RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy442
(66 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 = 122 bits (308), Expect = 9e-38
Identities = 47/63 (74%), Positives = 56/63 (88%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKIVVA 60
MANAGPNTNGSQFFITTVKT WLD +HVVFG VVEG+DVVKK+E++GS +GK KK+V+A
Sbjct: 102 MANAGPNTNGSQFFITTVKTPWLDGKHVVFGKVVEGMDVVKKIENVGSGNGKPKKKVVIA 161
Query: 61 NSG 63
+ G
Sbjct: 162 DCG 164
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 102 bits (256), Expect = 1e-29
Identities = 41/66 (62%), Positives = 51/66 (77%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKIVVA 60
MANAGPNTNGSQFFITTV WLD +HVVFG V+EG++VV+ +E G+QSG K +VV
Sbjct: 118 MANAGPNTNGSQFFITTVPCPWLDGKHVVFGKVIEGMEVVRAMEKEGTQSGYPKKPVVVT 177
Query: 61 NSGQLS 66
+ G+L
Sbjct: 178 DCGELQ 183
>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 = 87.9 bits (218), Expect = 2e-24
Identities = 35/57 (61%), Positives = 45/57 (78%), Gaps = 2/57 (3%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKI 57
MANAGPNTNGSQFFITTV T WLDN+H VFG VV+G+DVV+++E+ ++ K +
Sbjct: 86 MANAGPNTNGSQFFITTVATPWLDNKHTVFGRVVKGMDVVQRIEN--VKTDKNDRPY 140
>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 = 87.3 bits (217), Expect = 3e-24
Identities = 35/62 (56%), Positives = 45/62 (72%), Gaps = 1/62 (1%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMG-SQSGKTSKKIVV 59
MANAGPNTNGSQFFITT T LD +H VFG VVEG+DVV K+E ++G+ K + +
Sbjct: 85 MANAGPNTNGSQFFITTAPTPHLDGKHTVFGKVVEGMDVVDKIERGDTDENGRPIKPVTI 144
Query: 60 AN 61
++
Sbjct: 145 SD 146
>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 = 86.6 bits (215), Expect = 7e-24
Identities = 27/61 (44%), Positives = 39/61 (63%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKIVVA 60
MA +GPN+ GSQFFIT LD + VFG VVEG+DVV+K+E + + + K + +
Sbjct: 83 MARSGPNSAGSQFFITLGDAPHLDGGYTVFGRVVEGMDVVEKIEKVETDGDRPLKDVKIT 142
Query: 61 N 61
+
Sbjct: 143 S 143
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 82.7 bits (205), Expect = 4e-22
Identities = 28/46 (60%), Positives = 36/46 (78%), Gaps = 1/46 (2%)
Query: 1 MANAG-PNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLES 45
MA AG PN+NGSQFFIT V +LD ++ VFG VVEG+DVV K+++
Sbjct: 87 MARAGDPNSNGSQFFITVVDNPFLDGKYTVFGQVVEGMDVVDKIKN 132
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 77.6 bits (191), Expect = 6e-20
Identities = 33/67 (49%), Positives = 48/67 (71%), Gaps = 2/67 (2%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVV-EGLDVVKKLESMGS-QSGKTSKKIV 58
MAN+GPNTNG QFFIT K WLDN+HVVFG V+ +GL VV+K+E++ + + + V
Sbjct: 120 MANSGPNTNGCQFFITCAKCDWLDNKHVVFGRVLGDGLLVVRKIENVATGPNNRPKLACV 179
Query: 59 VANSGQL 65
++ G++
Sbjct: 180 ISECGEM 186
>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 = 69.4 bits (170), Expect = 5e-17
Identities = 27/60 (45%), Positives = 40/60 (66%), Gaps = 1/60 (1%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQ-SGKTSKKIVV 59
MAN+GPNTNGSQFFIT LD +H VFG VV GL+ ++ +E++ + + ++I +
Sbjct: 88 MANSGPNTNGSQFFITYRSCKHLDGKHTVFGRVVGGLETLEAMENVPDPGTDRPKEEIKI 147
>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 = 68.7 bits (168), Expect = 7e-17
Identities = 27/52 (51%), Positives = 38/52 (73%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGK 52
MANAGPNTNGSQFFIT T WLD +H +FG V +G+ V++ + + +Q+ +
Sbjct: 86 MANAGPNTNGSQFFITLAPTPWLDGKHTIFGRVSKGMKVIENMVEVQTQTDR 137
>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 = 65.2 bits (159), Expect = 2e-15
Identities = 26/58 (44%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKIV 58
MAN GPNTNGSQFFIT K LD ++ VFG V++G + + LE + K + +
Sbjct: 89 MANNGPNTNGSQFFITYAKQPHLDGKYTVFGKVIDGFETLDTLEKL--PVDKKYRPLE 144
>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 = 60.0 bits (146), Expect = 2e-13
Identities = 25/44 (56%), Positives = 32/44 (72%), Gaps = 1/44 (2%)
Query: 1 MANAGPNTNGSQFFITTVK-TAWLDNRHVVFGSVVEGLDVVKKL 43
M NAG N NGSQF+IT + +LD +H VFG VVEG DV++K+
Sbjct: 93 MVNAGDNLNGSQFYITLGENLDYLDGKHTVFGQVVEGFDVLEKI 136
>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 = 56.2 bits (136), Expect = 7e-12
Identities = 19/34 (55%), Positives = 24/34 (70%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVV 34
MANAG ++NGSQFF T K L+N+H +FG V
Sbjct: 94 MANAGDDSNGSQFFFTLDKADELNNKHTLFGKVT 127
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 49.5 bits (118), Expect = 6e-09
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 1 MANAGPNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMG-SQSGKTSKKIVV 59
M + GP+T+GS F IT + LD + VVFG V+ L +++KLES+ G+ + V
Sbjct: 154 MISEGPHTSGSVFGITLGPSPSLDFKQVVFGKAVDDLSLLEKLESLPLDDVGRPLLPVTV 213
Query: 60 ANSGQLS 66
+ G L+
Sbjct: 214 SFCGALT 220
>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 = 36.3 bits (84), Expect = 2e-04
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 7/46 (15%)
Query: 6 PNTNGSQFFI-------TTVKTAWLDNRHVVFGSVVEGLDVVKKLE 44
PN+ SQFF T + LD R+ VFG V +GLD++++L+
Sbjct: 118 PNSASSQFFFLLKDNELTPSRNNVLDGRYAVFGYVTDGLDILRELK 163
>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 = 35.5 bits (82), Expect = 4e-04
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 1 MA-NAGPNTNGSQFFITTVKTAWLDNR-----HVVFGSVVEGLDVVKKLES 45
MA P++ SQFFI A LD + + VFG V EG+DVV K+
Sbjct: 83 MARTNAPDSATSQFFINLKDNASLDYQNEQWGYTVFGEVTEGMDVVDKIAG 133
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 34.0 bits (78), Expect = 0.002
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 10/59 (16%)
Query: 11 SQFFITTVKTAWLDNR-----HVVFGSVVEGLDVVKKL-----ESMGSQSGKTSKKIVV 59
SQFFI A+LD+ + VFG VV+G+DV K+ +G SK +V+
Sbjct: 125 SQFFINVADNAFLDHGQRDFGYAVFGKVVKGMDVADKISQVPTHDVGPYQNVPSKPVVI 183
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B (rotamase
B); Provisional.
Length = 164
Score = 32.5 bits (74), Expect = 0.005
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 6 PNTNGSQFFITTVKTAWLDNR--------HVVFGSVVEGLDVVKKLESMGS 48
P++ +QFFI V +L+ + VF VVEG+DVV K++ + +
Sbjct: 91 PHSATAQFFINVVDNDFLNFSGESLQGWGYCVFAEVVEGMDVVDKIKGVAT 141
>gnl|CDD|226497 COG4009, COG4009, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 88
Score = 26.3 bits (58), Expect = 0.57
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 27 HVVFGSVVEGLDVVKK-LESMGSQSGKTSKKIV 58
+VVF VE + V++ LE MG++ + SK +
Sbjct: 52 YVVFLEEVESEEEVERELEDMGAEINRDSKASL 84
>gnl|CDD|227265 COG4928, COG4928, Predicted P-loop ATPase [General function
prediction only].
Length = 646
Score = 25.1 bits (55), Expect = 3.2
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 14 FITTVKTAWLDNRHVVFGSVVEGLDVV 40
IT ++ L N H V + V LD V
Sbjct: 291 LITVPRSVTLLNTHEVVKTEVLDLDFV 317
>gnl|CDD|233301 TIGR01175, pilM, type IV pilus assembly protein PilM. This
protein is required for the assembly of the type IV
fimbria in Pseudomonas aeruginosa responsible for
twitching motility, and for a similar pilus-like
structure in Synechocystis. It is also found in species
such as Deinococcus described as having natural
transformation (for which a type IV pilus-like
structure is proposed) but not fimbria.
Length = 348
Score = 24.7 bits (54), Expect = 4.0
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 28 VVFGSVVEGLDVVKKLESMGSQSGKTSKKIVVANSGQ 64
G +VE V + L+ + S+ G +KK A G
Sbjct: 42 FTEGHIVEYQAVAEALKELLSELGINTKKAATAVPGS 78
>gnl|CDD|233603 TIGR01862, N2-ase-Ialpha, nitrogenase component I, alpha chain.
This model represents the alpha chain of all three
varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of
nitrogenase [Central intermediary metabolism, Nitrogen
fixation].
Length = 443
Score = 24.7 bits (54), Expect = 4.0
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 7/38 (18%)
Query: 7 NTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLE 44
N NG F+ V + + +VFG KKL+
Sbjct: 76 NENGVGAFLKYVFSTDMQESDIVFGG-------EKKLK 106
>gnl|CDD|224956 COG2045, COG2045, Phosphosulfolactate phosphohydrolase and related
enzymes [Coenzyme metabolism / General function
prediction only].
Length = 230
Score = 24.2 bits (53), Expect = 4.9
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 14/58 (24%)
Query: 6 PNTNGSQFFITTVKTAWLDNRHVVFGSVVEGLDVVKKLESMGSQSGKTSKKIVVANSG 63
TNG T + H++ GS+V V + L+ + ++V +G
Sbjct: 97 TTTNG-----TRALLR-AKSEHILIGSLVNASAVAEALKELED--------VLVVPAG 140
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
0.311 0.126 0.347
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,009,607
Number of extensions: 201996
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 22
Length of query: 66
Length of database: 10,937,602
Length adjustment: 37
Effective length of query: 29
Effective length of database: 9,296,504
Effective search space: 269598616
Effective search space used: 269598616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.1 bits)