RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8498
(90 letters)
>gnl|CDD|197478 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4
or more copies in proteins. Contain a minimum of 34
amino acids each and self-associate via a "knobs and
holes" mechanism.
Length = 34
Score = 38.2 bits (90), Expect = 1e-05
Identities = 14/29 (48%), Positives = 21/29 (72%)
Query: 46 LNNLGHVNRKLKKYEEALEFHKQALVVAP 74
L NLG+ KL Y+EALE++++AL + P
Sbjct: 4 LYNLGNAYLKLGDYDEALEYYEKALELDP 32
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 38.9 bits (91), Expect = 2e-05
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 16 YTVAENCFMEALSKVKQLGGE--IIADKWEPLLNNLGHVNRKLKKYEEALEFHKQAL 70
Y A +AL ++LG + A LNNL + L Y+EALE+ ++AL
Sbjct: 21 YDEALELLEKALELARELGEDHPETAR----ALNNLARLYLALGDYDEALEYLEKAL 73
Score = 33.9 bits (78), Expect = 0.002
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQAL 70
LNNL V R+L Y+EALE ++AL
Sbjct: 7 ALNNLALVLRRLGDYDEALELLEKAL 32
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 37.4 bits (88), Expect = 2e-05
Identities = 15/29 (51%), Positives = 22/29 (75%)
Query: 46 LNNLGHVNRKLKKYEEALEFHKQALVVAP 74
L NLG+ KL KY+EALE++++AL + P
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNP 32
>gnl|CDD|205553 pfam13374, TPR_10, Tetratricopeptide repeat.
Length = 42
Score = 34.1 bits (79), Expect = 6e-04
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 46 LNNLGHVNRKLKKYEEALEFHKQAL 70
LNNL R +YEEA E ++AL
Sbjct: 5 LNNLARALRAQGRYEEAEELLEEAL 29
>gnl|CDD|191825 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 31.7 bits (73), Expect = 0.003
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQALVVAP 74
L NLG KL YEEALE +++AL + P
Sbjct: 3 ALYNLGLAYYKLGDYEEALEAYEKALELDP 32
>gnl|CDD|221958 pfam13176, TPR_7, Tetratricopeptide repeat.
Length = 36
Score = 31.4 bits (72), Expect = 0.005
Identities = 13/29 (44%), Positives = 21/29 (72%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQALVVA 73
L+NLG + RKL YE+A+ +++AL +A
Sbjct: 1 ALSNLGRLYRKLGDYEKAISLYERALALA 29
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-
[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence;
found in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate
to multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for
peroxisomal targeting signals, the Tom70p co-receptor
for mitochondrial targeting signals, Ser/Thr
phosphatase 5C and the p110 subunit of O-GlcNAc
transferase; three copies of the repeat are present
here.
Length = 100
Score = 32.4 bits (74), Expect = 0.009
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 9/56 (16%)
Query: 19 AENCFMEALSKVKQLGGEIIADKWEPLLNNLGHVNRKLKKYEEALEFHKQALVVAP 74
A + +AL + NL KL KYEEALE +++AL + P
Sbjct: 19 ALEYYEKALE---------LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP 65
Score = 29.3 bits (66), Expect = 0.12
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 16 YTVAENCFMEALSKVKQLGGEIIADKWEPLLNNLGHVNRKLKKYEEALEFHKQAL 70
Y A + +AL + NLG KL KYEEALE +++AL
Sbjct: 50 YEEALEDYEKALE---------LDPDNAKAYYNLGLAYYKLGKYEEALEAYEKAL 95
Score = 28.1 bits (63), Expect = 0.33
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQALVVAPMKASTFCCI 83
L NLG++ KL Y+EALE++++AL + P A + +
Sbjct: 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNL 40
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 30.0 bits (68), Expect = 0.036
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 10/60 (16%)
Query: 16 YTVAENCFMEALSKVKQLGGEIIADKWEPLLNNLGHVNRKL-KKYEEALEFHKQALVVAP 74
Y A + +AL + NL KL K YEEALE ++AL + P
Sbjct: 19 YDEAIEAYEKALE---------LDPDNAEAYYNLALAYLKLGKDYEEALEDLEKALELDP 69
Score = 29.6 bits (67), Expect = 0.061
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQALVVAP 74
L NLG+ KL Y+EA+E +++AL + P
Sbjct: 5 ALKNLGNALFKLGDYDEAIEAYEKALELDP 34
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 26.7 bits (60), Expect = 0.39
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 45 LLNNLGHVNRKLKKYEEALEFHKQAL 70
LG + +L YEEA E++++AL
Sbjct: 3 AYYLLGQIYLQLGDYEEAKEYYEKAL 28
>gnl|CDD|235563 PRK05689, fliJ, flagellar biosynthesis chaperone; Validated.
Length = 147
Score = 27.2 bits (61), Expect = 1.0
Identities = 5/24 (20%), Positives = 13/24 (54%)
Query: 47 NNLGHVNRKLKKYEEALEFHKQAL 70
+ + + L++ E+A+ +Q L
Sbjct: 64 SWWINYQQFLQQLEKAITQQRQQL 87
>gnl|CDD|235252 PRK04199, rpl10e, 50S ribosomal protein L10e; Reviewed.
Length = 172
Score = 27.1 bits (61), Expect = 1.1
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 60 EEALEFHKQALVVAPMKASTFCCIVVKEG 88
E LE K+AL A MK T C IVV++G
Sbjct: 139 PEHLEAAKEALRRAAMKLPTPCRIVVEKG 167
>gnl|CDD|182623 PRK10657, PRK10657, isoaspartyl dipeptidase; Provisional.
Length = 388
Score = 27.1 bits (61), Expect = 1.1
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 51 HVNRKLKKYEEALEFHKQ 68
HVNR +E+ALEF K+
Sbjct: 225 HVNRNEPLFEQALEFAKK 242
>gnl|CDD|178331 PLN02730, PLN02730, enoyl-[acyl-carrier-protein] reductase.
Length = 303
Score = 25.9 bits (57), Expect = 3.6
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 5 NVELSSDKSFSYTVAE-NCFMEALSK-VKQLGGEIIADKWEPLLN 47
++L ++F VA+ N + A++K + G EI+ W P LN
Sbjct: 4 PIDLRGKRAFIAGVADDNGYGWAIAKALAAAGAEILVGTWVPALN 48
>gnl|CDD|182780 PRK10853, PRK10853, putative reductase; Provisional.
Length = 118
Score = 25.0 bits (55), Expect = 4.5
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 42 WEPLLNNLGHVNRKL 56
WE LLN G RKL
Sbjct: 51 WEALLNTRGTTWRKL 65
>gnl|CDD|132257 TIGR03213, 23dbph12diox, 2,3-dihydroxybiphenyl 1,2-dioxygenase.
Members of this protein family all have activity as
2,3-dihydroxybiphenyl 1,2-dioxygenase, the third enzyme
of a pathway for biphenyl degradation. Many of the
extradiol ring-cleaving dioxygenases, to which these
proteins belong, act on a range of related substrates.
Note that some members of this family may be found
operons for toluene or naphthalene degradation, where
other activities of the same enzyme may be more
significant; the trusted cutoff for this model is set
relatively high to exclude most such instances [Energy
metabolism, Other].
Length = 286
Score = 25.4 bits (56), Expect = 4.9
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 49 LGHVNRKLKKYEEALEFHKQAL 70
LGH+ ++ + AL F+ + L
Sbjct: 143 LGHIVLRVPDVDAALAFYTEVL 164
>gnl|CDD|163495 TIGR03783, Bac_Flav_CT_G, Bacteroides conjugation system ATPase,
TraG family. Members of this family include the
predicted ATPase, TraG, encoded by transfer region genes
of conjugative transposons of Bacteroides, such as
CTnDOT, found on the main chromosome. Members also
include TraG homologs borne on plasmids in Bacteroides.
The protein family is related to the conjugative
transfer system ATPase VirB4 [Cellular processes, DNA
transformation].
Length = 829
Score = 25.2 bits (55), Expect = 6.0
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 7 ELSSDKSFSYTVAENCFMEALSKVKQLGGEI 37
E+S+++ +YT E ME L+ ++LGG +
Sbjct: 788 EVSAEEYLTYTTEETEKMEVLALAEELGGNL 818
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 24.8 bits (52), Expect = 9.2
Identities = 18/50 (36%), Positives = 26/50 (52%)
Query: 25 EALSKVKQLGGEIIADKWEPLLNNLGHVNRKLKKYEEALEFHKQALVVAP 74
EAL +++ + L NLG + L KYEEALE ++AL + P
Sbjct: 77 EALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDP 126
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 24.7 bits (54), Expect = 9.7
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 46 LNNLGHVNRKLKKYEEALEFHKQALVVAP 74
L G + L E AL +++A+ + P
Sbjct: 196 LLLKGDLLLSLGNIELALAAYRKAIALRP 224
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
0.318 0.133 0.384
Gapped
Lambda K H
0.267 0.0867 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,338,295
Number of extensions: 350077
Number of successful extensions: 371
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 32
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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 (21.7 bits)
S2: 53 (23.9 bits)