RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 033365
(121 letters)
>gnl|CDD|235523 PRK05592, rplO, 50S ribosomal protein L15; Reviewed.
Length = 146
Score = 44.7 bits (107), Expect = 7e-07
Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 3 TLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
LK AG I K I GV+++G G ++ + ++A + + AK A+EAAGG V
Sbjct: 95 ALKAAGLIRKNI-KGVKVLGNG--ELTKKLTVKAHKFSKSAKEAIEAAGGKV 143
>gnl|CDD|233260 TIGR01071, rplO_bact, ribosomal protein L15, bacterial/organelle.
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 145
Score = 41.9 bits (99), Expect = 8e-06
Identities = 26/54 (48%), Positives = 40/54 (74%), Gaps = 3/54 (5%)
Query: 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
++TLK+ G I K+I+ V+++G G K+ P+ ++A RV+ AKAA+EAAGGSV
Sbjct: 94 LETLKEKGLITKKIK-FVKVLGNG--KLTKPLTVKAHRVSKSAKAAIEAAGGSV 144
>gnl|CDD|216140 pfam00828, Ribosomal_L18e, Ribosomal protein L18e/L15. This family
includes eukaryotic L18 as well as prokaryotic L15.
Length = 122
Score = 36.1 bits (84), Expect = 8e-04
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
+TL G + D V+++G G P+ ++A + + A+ +E AGG V
Sbjct: 73 ETLVVVGTVT----DDVKVLGNGELTK--PLTVKALKFSKSAREKIEKAGGEV 119
>gnl|CDD|223278 COG0200, RplO, Ribosomal protein L15 [Translation, ribosomal
structure and biogenesis].
Length = 152
Score = 35.7 bits (83), Expect = 0.002
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
+ +LK AG I K ++D V+++G G P+ ++A + + A +EAAGG V
Sbjct: 97 LASLKAAGVIRK-LKDLVKVLGNGKLTKAVPVKVKA-KASKSAIEKIEAAGGKV 148
>gnl|CDD|236421 PRK09231, PRK09231, fumarate reductase flavoprotein subunit;
Validated.
Length = 582
Score = 27.7 bits (62), Expect = 1.8
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 35 EASRVTVRAKAAVEAAGGSVRRVHYN 60
E + V +RA A V A GG+ R YN
Sbjct: 177 EGTLVQIRANAVVMATGGAGRVYRYN 202
>gnl|CDD|235799 PRK06419, rpl15p, 50S ribosomal protein L15P; Reviewed.
Length = 148
Score = 27.1 bits (61), Expect = 1.8
Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 18 VRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVR 55
+++G G K+ P+ ++A + +A +EAAGG V
Sbjct: 108 DKVLGGG--KVTRPLVIKADAFSEKAIEKIEAAGGEVV 143
>gnl|CDD|237027 PRK12266, glpD, glycerol-3-phosphate dehydrogenase; Reviewed.
Length = 508
Score = 27.0 bits (61), Expect = 2.4
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 30 WPIHLE----ASRVTVRAKAAVEAAGGSVRRVHYNKLGLRA 66
W + LE R TVRA+A V AAG V++ + LGL +
Sbjct: 188 WHVTLEDTATGKRYTVRARALVNAAGPWVKQFLDDGLGLPS 228
>gnl|CDD|233302 TIGR01176, fum_red_Fp, fumarate reductase, flavoprotein subunit.
The terms succinate dehydrogenase and fumarate reductase
may be used interchangeably in certain systems. However,
a number of species have distinct complexes, with the
fumarate reductase active under anaerobic conditions.
This model represents the fumarate reductase
flavoprotein subunit from several such species in which
a distinct succinate dehydrogenase is also found. Not
all bona fide fumarate reductases will be found by this
model.
Length = 580
Score = 26.4 bits (58), Expect = 4.6
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 32 IHL-EASRVTVRAKAAVEAAGGSVRRVHYN 60
I + E VT+ A A V A GG+ R +N
Sbjct: 172 IEMAEGRLVTILADAVVLATGGAGRVYPFN 201
>gnl|CDD|237365 PRK13369, PRK13369, glycerol-3-phosphate dehydrogenase;
Provisional.
Length = 502
Score = 26.1 bits (58), Expect = 5.0
Identities = 19/63 (30%), Positives = 23/63 (36%), Gaps = 3/63 (4%)
Query: 6 DAGAIGKQIEDGVRLMGRGAEKIKWPIHLEA---SRVTVRAKAAVEAAGGSVRRVHYNKL 62
DA G I R + E W + TVRA+A V AAG V V +
Sbjct: 164 DAAERGATILTRTRCVSARREGGLWRVETRDADGETRTVRARALVNAAGPWVTDVIHRVA 223
Query: 63 GLR 65
G
Sbjct: 224 GSN 226
>gnl|CDD|238918 cd01943, MAK32, MAK32 kinase. MAK32 is a protein found primarily
in fungi that is necessary for the structural stability
of L-A particles. The L-A virus particule is a
specialized compartment for the transcription and
replication of double-stranded RNA, known to infect
yeast and other fungi. MAK32 is part of the host
machinery used by the virus to multiply.
Length = 328
Score = 25.4 bits (56), Expect = 9.4
Identities = 10/40 (25%), Positives = 19/40 (47%)
Query: 59 YNKLGLRALLKPEWFEKKGRLLPRPARPPPKLQDKVDSIG 98
Y LG R L P ++ + + P ++D+++S G
Sbjct: 31 YAILGARLFLPPPLSRSISWIVDKGSDFPKSVEDELESWG 70
>gnl|CDD|212689 cd11739, HSPH1_NBD, Nucleotide-binding domain of HSPH1. Human
HSPH1 (also known as heat shock 105kDa/110kDa protein 1,
HSP105; HSP105A; HSP105B; NY-CO-25; the human HSPH1 gene
maps to 13q12.3) suppresses the aggregation of denatured
proteins caused by heat shock in vitro, and may
substitute for HSP70 family proteins to suppress the
aggregation of denatured proteins in cells under severe
stress. It reduces the protein aggregation and
cytotoxicity associated with Polyglutamine (PolyQ)
diseases, including Huntington's disease, which are a
group of inherited neurodegenerative disorders sharing
the characteristic feature of having insoluble protein
aggregates in neurons. The expression of HSPH1 is
elevated in various malignant tumors, including
malignant melanoma, and there is a direct correlation
between HSPH1 expression and B-cell non-Hodgkin
lymphomas (B-NHLs) aggressiveness and proliferation.
HSPH1 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, the nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. Hsp70 chaperone
activity is also regulated by J-domain proteins.
Length = 383
Score = 25.3 bits (55), Expect = 9.6
Identities = 11/32 (34%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 26 EKIKWPIH--LEASRVTVRAKAAVEAAGGSVR 55
++I+ P++ LE + + V +AVE GG+ R
Sbjct: 314 QRIEVPLYSLLEQTHLKVEDVSAVEIVGGATR 345
>gnl|CDD|237897 PRK15067, PRK15067, ethanolamine ammonia lyase large subunit;
Provisional.
Length = 461
Score = 25.2 bits (56), Expect = 9.7
Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 15/45 (33%)
Query: 53 SVRRVHYNKLGLRALLKPE---WFEK------KGRLLPRPARPPP 88
+R + LGLR PE W EK GRL R P
Sbjct: 415 YLREL----LGLRPA--PEFEAWLEKMGIADANGRLTKRAGDPSL 453
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 0.135 0.401
Gapped
Lambda K H
0.267 0.0800 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,491,492
Number of extensions: 590445
Number of successful extensions: 661
Number of sequences better than 10.0: 1
Number of HSP's gapped: 661
Number of HSP's successfully gapped: 46
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
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)