains of each of the two
proteins with the oligomeric protein prefoldin (PFD) and
their subsequent transfer to the cytosolic chaperonin
CCT (chaperonin containing TCP-1). Electron microscopy
shows that eukaryotic PFD, which has a similar structure
to its archaeal counterpart, interacts with unfolded
actin along the tips of its projecting arms. In its
PFD-bound state, actin seems to acquire a conformation
similar to that adopted when it is bound to CCT.
Length = 120
Score = 80.0 bits (198), Expect = 4e-19
Identities = 29/85 (34%), Positives = 57/85 (67%)
Query: 162 GALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVE 221
L+ A + + + E+L + +G ++VPL ++V+G++ D DKV++D+G G+YVE
Sbjct: 13 ARLREAIEELEKTLETLKTLKKEDEGKEVLVPLGAGLFVKGEVIDTDKVLVDLGAGYYVE 72
Query: 222 KSIPDAQDYFKRRVAFVTQQMEKLQ 246
KS+ +A ++ K+R+ + +Q+EKL+
Sbjct: 73 KSLEEAIEFLKKRIEELEKQLEKLE 97
>gnl|CDD|129394 TIGR00293, TIGR00293, prefoldin, archaeal alpha subunit/eukaryotic
subunit 5. Members of this protein family, rich in
coiled coil regions, are molecular chaperones in the
class of the prefoldin (GimC) alpha subunit. Prefoldin
is a hexamer of two alpha and four beta subunits. This
protein appears universal in the archaea but is
restricted to Aquifex aeolicus among bacteria so far.
Eukaryotes have several related proteins; only prefoldin
subunit 5, which appeared the most similar to archaeal
prefoldin alpha, is included in this model. This model
finds a set of small proteins from the Archaea and from
Aquifex aeolicus that may represent two orthologous
groups. The proteins are predicted to be mostly coiled
coil [Protein fate, Protein folding and stabilization].
Length = 126
Score = 76.9 bits (190), Expect = 7e-18
Identities = 27/85 (31%), Positives = 53/85 (62%), Gaps = 1/85 (1%)
Query: 162 GALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVE 221
AL+ + + + E+L+ + ++G +VP+ +V+ K+ D DKV++ IG+G+YVE
Sbjct: 23 AALRALIAELETAIETLEDLK-GAEGKETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVE 81
Query: 222 KSIPDAQDYFKRRVAFVTQQMEKLQ 246
K +A ++ K+R+ + + +EKLQ
Sbjct: 82 KDAEEAIEFLKKRIEELEKAIEKLQ 106
>gnl|CDD|238453 cd00890, Prefoldin, Prefoldin is a hexameric molecular chaperone
complex, found in both eukaryotes and archaea, that
binds and stabilizes newly synthesized polypeptides
allowing them to fold correctly. The complex contains
two alpha and four beta subunits, the two subunits being
evolutionarily related. In archaea, there is usually
only one gene for each subunit while in eukaryotes there
two or more paralogous genes encoding each subunit
adding heterogeneity to the structure of the hexamer.
The structure of the complex consists of a double beta
barrel assembly with six protruding coiled-coils.
Length = 129
Score = 75.8 bits (187), Expect = 2e-17
Identities = 28/85 (32%), Positives = 58/85 (68%)
Query: 162 GALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVE 221
L+ +++ +KE+L+ + + + ++VPL ++V+ ++ D DKV++D+GTG YVE
Sbjct: 23 QKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVKDDDKVLVDLGTGVYVE 82
Query: 222 KSIPDAQDYFKRRVAFVTQQMEKLQ 246
KS+ +A ++ K+R+ + +Q+EKL+
Sbjct: 83 KSLEEAIEFLKKRLETLEKQIEKLE 107
>gnl|CDD|224644 COG1730, GIM5, Predicted prefoldin, molecular chaperone implicated
in de novo protein folding [Posttranslational
modification, protein turnover, chaperones].
Length = 145
Score = 62.0 bits (151), Expect = 4e-12
Identities = 29/85 (34%), Positives = 55/85 (64%)
Query: 162 GALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVE 221
AL A + Q + E+L+ + + +G ++VP+ ++V+ K+ D DKV++ IG+G+Y E
Sbjct: 30 AALNAAISELQTAIETLENLKGAGEGKEVLVPVGAGLFVKAKVKDMDKVIVSIGSGYYAE 89
Query: 222 KSIPDAQDYFKRRVAFVTQQMEKLQ 246
KS +A ++ K+R+ + + +EKLQ
Sbjct: 90 KSADEAIEFLKKRIEELEKAIEKLQ 114
>gnl|CDD|235179 PRK03947, PRK03947, prefoldin subunit alpha; Reviewed.
Length = 140
Score = 56.5 bits (137), Expect = 4e-10
Identities = 18/64 (28%), Positives = 37/64 (57%)
Query: 171 FQDSKESLDKITPSSQGNPIMVPLTDSMYVEGKIADADKVVIDIGTGFYVEKSIPDAQDY 230
+KE+L+++ +G +VP+ +V+ K+ D DKV++ +G G+ EK + +A +
Sbjct: 39 LDTAKETLEELKSKGEGKETLVPIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEI 98
Query: 231 FKRR 234
+R
Sbjct: 99 LDKR 102
>gnl|CDD|237582 PRK14011, PRK14011, prefoldin subunit alpha; Provisional.
Length = 144
Score = 36.7 bits (85), Expect = 0.003
Identities = 15/46 (32%), Positives = 29/46 (63%)
Query: 190 IMVPLTDSMYVEGKIADADKVVIDIGTGFYVEKSIPDAQDYFKRRV 235
I++PL +++ KI D DK ++ +G+ Y+EK + + + FK+ V
Sbjct: 52 ILIPLGPGAFLKAKIVDPDKAILGVGSDIYLEKDVSEVIEDFKKSV 97
>gnl|CDD|226255 COG3732, SrlE, Phosphotransferase system sorbitol-specific
component IIBC [Carbohydrate transport and metabolism].
Length = 328
Score = 30.8 bits (70), Expect = 0.69
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 15/94 (15%)
Query: 141 KRELPSAVPLCGGTLRRQPNNGALKRAQVKFQDSKESLDKITPSSQGNPIMVPLTDSMYV 200
+ E+ V CGGTLR G + ++ + I P+ + P+ + + +YV
Sbjct: 61 EEEIGCVVIDCGGTLR----CGVYPKKRIPTIN-------ILPTGKSGPLAQFIVEDIYV 109
Query: 201 EG-KIAD---ADKVVIDIGTGFYVEKSIPDAQDY 230
G K + D G K P A+DY
Sbjct: 110 SGVKPENITLVDGAEAVTGEPTPQPKKAPRAKDY 143
>gnl|CDD|225377 COG2821, MltA, Membrane-bound lytic murein transglycosylase [Cell
envelope biogenesis, outer membrane].
Length = 373
Score = 29.2 bits (66), Expect = 2.1
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 192 VPLTDSMYVEGKIADADKVVIDIGTGFYVEKSIPDAQDYFKRRVAFVTQQ 241
VPLT E +A D+ +I G VE PDA F+ + V
Sbjct: 281 VPLTP----ERSVA-VDRSIIPPGAPLLVEAPTPDANGKFRPVLRLVVAL 325
>gnl|CDD|225747 COG3206, GumC, Uncharacterized protein involved in
exopolysaccharide biosynthesis [Cell envelope
biogenesis, outer membrane].
Length = 458
Score = 29.3 bits (66), Expect = 2.2
Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 15/62 (24%)
Query: 19 LAFPQLTQLKNQLDSVSFQALALSAMSVNQSGGEGMQQIDLTKLAFPQLTQLKNQLDSVS 78
L P + L+ Q V Q LS PQL L+ QL +
Sbjct: 282 LESPTIQDLRQQYAQVRQQIADLSTE---------------LGAKHPQLVALEAQLAELR 326
Query: 79 FQ 80
Q
Sbjct: 327 QQ 328
>gnl|CDD|171497 PRK12436, PRK12436, UDP-N-acetylenolpyruvoylglucosamine reductase;
Provisional.
Length = 305
Score = 28.8 bits (64), Expect = 3.0
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 93 LRELFHPTTDFSYLKLLESSNNFILKQ----FKEGEHCTSAGSEFHNCTAFTKRELPSAV 148
LR L +F Y K + ++N++I+ + +EG + ++ + T + + P
Sbjct: 163 LRTLTKEAFEFGYRKSVFANNHYIILEARFELEEGVY-EEIKAKMDDLTFKRESKQPLEY 221
Query: 149 PLCGGTLRRQPNNGALKRAQ 168
P CG +R PNN A K Q
Sbjct: 222 PSCGSVFKRPPNNFAGKLIQ 241
>gnl|CDD|235759 PRK06264, cbiC, precorrin-8X methylmutase; Validated.
Length = 210
Score = 28.1 bits (63), Expect = 3.4
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 98 HPTTDFSYLKLLESSNNFI---LKQFKEGE 124
H T D Y KL+ SN+ I L K+ +
Sbjct: 47 HATADPEYAKLVVFSNDPIEEGLDAIKDKK 76
>gnl|CDD|234557 TIGR04346, DotA_TraY, conjugal transfer/type IV secretion protein
DotA/TraY. Members of this protein family include
transfer protein TraY of IncI1 plasmid R64 and DotA
(defect in organelle trafficking A) of Legionella
pneumophila.
Length = 652
Score = 28.5 bits (64), Expect = 4.5
Identities = 16/59 (27%), Positives = 20/59 (33%)
Query: 19 LAFPQLTQLKNQLDSVSFQALALSAMSVNQSGGEGMQQIDLTKLAFPQLTQLKNQLDSV 77
L F T SVSF A SVN +G DL + Q L + +
Sbjct: 191 LKFGNATGSVGICGSVSFSFSGDDAQSVNGAGLAPFTTGDLDSVCQAQQQALVTAISDL 249
>gnl|CDD|226879 COG4473, EcsB, Predicted ABC-type exoprotein transport system,
permease component [Intracellular trafficking and
secretion].
Length = 379
Score = 28.1 bits (63), Expect = 5.1
Identities = 10/37 (27%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 230 YFKRRVAFVTQQMEKLQFI----FLLYILIFCSLIIF 262
+ KR A+ +Q + L+++ F+L++LI I+
Sbjct: 7 FKKRLQAYYKEQNKYLRYVFNDHFVLFLLILLGFGIY 43
>gnl|CDD|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and
biogenesis].
Length = 230
Score = 26.9 bits (60), Expect = 9.9
Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 6/71 (8%)
Query: 152 GGTLRRQPNNGALKRAQVKFQDSKESL-DKITPSSQGNPIMVPLTDSMYVEGKIADADKV 210
GGT ++ A + D+ L D + S G V + D Y E A+AD
Sbjct: 127 GGTR-----TASITGASLALADAGIPLRDLVAAISVGIVDGVIVLDLDYEEDSAAEADMN 181
Query: 211 VIDIGTGFYVE 221
V+ G G VE
Sbjct: 182 VVMTGNGGLVE 192
>gnl|CDD|219836 pfam08429, PLU-1, PLU-1-like protein. Sequences in this family
bear similarity to the central region of PLU-1. This is
a nuclear protein that may have a role in DNA-binding
and transcription, and is closely associated with the
malignant phenotype of breast cancer. This region is
found in various other Jumonji/ARID domain-containing
proteins (see pfam02373, pfam01388).
Length = 335
Score = 27.3 bits (61), Expect = 10.0
Identities = 16/76 (21%), Positives = 35/76 (46%), Gaps = 15/76 (19%)
Query: 11 MQQIDLTKLAFPQLTQLKNQLDSV-SFQALALSAMSVNQSGG----------EGMQQIDL 59
+++ D P++ QL+ L+++ F+ A SA+S + EG + +
Sbjct: 92 LKEADSLPFDCPEIDQLRELLEAIEEFRERAQSALSTPEDSLSIQELEELLEEG-ESFGV 150
Query: 60 TKLAFPQLTQLKNQLD 75
P+L +L+ +L+
Sbjct: 151 E---LPELDELRKRLE 163
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 0.134 0.385
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,019,085
Number of extensions: 1200859
Number of successful extensions: 1204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1203
Number of HSP's successfully gapped: 22
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
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: 58 (26.1 bits)