RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12837
(184 letters)
>gnl|CDD|197305 cd07026, Ribosomal_L20, Ribosomal protein L20. The ribosomal
protein family L20 contains members from eubacteria, as
well as their mitochondrial and plastid homologs. L20 is
an assembly protein, required for the first in-vitro
reconstitution step of the 50S ribosomal subunit, but
does not seem to be essential for ribosome activity. L20
has been shown to partially unfold in the absence of
RNA, in regions corresponding to the RNA-binding sites.
L20 represses the translation of its own mRNA via
specific binding to two distinct mRNA sites, in a manner
similar to the L20 interaction with 23S ribosomal RNA. .
Length = 106
Score = 73.3 bits (181), Expect = 2e-17
Identities = 24/49 (48%), Positives = 33/49 (67%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFK 86
+LW RI A A EHG+ Y F GL ++NI+L+RK L+ LA +P+ FK
Sbjct: 54 RLWITRINAAAREHGLSYSRFIHGLKKANILLNRKVLAQLAILDPKAFK 102
>gnl|CDD|201238 pfam00453, Ribosomal_L20, Ribosomal protein L20.
Length = 108
Score = 69.8 bits (172), Expect = 4e-16
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFK 86
+LW RI A A EHG+ Y F GL ++NI L+RK L+ LA +P FK
Sbjct: 58 RLWITRINAAAREHGLSYSRFINGLKKANIELNRKVLAQLAINDPEAFK 106
>gnl|CDD|185406 PTZ00030, PTZ00030, 60S ribosomal protein L20; Provisional.
Length = 121
Score = 65.1 bits (159), Expect = 5e-14
Identities = 22/50 (44%), Positives = 27/50 (54%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFKV 87
W I A EH + Y F GL SNI L+RK L++LA EP +FK
Sbjct: 50 VHWIQTINAATREHNMTYSRFINGLNNSNIQLNRKILANLAITEPFSFKA 99
>gnl|CDD|223369 COG0292, RplT, Ribosomal protein L20 [Translation, ribosomal
structure and biogenesis].
Length = 118
Score = 59.5 bits (145), Expect = 6e-12
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFK 86
KLW ARI A A E+G+ Y F GL ++ I +DRK L+DLA +P F
Sbjct: 59 KLWIARINAAARENGLSYSRFINGLKKAGIEIDRKVLADLAINDPAAFA 107
>gnl|CDD|179959 PRK05185, rplT, 50S ribosomal protein L20; Provisional.
Length = 114
Score = 58.9 bits (144), Expect = 8e-12
Identities = 23/49 (46%), Positives = 31/49 (63%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFK 86
KLW ARI A A ++G+ Y F GL ++ I +DRK L+DLA +P F
Sbjct: 58 KLWIARINAAARQNGLSYSRFINGLKKAGIEIDRKVLADLAVNDPAAFA 106
>gnl|CDD|130104 TIGR01032, rplT_bact, ribosomal protein L20. This model describes
bacterial ribosomal protein L20 and its chloroplast
equvalent. This protein binds directly to 23s ribosomal
RNA and is necessary for the in vitro assembly process
of the 50s ribosomal subunit. It is not involved in the
protein synthesizing functions of that subunit. GO
process changed accordingly (SS 5/09/03) [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 113
Score = 55.1 bits (133), Expect = 2e-10
Identities = 23/50 (46%), Positives = 31/50 (62%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFKV 87
LW RI A A +HG+ Y F GL ++NI ++RK LS+LA +P FK
Sbjct: 58 SLWITRINAAARQHGLSYSRFINGLKKANIEINRKVLSELAINDPEAFKE 107
>gnl|CDD|237748 PRK14537, PRK14537, 50S ribosomal protein L20/unknown domain fusion
protein; Provisional.
Length = 230
Score = 48.1 bits (114), Expect = 4e-07
Identities = 21/48 (43%), Positives = 28/48 (58%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTF 85
KLW +RI AGA G+ Y GL + + ++RK LSDLA +P F
Sbjct: 59 KLWISRINAGAMLCGIKYSRLMHGLALAKVDINRKVLSDLAHLQPEVF 106
>gnl|CDD|214352 CHL00068, rpl20, ribosomal protein L20.
Length = 115
Score = 43.7 bits (104), Expect = 4e-06
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 38 KLWTARITAGAEEHGVPYPLFREGLTRSNIMLDRKTLSDLAAWEPRTFK 86
+LW RI A E+GV Y F L ++ I+L+RK L+ +A +P F
Sbjct: 59 RLWITRINAAIRENGVSYSKFIHNLYKNQILLNRKILAQIAILDPNCFY 107
>gnl|CDD|206007 pfam13836, DUF4195, Domain of unknown function (DUF4195). This
family is found at the N-terminus of metazoan proteins
that carry PHD-like zinc-finger domains. The function is
not known.
Length = 184
Score = 27.7 bits (61), Expect = 2.7
Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 2/59 (3%)
Query: 57 LFREGLTRSNIMLDRKTLSDLAAWEPRTFKVKKSTVGTTMCRIYQFYTKPSYHSCESQV 115
L R G+ ++ +L + S + + P+ K +S G PS S SQV
Sbjct: 117 LSRAGMDETSFLLKHPSTSKVNSVNPKKPKTSESVSGINPSSSLSSQKSPSVTS--SQV 173
>gnl|CDD|237531 PRK13850, PRK13850, type IV secretion system protein VirD4;
Provisional.
Length = 670
Score = 26.8 bits (59), Expect = 9.0
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 124 KVKFHPLTGTQTCAPLFTRQTLSLTQIAAAKVIDDEVVGSRHLEQP 169
KV+++ + +F QT SL + A+ + DD +HL QP
Sbjct: 527 KVRYY---SDRELKRIFEAQTGSLPEPASLMLPDDTNARRKHLPQP 569
>gnl|CDD|237304 PRK13206, ureC, urease subunit alpha; Reviewed.
Length = 573
Score = 26.6 bits (59), Expect = 9.4
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 74 LSDLAAWEPRTFKVKKSTV 92
L+DL WEP F V+ V
Sbjct: 435 LADLVLWEPAFFGVRPHAV 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
0.322 0.134 0.422
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,233,970
Number of extensions: 792305
Number of successful extensions: 564
Number of sequences better than 10.0: 1
Number of HSP's gapped: 564
Number of HSP's successfully gapped: 17
Length of query: 184
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 93
Effective length of database: 6,901,388
Effective search space: 641829084
Effective search space used: 641829084
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 (22.0 bits)
S2: 56 (25.4 bits)