RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9193
(128 letters)
>gnl|CDD|216881 pfam02115, Rho_GDI, RHO protein GDP dissociation inhibitor.
Length = 200
Score = 107 bits (269), Expect = 2e-30
Identities = 39/64 (60%), Positives = 43/64 (67%)
Query: 62 AVDKMVHMVGSYPPSLELQSYTTPPEDAPSGMLARGVYSVQSLFTDDDDAEHLKWEWTFE 121
VDK +MVGSY P E Y TP E+APSG LARG YS +S FTDDD +HL WEW E
Sbjct: 137 RVDKTKYMVGSYGPRAEEYEYLTPEEEAPSGALARGSYSAKSKFTDDDKTDHLSWEWNLE 196
Query: 122 IKKS 125
IKK
Sbjct: 197 IKKD 200
Score = 83.5 bits (207), Expect = 4e-21
Identities = 30/51 (58%), Positives = 34/51 (66%)
Query: 1 MVHMVGSYPPSLELQSYTTPPEDAPSGMLARGVYSVQSLFTDDDDAEHLKW 51
+MVGSY P E Y TP E+APSG LARG YS +S FTDDD +HL W
Sbjct: 141 TKYMVGSYGPRAEEYEYLTPEEEAPSGALARGSYSAKSKFTDDDKTDHLSW 191
>gnl|CDD|204266 pfam09537, DUF2383, Domain of unknown function (DUF2383).
Members of this protein family are found mostly in the
Proteobacteria, although one member is found in the the
marine planctomycete Pirellula sp. strain 1. The
function is unknown.
Length = 87
Score = 27.9 bits (63), Expect = 0.64
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 6/39 (15%)
Query: 13 ELQSYTT----PPEDAPS--GMLARGVYSVQSLFTDDDD 45
ELQ+ PED S G L R ++S T DDD
Sbjct: 49 ELQAEIRALGGEPEDGGSLAGTLHRAWMDLKSALTGDDD 87
Score = 27.9 bits (63), Expect = 0.64
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 6/39 (15%)
Query: 78 ELQSYTT----PPEDAPS--GMLARGVYSVQSLFTDDDD 110
ELQ+ PED S G L R ++S T DDD
Sbjct: 49 ELQAEIRALGGEPEDGGSLAGTLHRAWMDLKSALTGDDD 87
>gnl|CDD|183588 PRK12552, PRK12552, ATP-dependent Clp protease-like protein;
Reviewed.
Length = 222
Score = 28.2 bits (63), Expect = 0.98
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 16 SYTTPPEDAPSGMLA-RGVYSVQSLFTDDD 44
TPP D PS +L R VY LF+DDD
Sbjct: 15 VMRTPPPDLPSLLLKERIVYLGLPLFSDDD 44
Score = 28.2 bits (63), Expect = 0.98
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 81 SYTTPPEDAPSGMLA-RGVYSVQSLFTDDD 109
TPP D PS +L R VY LF+DDD
Sbjct: 15 VMRTPPPDLPSLLLKERIVYLGLPLFSDDD 44
>gnl|CDD|223441 COG0364, Zwf, Glucose-6-phosphate 1-dehydrogenase [Carbohydrate
transport and metabolism].
Length = 483
Score = 27.6 bits (62), Expect = 1.8
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 102 QSLFTDDDDAEHLKWEWTFEIKKSWKD 128
Q+LF D+ E W+ I ++WK+
Sbjct: 428 QTLFVRRDEVEAA-WKIVDPILEAWKN 453
>gnl|CDD|239901 cd04454, S1_Rrp4_like, S1_Rrp4_like: Rrp4-like, S1-like
RNA-binding domain. S1-like RNA-binding domains are
found in a wide variety of RNA-associated proteins.
Rrp4 protein, and Rrp40 and Csl4 proteins, also
represented in this group, are subunits of the exosome
complex. The exosome plays a central role in 3' to 5'
RNA processing and degradation in eukarytes and
archaea. Its functions include the removal of
incorrectly processed RNA and the maintenance of proper
levels of mRNA, rRNA and a number of small RNA species.
In Saccharomyces cerevisiae, the exosome includes nine
core components, six of which are homologous to
bacterial RNase PH. These form a hexameric ring
structure. The other three subunits (RrP4, Rrp40, and
Csl4) contain an S1 RNA binding domain and are part of
the "S1 pore structure".
Length = 82
Score = 26.4 bits (58), Expect = 2.5
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 2 VHMVGSYPPSLELQSYTTPPEDAPSGMLARG--VYS-VQSLFTD 42
V ++ LE S T + L G + + V SL D
Sbjct: 24 VDILSRGTARLEDSSATEKDKKEIRKSLQPGDLILAKVISLGDD 67
Score = 26.4 bits (58), Expect = 2.5
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 67 VHMVGSYPPSLELQSYTTPPEDAPSGMLARG--VYS-VQSLFTD 107
V ++ LE S T + L G + + V SL D
Sbjct: 24 VDILSRGTARLEDSSATEKDKKEIRKSLQPGDLILAKVISLGDD 67
>gnl|CDD|180895 PRK07228, PRK07228, N-ethylammeline chlorohydrolase; Provisional.
Length = 445
Score = 26.9 bits (60), Expect = 3.5
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 22 EDAPSGMLARG-----VYSVQSLFTDD-DDAEHLKWVTLILLPLRFAVD 64
DA ++ G ++ Q+LF DD E L W+ + PL A D
Sbjct: 47 IDATGKVVIPGLIQGHIHLCQTLFRGIADDLELLDWLKDRIWPLEAAHD 95
>gnl|CDD|238178 cd00288, Pyruvate_Kinase, Pyruvate kinase (PK): Large allosteric
enzyme that regulates glycolysis through binding of the
substrate, phosphoenolpyruvate, and one or more
allosteric effectors. Like other allosteric enzymes, PK
has a high substrate affinity R state and a low affinity
T state. PK exists as several different isozymes,
depending on organism and tissue type. In mammals,
there are four PK isozymes: R, found in red blood cells,
L, found in liver, M1, found in skeletal muscle, and M2,
found in kidney, adipose tissue, and lung. PK forms a
homotetramer, with each subunit containing three
domains. The T state to R state transition of PK is
more complex than in most allosteric enzymes, involving
a concerted rotation of all 3 domains of each monomer in
the homotetramer.
Length = 480
Score = 26.9 bits (60), Expect = 3.5
Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 4/61 (6%)
Query: 68 HMVGSYPPSLELQSYTTPPEDAPSGMLARGVYSV----QSLFTDDDDAEHLKWEWTFEIK 123
+V Y P+ + + T + A L RGVY V +D LK +
Sbjct: 390 RLVSKYRPNAPIIAVTRNEQTARQLHLYRGVYPVLFEEPKPGWQEDTDARLKAAVNVAKE 449
Query: 124 K 124
K
Sbjct: 450 K 450
Score = 26.5 bits (59), Expect = 5.2
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 4/53 (7%)
Query: 3 HMVGSYPPSLELQSYTTPPEDAPSGMLARGVYSV----QSLFTDDDDAEHLKW 51
+V Y P+ + + T + A L RGVY V +D LK
Sbjct: 390 RLVSKYRPNAPIIAVTRNEQTARQLHLYRGVYPVLFEEPKPGWQEDTDARLKA 442
>gnl|CDD|182336 PRK10253, PRK10253, iron-enterobactin transporter ATP-binding
protein; Provisional.
Length = 265
Score = 26.9 bits (59), Expect = 3.6
Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 18/71 (25%)
Query: 45 DAEHLKWVTLILLPLRFAVDKMVHMVGSYPPSLELQSYTTPPEDAPSGMLARGVYSVQSL 104
D EH++ +A ++ +G L Q+ TTP + ++ARG Y Q L
Sbjct: 67 DGEHIQ---------HYASKEVARRIG-----LLAQNATTPGDITVQELVARGRYPHQPL 112
Query: 105 FT----DDDDA 111
FT +D++A
Sbjct: 113 FTRWRKEDEEA 123
Score = 26.1 bits (57), Expect = 5.5
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 15 QSYTTPPEDAPSGMLARGVYSVQSLFT----DDDDA 46
Q+ TTP + ++ARG Y Q LFT +D++A
Sbjct: 88 QNATTPGDITVQELVARGRYPHQPLFTRWRKEDEEA 123
>gnl|CDD|146808 pfam04361, DUF494, Protein of unknown function (DUF494). Members
of this family of uncharacterized proteins are often
named Smg.
Length = 155
Score = 25.2 bits (56), Expect = 8.2
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 36 VQSLFTDDDDAEHLKWVTLILL 57
+L ++ + LKWV L++L
Sbjct: 108 AMALDGEEISLDDLKWVVLMVL 129
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
0.316 0.133 0.413
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,850,147
Number of extensions: 595050
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 22
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)