RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11623
(74 letters)
>gnl|CDD|238907 cd01926, cyclophilin_ABH_like, cyclophilin_ABH_like: Cyclophilin
A, B and H-like cyclophilin-type peptidylprolyl cis-
trans isomerase (PPIase) domain. This family represents
the archetypal cystolic cyclophilin similar to human
cyclophilins A, B and H. PPIase is an enzyme which
accelerates protein folding by catalyzing the cis-trans
isomerization of the peptide bonds preceding proline
residues. These enzymes have been implicated in protein
folding processes which depend on catalytic
/chaperone-like activities. As cyclophilins, Human
hCyP-A, human cyclophilin-B (hCyP-19), S. cerevisiae
Cpr1 and C. elegans Cyp-3, are inhibited by the
immunosuppressive drug cyclopsporin A (CsA). CsA binds
to the PPIase active site. Cyp-3. S. cerevisiae Cpr1
interacts with the Rpd3 - Sin3 complex and in addition
is a component of the Set3 complex. S. cerevisiae Cpr1
has also been shown to have a role in Zpr1p nuclear
transport. Human cyclophilin H associates with the
[U4/U6.U5] tri-snRNP particles of the splicesome.
Length = 164
Score = 113 bits (285), Expect = 4e-34
Identities = 38/60 (63%), Positives = 46/60 (76%)
Query: 10 KEIGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDFVN 69
+ GR++ ELFADVVPKT+ENFR CTGE + P G+KG++FHRVI DFMIQGGDF
Sbjct: 12 EPAGRIVMELFADVVPKTAENFRALCTGEKGKGGKPFGYKGSTFHRVIPDFMIQGGDFTR 71
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 108 bits (272), Expect = 5e-32
Identities = 41/57 (71%), Positives = 48/57 (84%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDFVN 69
GR+ ELFAD+ PKT+ENFRQFCTGEFR+ +P G+KG FHRVIKDFMIQGGDF+
Sbjct: 33 GRIKMELFADIAPKTAENFRQFCTGEFRKAGLPQGYKGCQFHRVIKDFMIQGGDFLK 89
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 79.9 bits (197), Expect = 1e-20
Identities = 30/58 (51%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGE-FRRDAVPIGFKGASFHRVIKDFMIQGGDFVN 69
GR++FELF+DV PKT+ENFR C G+ + +KG+ FHR+I FM QGGD N
Sbjct: 30 GRIVFELFSDVTPKTAENFRALCIGDKVGSSGKNLHYKGSIFHRIIPQFMCQGGDITN 87
>gnl|CDD|238194 cd00317, cyclophilin, cyclophilin: cyclophilin-type
peptidylprolyl cis- trans isomerases. This family
contains eukaryotic, bacterial and archeal proteins
which exhibit a peptidylprolyl cis- trans isomerases
activity (PPIase, Rotamase) and in addition bind the
immunosuppressive drug cyclosporin (CsA).
Immunosuppression in vertebrates is believed to be the
result of the cyclophilin A-cyclosporin protein drug
complex binding to and inhibiting the
protein-phosphatase calcineurin. PPIase is an enzyme
which accelerates protein folding by catalyzing the
cis-trans isomerization of the peptide bonds preceding
proline residues. Cyclophilins are a diverse family in
terms of function and have been implicated in protein
folding processes which depend on catalytic
/chaperone-like activities. This group contains human
cyclophilin 40, a co-chaperone of the hsp90 chaperone
system; human cyclophilin A, a chaperone in the HIV-1
infectious process and; human cyclophilin H, a
component of the U4/U6 snRNP, whose isomerization or
chaperoning activities may play a role in RNA splicing.
.
Length = 146
Score = 76.5 bits (189), Expect = 8e-20
Identities = 26/58 (44%), Positives = 31/58 (53%), Gaps = 8/58 (13%)
Query: 12 IGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDFVN 69
GR++ EL+ D PKT ENF G F + G +FHRVI FMIQGGD
Sbjct: 6 KGRIVIELYGDEAPKTVENFLSLARGGF--------YDGTTFHRVIPGFMIQGGDPTG 55
>gnl|CDD|215759 pfam00160, Pro_isomerase, Cyclophilin type peptidyl-prolyl
cis-trans isomerase/CLD. The peptidyl-prolyl cis-trans
isomerases, also known as cyclophilins, share this
domain of about 109 amino acids. Cyclophilins have been
found in all organisms studied so far and catalyze
peptidyl-prolyl isomerisation during which the peptide
bond preceding proline (the peptidyl-prolyl bond) is
stabilised in the cis conformation. Mammalian
cyclophilin A (CypA) is a major cellular target for the
immunosuppressive drug cyclosporin A (CsA). Other roles
for cyclophilins may include chaperone and cell
signalling function.
Length = 144
Score = 72.7 bits (179), Expect = 2e-18
Identities = 28/61 (45%), Positives = 32/61 (52%), Gaps = 8/61 (13%)
Query: 9 TKEIGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDFV 68
T +GR++ ELF D PKT ENF C F + G FHRVI FMIQGGD
Sbjct: 5 TTNLGRIVIELFGDEAPKTVENFLSLCKKGF--------YDGTIFHRVIPGFMIQGGDPT 56
Query: 69 N 69
Sbjct: 57 G 57
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 70.7 bits (174), Expect = 2e-17
Identities = 24/59 (40%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 9 TKEIGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDF 67
G + EL+ D PKT NF Q F + G FHRVI FMIQGGD
Sbjct: 5 ETNKGDITIELYPDKAPKTVANFLQLVKEGF--------YDGTIFHRVIPGFMIQGGDP 55
>gnl|CDD|238909 cd01928, Cyclophilin_PPIL3_like, Cyclophilin_PPIL3_like. Proteins
similar to Human cyclophilin-like peptidylprolyl cis-
trans isomerase (PPIL3). Members of this family lack a
key residue important for cyclosporin binding: the
tryptophan residue corresponding to W121 in human
hCyP-18a; most members have a histidine at this
position. The exact function of the protein is not
known.
Length = 153
Score = 52.1 bits (125), Expect = 3e-10
Identities = 22/54 (40%), Positives = 26/54 (48%), Gaps = 8/54 (14%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
G + ELF D PK ENF C + + G FHR IK FM+Q GD
Sbjct: 10 GDIKIELFCDDCPKACENFLALCASGY--------YNGCIFHRNIKGFMVQTGD 55
>gnl|CDD|238901 cd01920, cyclophilin_EcCYP_like, cyclophilin_EcCYP_like:
cyclophilin-type A-like peptidylprolyl cis- trans
isomerase (PPIase) domain similar to the cytosolic E.
coli cyclophilin A and Streptomyces antibioticus
SanCyp18. Compared to the archetypal cyclophilin Human
cyclophilin A, these have reduced affinity for
cyclosporin A. E. coli cyclophilin A has a similar
peptidylprolyl cis- trans isomerase activity to the
human cyclophilin A. Most members of this subfamily
contain a phenylalanine residue at the position
equivalent to Human cyclophilin W121, where a
tyrptophan has been shown to be important for
cyclophilin binding.
Length = 155
Score = 49.7 bits (119), Expect = 2e-09
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDF 67
G ++ EL+ D P T ENF + F + + FHRVI F+IQGG F
Sbjct: 7 GDIVVELYDDKAPITVENFLAYVRKGFYDNTI--------FHRVISGFVIQGGGF 53
>gnl|CDD|238904 cd01923, cyclophilin_RING, cyclophilin_RING: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a modified RING finger domain. This group
includes the nuclear proteins, Human hCyP-60 and
Caenorhabditis elegans MOG-6 which, compared to the
archetypal cyclophilin Human cyclophilin A exhibit
reduced peptidylprolyl cis- trans isomerase activity
and lack a residue important for cyclophilin binding.
Human hCyP-60 has been shown to physically interact
with the proteinase inhibitor peptide eglin c and; C.
elegans MOG-6 to physically interact with MEP-1, a
nuclear zinc finger protein. MOG-6 has been shown to
function in germline sex determination.
Length = 159
Score = 49.7 bits (119), Expect = 3e-09
Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 8/54 (14%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
G + EL D PK ENF + C + + FHR I++FMIQGGD
Sbjct: 9 GDLNLELHCDKAPKACENFIKLCKKGYYDGTI--------FHRSIRNFMIQGGD 54
>gnl|CDD|238903 cd01922, cyclophilin_SpCYP2_like, cyclophilin_SpCYP2_like:
cyclophilin 2-like peptidylprolyl cis- trans isomerase
(PPIase) domain similar to Schizosaccharomyces pombe
cyp-2. These proteins bind their respective SNW
chromatin binding protein in autologous systems, in a
CsA independent manner indicating interaction with a
surface outside the PPIase active site. SNW proteins
play a basic and broad range role in signaling.
Length = 146
Score = 49.5 bits (118), Expect = 3e-09
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 8/55 (14%)
Query: 12 IGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
+G + EL+ + PKT +NF + + + G FHR+IKDFMIQGGD
Sbjct: 6 MGEITLELYWNHAPKTCKNFYELAKRGY--------YNGTIFHRLIKDFMIQGGD 52
>gnl|CDD|238908 cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a WD40 domain. This group consists of several
hypothetical and putative eukaryotic and bacterial
proteins which have a cyclophilin domain and a WD40
domain. Function of the protein is not known.
Length = 148
Score = 47.5 bits (113), Expect = 2e-08
Identities = 21/54 (38%), Positives = 25/54 (46%), Gaps = 8/54 (14%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
G + LF + PKT ENF + + FHRVIK FMIQ GD
Sbjct: 7 GDIHIRLFPEEAPKTVENFTTHARNGY--------YNNTIFHRVIKGFMIQTGD 52
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B
(rotamase B); Provisional.
Length = 164
Score = 46.4 bits (110), Expect = 5e-08
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDF 67
G ++ + F D P+T +NF +C F + + FHRVI FMIQGG F
Sbjct: 9 GDIVIKTFDDKAPETVKNFLDYCREGFYNNTI--------FHRVINGFMIQGGGF 55
>gnl|CDD|238906 cd01925, cyclophilin_CeCYP16-like, cyclophilin_CeCYP16-like:
cyclophilin-type peptidylprolyl cis- trans isomerase)
(PPIase) domain similar to Caenorhabditis elegans
cyclophilin 16. C. elegans CeCYP-16, compared to the
archetypal cyclophilin Human cyclophilin A has, a
reduced peptidylprolyl cis- trans isomerase activity,
is cyclosporin insensitive and shows an altered
substrate preference favoring, hydrophobic, acidic or
amide amino acids. Most members of this subfamily have
a glutamate residue in the active site at the position
equivalent to a tryptophan (W121 in Human cyclophilin
A), which has been shown to be important for
cyclophilin binding.
Length = 171
Score = 45.8 bits (109), Expect = 9e-08
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 18 ELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
EL++ PK NF Q C + + FHRV+ F+IQGGD
Sbjct: 20 ELWSKEAPKACRNFIQLCLEGY--------YDNTIFHRVVPGFIIQGGD 60
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 45.2 bits (107), Expect = 2e-07
Identities = 21/47 (44%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRD---AVPIGFKGASFHRV 56
GR++FELF DVVP+T ENFR TG D V + + H V
Sbjct: 67 GRLVFELFEDVVPETVENFRALITGSCGIDTNTGVKLDYLYTPVHHV 113
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A
(rotamase A); Provisional.
Length = 190
Score = 37.1 bits (86), Expect = 1e-04
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 9 TKEIGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGDF 67
T G + EL + P + +NF + F + +FHRVI FMIQGG F
Sbjct: 34 TTSAGNIELELNSQKAPVSVKNFVDYVNSGF--------YNNTTFHRVIPGFMIQGGGF 84
>gnl|CDD|238902 cd01921, cyclophilin_RRM, cyclophilin_RRM: cyclophilin-type
peptidylprolyl cis- trans isomerase domain occuring
with a C-terminal RNA recognition motif domain (RRM).
This subfamily of the cyclophilin domain family
contains a number of eukaryotic cyclophilins having the
RRM domain including the nuclear proteins: human
hCyP-57, Arabidopsis thaliana AtCYP59, Caenorhabditis
elegans CeCyP-44 and Paramecium tetrurelia Kin241. The
Kin241 protein has been shown to have a role in cell
morphogenesis.
Length = 166
Score = 36.9 bits (86), Expect = 2e-04
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 12 IGRMIFELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFHRVIKDFMIQGGD 66
+G ++ +LF D P NF + C ++ + F+ V KDF+ Q GD
Sbjct: 6 LGDLVIDLFTDECPLACLNFLKLCKLKY--------YNFCLFYNVQKDFIAQTGD 52
>gnl|CDD|238905 cd01924, cyclophilin_TLP40_like, cyclophilin_TLP40_like:
cyclophilin-type peptidylprolyl cis- trans isomerases
(cyclophilins) similar ot the Spinach thylakoid lumen
protein TLP40. Compared to the archetypal cyclophilin
Human cyclophilin A, these proteins have similar
peptidylprolyl cis- trans isomerase activity and
reduced affinity for cyclosporin A. Spinach TLP40 has
been shown to have a dual function as a folding
catalyst and regulator of dephosphorylation.
Length = 176
Score = 27.8 bits (62), Expect = 0.43
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 50 GASFHRVIKDFMIQGGD 66
G FHRV F++Q GD
Sbjct: 36 GMEFHRVEGGFVVQTGD 52
>gnl|CDD|170660 PRK10721, PRK10721, hypothetical protein; Provisional.
Length = 66
Score = 25.6 bits (56), Expect = 1.0
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 7 TPTKEIGRMIFELFADVVPKT 27
T ++EIG +++ + D+ PKT
Sbjct: 6 TDSREIGEALYDAYPDLDPKT 26
>gnl|CDD|218956 pfam06248, Zw10, Centromere/kinetochore Zw10. Zw10 and rough deal
proteins are both required for correct metaphase
check-pointing during mitosis. These proteins bind to
the centromere/kinetochore.
Length = 593
Score = 26.6 bits (59), Expect = 1.3
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 14 RMIFELFADVVPK 26
R IF+L+ DVVP
Sbjct: 486 RNIFQLYYDVVPT 498
>gnl|CDD|233891 TIGR02487, NrdD, anaerobic ribonucleoside-triphosphate reductase.
This model represents the oxygen-sensitive (anaerobic,
class III) ribonucleotide reductase. The mechanism of
the enzyme involves a glycine-centered radical , a
C-terminal zinc binding site , and a set of conserved
active site cysteines and asparagines. This enzyme
requires an activating component, NrdG, a radical-SAM
domain containing enzyme (TIGR02491). Together the two
form an alpha-2/beta-2 heterodimer [Purines,
pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 579
Score = 26.1 bits (58), Expect = 1.5
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 1 MSFPTGTPTKEIGRMIFELFADV 23
S GT T + GRMI + DV
Sbjct: 178 ESIGYGTETSKEGRMIAKALLDV 200
>gnl|CDD|182639 PRK10675, PRK10675, UDP-galactose-4-epimerase; Provisional.
Length = 338
Score = 25.9 bits (57), Expect = 1.7
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 2 SFPTGTPTKEIGR---MIFELFADV 23
SFPTGTP G+ M+ ++ D+
Sbjct: 139 SFPTGTPQSPYGKSKLMVEQILTDL 163
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 25.3 bits (55), Expect = 3.8
Identities = 7/30 (23%), Positives = 11/30 (36%)
Query: 15 MIFELFADVVPKTSENFRQFCTGEFRRDAV 44
M L D+ E + F + +AV
Sbjct: 1787 MACLLKKDLAVFVEEVRKIFGSSHLDVEAV 1816
>gnl|CDD|233620 TIGR01890, N-Ac-Glu-synth, amino-acid N-acetyltransferase. This
model represents a clade of amino-acid
N-acetyltransferases acting mainly on glutamate in the
first step of the "acetylated" ornithine biosynthesis
pathway. For this reason it is also called
N-acetylglutamate synthase. The enzyme may also act on
aspartate [Amino acid biosynthesis, Glutamate family].
Length = 429
Score = 24.8 bits (54), Expect = 4.5
Identities = 8/32 (25%), Positives = 10/32 (31%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEFRRDAV 44
G + EL V +E T AV
Sbjct: 211 GTLAAELSPQEVESLAERLGSETTRRLLSAAV 242
>gnl|CDD|178760 PLN03221, PLN03221, rapid alkalinization factor 23; Provisional.
Length = 137
Score = 24.6 bits (53), Expect = 4.8
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 17 FELFADVVPKTSENFRQFCTGEFRRDAVPIGFKGASFH 54
FE+ +++ + R G RR+ +P +GAS++
Sbjct: 77 FEMDSEINRRILATRRYISYGALRRNTIPCSRRGASYY 114
>gnl|CDD|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase
(polynucleotide phosphorylase) [Translation, ribosomal
structure and biogenesis].
Length = 692
Score = 24.8 bits (55), Expect = 5.3
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 30 NFRQFCTGEFRRDAVP 45
NF F GE R P
Sbjct: 379 NFPPFSVGETGRMGSP 394
>gnl|CDD|224967 COG2056, COG2056, Predicted permease [General function prediction
only].
Length = 444
Score = 24.6 bits (54), Expect = 5.6
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 45 PIGFKGASFHRVIKDFMIQGGDFVNVSMLP 74
P+GF G F +I D + G ++V+ +P
Sbjct: 163 PVGF-GLIFQSIILDNINAAGVSLSVNQVP 191
>gnl|CDD|182407 PRK10359, PRK10359, lipopolysaccharide core biosynthesis protein;
Provisional.
Length = 232
Score = 23.9 bits (52), Expect = 8.5
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 13 GRMIFELFADVVPKTSENFRQFCTGEF 39
G+ I ++FA V +T + F G++
Sbjct: 55 GKYILKVFAPKVKRTERFLKSFVKGDY 81
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
0.328 0.144 0.440
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,886,806
Number of extensions: 299466
Number of successful extensions: 325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 313
Number of HSP's successfully gapped: 28
Length of query: 74
Length of database: 10,937,602
Length adjustment: 44
Effective length of query: 30
Effective length of database: 8,986,026
Effective search space: 269580780
Effective search space used: 269580780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.3 bits)