RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18096
(131 letters)
>gnl|CDD|215821 pfam00254, FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase.
Length = 94
Score = 43.8 bits (104), Expect = 8e-07
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 1 MDYVLPLMETGEECQIEITARFGYGDKGEPSKSIPPGAKLYYSLTLH 47
D L M+ GE+ ++ I YG++G IPP A L + + L
Sbjct: 48 WDEGLLGMKVGEKRKLTIPPELAYGEEGLAGGVIPPNATLVFEVELL 94
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 34.2 bits (79), Expect = 0.002
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 82 ERINCYNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAKCLI 129
+ NL A KLG + A+ + E L LDP+N +A A +
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYL 48
Score = 27.7 bits (62), Expect = 0.59
Identities = 18/39 (46%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 78 SLIKERINCYNNLAQAQIKLGS-LEPALMSLENVLNLDP 115
L + Y NLA A +KLG E AL LE L LDP
Sbjct: 31 ELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKALELDP 69
>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 = 33.9 bits (78), Expect = 0.004
Identities = 19/43 (44%), Positives = 20/43 (46%)
Query: 86 CYNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAKCL 128
Y NLA A KLG E AL E L LDP+N KA
Sbjct: 36 AYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAY 78
Score = 30.0 bits (68), Expect = 0.13
Identities = 15/47 (31%), Positives = 17/47 (36%)
Query: 85 NCYNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAKCLILT 131
NL KLG + AL E L LDP+N A A
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKL 47
Score = 28.1 bits (63), Expect = 0.56
Identities = 16/33 (48%), Positives = 17/33 (51%)
Query: 84 INCYNNLAQAQIKLGSLEPALMSLENVLNLDPN 116
Y NL A KLG E AL + E L LDPN
Sbjct: 68 AKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
>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 = 31.3 bits (72), Expect = 0.012
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 86 CYNNLAQAQIKLGSLEPALMSLENVLNLDPNN 117
NL A +KLG + AL E L LDPNN
Sbjct: 3 ALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 30.8 bits (71), Expect = 0.019
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 87 YNNLAQAQIKLGSLEPALMSLENVLNLDPNN 117
NL A +KLG + AL E L L+PNN
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
>gnl|CDD|130300 TIGR01233, lacG, 6-phospho-beta-galactosidase. This enzyme is part
of the tagatose-6-phosphate pathway of
galactose-6-phosphate degradation [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 467
Score = 31.2 bits (70), Expect = 0.11
Identities = 12/78 (15%), Positives = 22/78 (28%), Gaps = 4/78 (5%)
Query: 35 PPGAKLYYSL----TLHSVLPDFDLAELPVEKRLDFGGILASQELLDSLIKERINCYNNL 90
G + Y+ L V P L + L G ++E ++ I C+
Sbjct: 89 EKGVEFYHKLFAECHKRHVEPFVTLHHFDTPEALHSNGDFLNRENIEHFIDYAAFCFEEF 148
Query: 91 AQAQIKLGSLEPALMSLE 108
+ E +
Sbjct: 149 PEVNYWTTFNEIGPIGDG 166
>gnl|CDD|223619 COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1
[Posttranslational modification, protein turnover,
chaperones].
Length = 205
Score = 30.8 bits (70), Expect = 0.14
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 5 LPLMETGEECQIEITARFGYGDKGEPSKSIPPGAKLYYSLTLHSVL 50
L M+ G + ++ I YG++G P IPP + L + + L V
Sbjct: 161 LQGMKVGGKRKLTIPPELAYGERGVPG-VIPPNSTLVFEVELLDVK 205
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 28.2 bits (64), Expect = 0.21
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 87 YNNLAQAQIKLGSLEPALMSLENVLNLDPNN 117
Y L Q ++LG E A E L LDPNN
Sbjct: 4 YYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 29.8 bits (67), Expect = 0.35
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 87 YNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKA 125
Y + AQA IKLG+ A+ + LDP+ KA RK
Sbjct: 39 YADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKG 77
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 27.5 bits (61), Expect = 0.40
Identities = 16/38 (42%), Positives = 23/38 (60%)
Query: 90 LAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAKC 127
LA+A + LG L+ AL L L LDP++ +AL A+
Sbjct: 7 LARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 29.0 bits (65), Expect = 0.79
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 103 ALMSLENVLNLDPNNIKALQR----KAKC 127
AL+ L+N N+ N AL R +AKC
Sbjct: 233 ALICLKNAPNIPAKNFHALTRLDENRAKC 261
>gnl|CDD|233223 TIGR00990, 3a0801s09, mitochondrial precursor proteins import
receptor (72 kDa mitochondrial outermembrane protein)
(mitochondrial import receptor for the ADP/ATP carrier)
(translocase of outermembrane tom70). [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 615
Score = 28.8 bits (64), Expect = 0.93
Identities = 15/39 (38%), Positives = 19/39 (48%)
Query: 87 YNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKA 125
Y+N A LG E + L LDP+ KAL R+A
Sbjct: 163 YSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRA 201
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 26.9 bits (60), Expect = 1.2
Identities = 15/47 (31%), Positives = 18/47 (38%)
Query: 70 LASQELLDSLIKERINCYNNLAQAQIKLGSLEPALMSLENVLNLDPN 116
L L E NNLA+ + LG + AL LE L L
Sbjct: 32 LELARELGEDHPETARALNNLARLYLALGDYDEALEYLEKALALREA 78
>gnl|CDD|183207 PRK11570, PRK11570, peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 206
Score = 27.5 bits (61), Expect = 1.9
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 5 LPLMETGEECQIEITARFGYGDKGEPSKSIPPGAKLYYSLTLHSVL 50
L LM G + ++ I YG++G SIPP + L + + L +L
Sbjct: 162 LTLMPVGSKWELTIPHELAYGERG-AGASIPPFSTLVFEVELLEIL 206
>gnl|CDD|119117 pfam10597, U5_2-snRNA_bdg, U5-snRNA binding site 2 of PrP8. The
essential spliceosomal protein Prp8 interacts with U5
and U6 snRNAs and with specific pre-mRNA sequences that
participate in catalysis. This close association with
crucial RNA sequences, together with extensive genetic
evidence, suggests that Prp8 could directly affect the
function of the catalytic core, perhaps acting as a
splicing cofactor.
Length = 136
Score = 26.9 bits (60), Expect = 2.4
Identities = 11/30 (36%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 69 ILASQELLDSLIKERINCYNNLAQAQIKLG 98
I++++ELLD L+K N Q ++K+G
Sbjct: 71 IVSTEELLDILVK-----CENKIQNRVKMG 95
>gnl|CDD|222624 pfam14249, Tocopherol_cycl, Tocopherol cyclase. This family
contains tocopherol cyclases. These enzymes are involved
in the synthesis of tocopherols and tocotrienols
(vitamin E).
Length = 331
Score = 27.2 bits (61), Expect = 2.5
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 10 TGEECQIE--ITARFGYGDKGEPSKS 33
TGE C+ E I +G+GD G P +S
Sbjct: 114 TGETCRWEYSIRPVYGWGDVGRPQQS 139
>gnl|CDD|193441 pfam12968, DUF3856, Domain of Unknown Function (DUF3856). TPR-like
protein. The 2hr2 structure belongs to the SCOP all
alpha class, TPR-like superfamily, CT2138-like family. A
DALI search gives hits with the putative peptidyl-prolyl
isomerase 2fbn (Z=16), the SGTA protein (Z=16), the PLCR
protein 2qfc (Z=16), a putative FK506-binding protein
(PDB:1qz2-A; DALI Z-score 15.3; RMSD 2.9; 16% sequence
identity within 132 superimposed residues), and with the
tetratricopeptide repeats of the protein phosphatase 5
(PDB:2bug; DALI Z-score 15.1; RMSD 2.5; 19% sequence
identity within 117 superimposed residues).
Length = 142
Score = 26.6 bits (59), Expect = 2.9
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 86 CYNNLAQAQIKLGSLEPALMSLENVL 111
C+ L+ A LG + AL S + L
Sbjct: 57 CHAGLSGALAGLGRYDEALHSADRAL 82
>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 = 27.4 bits (61), Expect = 2.9
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 90 LAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAK 126
L +AQ+ G L A+ S + +L L P++ AL A
Sbjct: 607 LGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLAD 643
Score = 27.0 bits (60), Expect = 4.1
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 89 NLAQAQIKLGSLEPALMSLENVLNLDPNNIKALQRKAK 126
NLA+ I+ G+ + A+ E VL +DP N++A+ A
Sbjct: 504 NLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAG 541
Score = 25.8 bits (57), Expect = 9.2
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 70 LASQELLDSLIKERINCYNNLAQAQIKL--GSLEPALMSLENVLNLDPNNIKALQRKA 125
LA + +L + + Y L AQ+ L + A ++ VL DP N+ AL K
Sbjct: 143 LAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKG 200
>gnl|CDD|237664 PRK14294, PRK14294, chaperone protein DnaJ; Provisional.
Length = 366
Score = 26.7 bits (59), Expect = 4.2
Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 22 FGYGDKGEPSKSIPPGAKLYYSLTLHSVLPDFDLAELPVEKRLD 65
FG G +G ++ GA L Y LTL F A EK +
Sbjct: 102 FGGGRRGRSRTAVRAGADLRYDLTL-----PFLEAAFGTEKEIR 140
>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 = 24.0 bits (53), Expect = 6.0
Identities = 16/31 (51%), Positives = 17/31 (54%)
Query: 87 YNNLAQAQIKLGSLEPALMSLENVLNLDPNN 117
NL A KLG E AL + E L LDPNN
Sbjct: 4 LYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
>gnl|CDD|235315 PRK04841, PRK04841, transcriptional regulator MalT; Provisional.
Length = 903
Score = 26.1 bits (58), Expect = 7.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 89 NLAQAQIKLGSLEPALMSLE 108
N+A+AQI LG + A + LE
Sbjct: 696 NIARAQILLGQFDEAEIILE 715
>gnl|CDD|215573 PLN03098, LPA1, LOW PSII ACCUMULATION1; Provisional.
Length = 453
Score = 26.0 bits (57), Expect = 7.4
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 89 NLAQAQIKLGSLEPALMSLENVLNLDPNNIK---ALQRKAKC 127
NL + G ++ AL E L L+PN + A KA C
Sbjct: 80 NLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACC 121
>gnl|CDD|225461 COG2909, MalT, ATP-dependent transcriptional regulator
[Transcription].
Length = 894
Score = 26.2 bits (58), Expect = 7.4
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 54 DLAELPVEKRLDF--GGILASQELLDSLIKERINCYNNLAQAQIKLGSLEPALMSLENVL 111
L E RL G + Q LL L + LA+ + G L+ AL L+ +
Sbjct: 592 RLDLAEAEARLGIEVGSVYTPQPLLSRLA------LSMLAELEFLRGDLDKALAQLDELE 645
Query: 112 NL 113
L
Sbjct: 646 RL 647
>gnl|CDD|214397 CHL00207, rpoB, RNA polymerase beta subunit; Provisional.
Length = 1077
Score = 26.2 bits (58), Expect = 7.7
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 5/48 (10%)
Query: 76 LDSLIKERINCYNNLAQAQIKLG-----SLEPALMSLENVLNLDPNNI 118
+D L R+ L Q Q ++G + M++ ++ +L N+
Sbjct: 300 IDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICDIDSLSKFNL 347
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 23.6 bits (52), Expect = 8.9
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 89 NLAQAQIKLGSLEPALMSLENVLNLDPNN 117
LA A +KLG + A +LE +L P++
Sbjct: 5 KLALAYLKLGDTDEAKEALERLLKRYPDS 33
>gnl|CDD|205553 pfam13374, TPR_10, Tetratricopeptide repeat.
Length = 42
Score = 23.7 bits (52), Expect = 9.0
Identities = 11/28 (39%), Positives = 12/28 (42%)
Query: 84 INCYNNLAQAQIKLGSLEPALMSLENVL 111
NNLA+A G E A LE L
Sbjct: 2 AASLNNLARALRAQGRYEEAEELLEEAL 29
>gnl|CDD|190975 pfam04410, Gar1, Gar1/Naf1 RNA binding region. Gar1 is a small
nucleolar RNP that is required for pre-mRNA processing
and pseudouridylation. It is co-immunoprecipitated with
the H/ACA families of snoRNAs. This family represents
the conserved central region of Gar1. This region is
necessary and sufficient for normal cell growth, and
specifically binds two snoRNAs snR10 and snR30. This
region is also necessary for nucleolar targeting, and it
is thought that the protein is co-transported to the
nucleolus as part of a nucleoprotein complex. In humans,
Gar1 is also component of telomerase in vivo. Naf1 is an
essentail protein that plays a role in ribosome
biogenesis, modification of spliceosomal small nuclear
RNAs and telomere synthesis, and is homologous to Gar1.
Length = 154
Score = 25.3 bits (56), Expect = 9.0
Identities = 14/52 (26%), Positives = 19/52 (36%), Gaps = 15/52 (28%)
Query: 31 SKSIPPGAKLYYSLT-LHSVLPD-------------FDLAELPVEKRLDFGG 68
+KS+ G K+YY L D ELP E+R +F
Sbjct: 89 AKSLKVGDKVYYVPDPAQRFLTQPLKQQKGTDASNGHD-EELPEEERGEFSD 139
>gnl|CDD|233534 TIGR01693, UTase_glnD, [Protein-PII] uridylyltransferase. This
model describes GlnD, the
uridylyltransferase/uridylyl-removing enzyme for the
nitrogen regulatory protein PII. Not all homologs of PII
share the property of uridylyltransferase modification
on the characteristic Tyr residue (see Prosite pattern
PS00496 and document PDOC00439), but the modification
site is preserved in the PII homolog of all species with
a member of this family [Central intermediary
metabolism, Nitrogen metabolism, Regulatory functions,
Protein interactions].
Length = 850
Score = 25.8 bits (57), Expect = 9.4
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 15 QIEITARFGYGDKGEP 30
Q EI A GYGD+G P
Sbjct: 250 QDEIAAALGYGDEGNP 265
>gnl|CDD|185290 PRK15392, PRK15392, putative fumarate hydratase; Provisional.
Length = 550
Score = 25.7 bits (56), Expect = 9.7
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 30 PSKSIPPGAKLYYS-----LTLHSVLPDF--DLAELPVEKRLDFGG-ILASQELLDSLIK 81
P + IP + L L+ L D DLA LPV R+ G I+ ++++ + IK
Sbjct: 341 PGQYIPASLREENHAQHVQLDLNRPLRDVMQDLARLPVGTRVSLSGPIVVARDIAHAKIK 400
Query: 82 ERIN 85
R++
Sbjct: 401 ARLD 404
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 25.5 bits (56), Expect = 9.9
Identities = 11/41 (26%), Positives = 15/41 (36%)
Query: 80 IKERINCYNNLAQAQIKLGSLEPALMSLENVLNLDPNNIKA 120
E LA ++ G A +LE L DP+ A
Sbjct: 31 RNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLA 71
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
0.317 0.138 0.392
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: 6,714,347
Number of extensions: 599675
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 518
Number of HSP's successfully gapped: 49
Length of query: 131
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 45
Effective length of database: 7,123,158
Effective search space: 320542110
Effective search space used: 320542110
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 (23.9 bits)