RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1145
(138 letters)
>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 = 55.0 bits (133), Expect = 1e-10
Identities = 29/121 (23%), Positives = 46/121 (38%), Gaps = 17/121 (14%)
Query: 18 YRNCALSQLWQFESIITGSFRYGDKTEGRSVFVQEYFRPDESH--LGARRGAVGMRRIKK 75
Y ++ I G RS+ PDE L +RG + M R
Sbjct: 36 YDGTIFHRVIPGFMIQGGDPTGPGTGGKRSI-------PDEFVSKLKHKRGTLSMAR--- 85
Query: 76 TSENKGLVGSQFRIILNHQKQFTG---IFGQVIYGLEYIDAISTYSNAQGQPTERFYISN 132
+ N GSQF I L G +FG+V+ G++ ++ I +P + I++
Sbjct: 86 SGPNSA--GSQFFITLGDAPHLDGGYTVFGRVVEGMDVVEKIEKVETDGDRPLKDVKITS 143
Query: 133 C 133
C
Sbjct: 144 C 144
>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 = 45.7 bits (109), Expect = 4e-07
Identities = 33/138 (23%), Positives = 48/138 (34%), Gaps = 20/138 (14%)
Query: 2 ATNFELLTIGEFPGLSYRNCALSQLWQFESIITGSFRYGDKTEGRSVFVQEYFRPDESHL 61
NF L G F Y ++ I G Y PDE+
Sbjct: 22 VENFLSLARGGF----YDGTTFHRVIPGFMIQGGDPTGTGGGGSGP----GYKFPDENFP 73
Query: 62 G---ARRGAVGMRRIKKTSENKGLVGSQFRIILNHQKQFTG---IFGQVIYGLEYIDAI- 114
RRG + M N GSQF I G +FG+V+ G++ +D I
Sbjct: 74 LKYHHRRGTLSMAN---AGPNTN--GSQFFITTAPTPHLDGKHTVFGKVVEGMDVVDKIE 128
Query: 115 STYSNAQGQPTERFYISN 132
++ G+P + IS+
Sbjct: 129 RGDTDENGRPIKPVTISD 146
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 39.1 bits (92), Expect = 1e-04
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 12/87 (13%)
Query: 34 TGSFRYGDKTEGRSV-FVQEYFRPDESHLGARRGAVGMRRIKKTSENKGLVGSQFRIILN 92
G GD T G F E F + +RG + M R + + GSQF I +
Sbjct: 52 GGDPTGGDGTGGPGPPFKDENF--ALNGDRHKRGTLSMAR----AGDPNSNGSQFFITVV 105
Query: 93 HQ----KQFTGIFGQVIYGLEYIDAIS 115
++T +FGQV+ G++ +D I
Sbjct: 106 DNPFLDGKYT-VFGQVVEGMDVVDKIK 131
>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 = 38.4 bits (90), Expect = 3e-04
Identities = 40/150 (26%), Positives = 61/150 (40%), Gaps = 32/150 (21%)
Query: 2 ATNFELLTIGEF----PGLSYRNCALSQLWQFESIIT------GSFRYGDKTEGRSVFVQ 51
A NF L GE Y+ F +I G F G+ T G+S++
Sbjct: 30 AENFRALCTGEKGKGGKPFGYKGS------TFHRVIPDFMIQGGDFTRGNGTGGKSIY-G 82
Query: 52 EYFRPDES----HLGARRGAVGMRRIKKTSENKGLVGSQFRIILNHQKQFTG---IFGQV 104
E F PDE+ H G G + M + GSQF I G +FG+V
Sbjct: 83 EKF-PDENFKLKHTGP--GLLSMANAGPNTN-----GSQFFITTVKTPWLDGKHVVFGKV 134
Query: 105 IYGLEYIDAISTYSNAQGQPTERFYISNCG 134
+ G++ + I + G+P ++ I++CG
Sbjct: 135 VEGMDVVKKIENVGSGNGKPKKKVVIADCG 164
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 37.1 bits (86), Expect = 9e-04
Identities = 37/148 (25%), Positives = 59/148 (39%), Gaps = 25/148 (16%)
Query: 2 ATNFELLTIGE---FPG--LSYRNCALSQLWQFESIIT------GSFRYGDKTEGRSVFV 50
A NF L IG+ G L Y+ F II G + T G S++
Sbjct: 45 AENFRALCIGDKVGSSGKNLHYKGSI------FHRIIPQFMCQGGDITNHNGTGGESIYG 98
Query: 51 QEYFRPDESHLGARRGAVGMRRIKKTSENKGLVGSQFRIILNHQKQFTG---IFGQVIYG 107
+++ DE+ + G+ + N GSQF I G +FG+VI G
Sbjct: 99 RKF--TDEN-FKLKHDQPGLLSMANAGPNTN--GSQFFITTVPCPWLDGKHVVFGKVIEG 153
Query: 108 LEYIDAISTYSNAQGQPTERFYISNCGK 135
+E + A+ G P + +++CG+
Sbjct: 154 MEVVRAMEKEGTQSGYPKKPVVVTDCGE 181
>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 = 33.5 bits (77), Expect = 0.015
Identities = 23/95 (24%), Positives = 38/95 (40%), Gaps = 16/95 (16%)
Query: 35 GSFRYGDKTEGRSVFVQEYFRPDESHLGARRGAVGMRRIKKTSENKGLVGSQFRIIL--- 91
S YG + F + P H +++G V M GSQF I L
Sbjct: 64 YSQLYGRQAR----FFEPEILPLLKH--SKKGTVSMVNAGDNL-----NGSQFYITLGEN 112
Query: 92 -NHQKQFTGIFGQVIYGLEYIDAIS-TYSNAQGQP 124
++ +FGQV+ G + ++ I+ + G+P
Sbjct: 113 LDYLDGKHTVFGQVVEGFDVLEKINDAIVDDDGRP 147
>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 = 32.0 bits (73), Expect = 0.051
Identities = 30/99 (30%), Positives = 38/99 (38%), Gaps = 19/99 (19%)
Query: 34 TGSFRYGDKTEGRSVFVQEYFRPDESHLGARRGAVGMRRIKKTSENKG--LVGSQFRIIL 91
TG+ + G+ G+ F E FR H RG V M N G GSQF I
Sbjct: 57 TGTGKGGESIWGKK-FEDE-FRETLKH--DSRGVVSM-------ANNGPNTNGSQFFITY 105
Query: 92 NHQKQFTG---IFGQVIYGLEYIDAISTYSNAQGQPTER 127
Q G +FG+VI G E +D + R
Sbjct: 106 AKQPHLDGKYTVFGKVIDGFETLDTL---EKLPVDKKYR 141
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 30.6 bits (69), Expect = 0.20
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 12/59 (20%)
Query: 65 RGAVGMRRIKKTSENKGLVGSQFRI------ILNH-QKQFT-GIFGQVIYGLEYIDAIS 115
RG + M R T++ K SQF I L+H Q+ F +FG+V+ G++ D IS
Sbjct: 109 RGTIAMAR---TAD-KDSATSQFFINVADNAFLDHGQRDFGYAVFGKVVKGMDVADKIS 163
>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 = 27.8 bits (62), Expect = 1.3
Identities = 29/86 (33%), Positives = 42/86 (48%), Gaps = 12/86 (13%)
Query: 34 TGSFRYGDKTEGRSVFVQEYFRPDESHLGARRGAVGMRRIKKTSENKGLVGSQFRIILNH 93
TG+ R G+ G+ F E F+P+ SH G RG + M + GSQF I
Sbjct: 56 TGTGRGGESIWGKP-FKDE-FKPNLSHDG--RGVLSM-----ANSGPNTNGSQFFITYRS 106
Query: 94 QKQFTG---IFGQVIYGLEYIDAIST 116
K G +FG+V+ GLE ++A+
Sbjct: 107 CKHLDGKHTVFGRVVGGLETLEAMEN 132
>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 = 27.4 bits (61), Expect = 2.1
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 15/74 (20%)
Query: 61 LGARRGAVGMRRIKKTSENKGLVGSQFRI------ILNHQKQFTG--IFGQVIYGLEYID 112
L RG + M R T+ SQF I L++Q + G +FG+V G++ +D
Sbjct: 74 LSNTRGTIAMAR---TNAPDSAT-SQFFINLKDNASLDYQNEQWGYTVFGEVTEGMDVVD 129
Query: 113 AIS---TYSNAQGQ 123
I+ TYS Q
Sbjct: 130 KIAGVETYSFGSYQ 143
>gnl|CDD|220021 pfam08798, CRISPR_assoc, CRISPR associated protein. This domain
forms an anti-parallel beta strand structure with
flanking alpha helical regions.
Length = 212
Score = 26.1 bits (58), Expect = 5.4
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 40 GDKTEGRSVFVQEYFRPDESHLGARRGAVGMRRIK 74
GD G + VQ PD SHL R A + + K
Sbjct: 50 GDAQGGPRLLVQSAREPDWSHLPERAPAAFVLKSK 84
>gnl|CDD|214664 smart00439, BAH, Bromo adjacent homology domain.
Length = 121
Score = 25.3 bits (56), Expect = 8.9
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 48 VFVQEYFRPDESHLGARR 65
V V+ ++RP+E+ L
Sbjct: 39 VRVRWFYRPEETVLEKAA 56
>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 = 25.5 bits (56), Expect = 9.2
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 13/61 (21%)
Query: 66 GAVGMRRIKKTSENKGLVGSQFRIILNHQKQFTG----------IFGQVIYGLEYIDAIS 115
GA+ M R + N SQF +L + +FG V GL+ + +
Sbjct: 107 GAIAMAR-TEFDPNSA--SSQFFFLLKDNELTPSRNNVLDGRYAVFGYVTDGLDILRELK 163
Query: 116 T 116
Sbjct: 164 V 164
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
0.321 0.138 0.419
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,059,287
Number of extensions: 623617
Number of successful extensions: 377
Number of sequences better than 10.0: 1
Number of HSP's gapped: 376
Number of HSP's successfully gapped: 16
Length of query: 138
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 51
Effective length of database: 7,078,804
Effective search space: 361019004
Effective search space used: 361019004
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 (21.8 bits)
S2: 54 (24.6 bits)