RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13629
(395 letters)
>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 = 210 bits (536), Expect = 2e-67
Identities = 77/99 (77%), Positives = 86/99 (86%)
Query: 296 YVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGT 355
YVRL T+ G +NLEL+C+ PK CENF+K C+ GYY+GT FHRSIRNFMIQGGDPTGTG
Sbjct: 1 YVRLHTNKGDLNLELHCDKAPKACENFIKLCKKGYYDGTIFHRSIRNFMIQGGDPTGTGR 60
Query: 356 GGESIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
GGESIWGKPF+DEFKPN +H GRGVLSMANSGPNTN SQ
Sbjct: 61 GGESIWGKPFKDEFKPNLSHDGRGVLSMANSGPNTNGSQ 99
>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 = 166 bits (422), Expect = 2e-50
Identities = 63/98 (64%), Positives = 75/98 (76%)
Query: 297 VRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTG 356
V L T+LG I +EL+C+ PK CENF+ C +GYYNG FHR+I+ FM+Q GDPTGTG G
Sbjct: 3 VTLHTNLGDIKIELFCDDCPKACENFLALCASGYYNGCIFHRNIKGFMVQTGDPTGTGKG 62
Query: 357 GESIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
GESIWGK FEDEF+ H RGV+SMAN+GPNTN SQ
Sbjct: 63 GESIWGKKFEDEFRETLKHDSRGVVSMANNGPNTNGSQ 100
>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 = 160 bits (407), Expect = 3e-48
Identities = 59/94 (62%), Positives = 66/94 (70%)
Query: 301 TSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGGESI 360
T+ G I++ L+ PKT ENF H NGYYN T FHR I+ FMIQ GDPTG GTGGESI
Sbjct: 4 TTKGDIHIRLFPEEAPKTVENFTTHARNGYYNNTIFHRVIKGFMIQTGDPTGDGTGGESI 63
Query: 361 WGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
WGK FEDEF P+ H LSMAN+GPNTN SQ
Sbjct: 64 WGKEFEDEFSPSLKHDRPYTLSMANAGPNTNGSQ 97
>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 = 151 bits (384), Expect = 7e-45
Identities = 64/96 (66%), Positives = 74/96 (77%)
Query: 299 LVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGGE 358
L T++G I LELY N PKTC+NF + + GYYNGT FHR I++FMIQGGDPTGTG GG
Sbjct: 2 LETTMGEITLELYWNHAPKTCKNFYELAKRGYYNGTIFHRLIKDFMIQGGDPTGTGRGGA 61
Query: 359 SIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
SI+GK FEDE P HTG G+LSMAN+GPNTN SQ
Sbjct: 62 SIYGKKFEDEIHPELKHTGAGILSMANAGPNTNGSQ 97
>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 = 148 bits (377), Expect = 7e-44
Identities = 56/97 (57%), Positives = 63/97 (64%), Gaps = 1/97 (1%)
Query: 299 LVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGGE 358
L T+ G I +ELY + PKT ENF+ G+Y+GT FHR I FMIQGGDPTGTG GG
Sbjct: 2 LDTTKGRIVIELYGDEAPKTVENFLSLARGGFYDGTTFHRVIPGFMIQGGDPTGTGGGG- 60
Query: 359 SIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQL 395
S G F DE P H RG LSMAN+GPNTN SQ
Sbjct: 61 SGPGYKFPDENFPLKYHHRRGTLSMANAGPNTNGSQF 97
>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 = 143 bits (362), Expect = 2e-41
Identities = 53/100 (53%), Positives = 70/100 (70%)
Query: 295 GYVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTG 354
G V L T+ G I++EL+ PK C NF++ C GYY+ T FHR + F+IQGGDPTGTG
Sbjct: 6 GKVILKTTAGDIDIELWSKEAPKACRNFIQLCLEGYYDNTIFHRVVPGFIIQGGDPTGTG 65
Query: 355 TGGESIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
TGGESI+G+PF+DEF RG++ MAN+G ++N SQ
Sbjct: 66 TGGESIYGEPFKDEFHSRLRFNRRGLVGMANAGDDSNGSQ 105
>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 = 142 bits (359), Expect = 3e-41
Identities = 51/99 (51%), Positives = 65/99 (65%), Gaps = 5/99 (5%)
Query: 296 YVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGT 355
++ + T+LG I +EL+ + PKT ENF+ C+ G+Y+GT FHR I FMIQGGDPTG GT
Sbjct: 1 FLDITTNLGRIVIELFGDEAPKTVENFLSLCKKGFYDGTIFHRVIPGFMIQGGDPTGPGT 60
Query: 356 GGESIWGKPFEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
GG+ + DEF H RG LSMA SGPN+ SQ
Sbjct: 61 GGK----RSIPDEFVSKLKHK-RGTLSMARSGPNSAGSQ 94
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 142 bits (360), Expect = 4e-41
Identities = 51/102 (50%), Positives = 62/102 (60%), Gaps = 6/102 (5%)
Query: 296 YVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGT-G 354
V L T+ G I +ELY + PKT NF++ + G+Y+GT FHR I FMIQGGDPTG G
Sbjct: 1 TVILETNKGDITIELYPDKAPKTVANFLQLVKEGFYDGTIFHRVIPGFMIQGGDPTGGDG 60
Query: 355 TGGESIWGKPFEDEFKPNYTHT-GRGVLSMANSG-PNTNTSQ 394
TGG PF+DE RG LSMA +G PN+N SQ
Sbjct: 61 TGGPGP---PFKDENFALNGDRHKRGTLSMARAGDPNSNGSQ 99
>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 = 129 bits (327), Expect = 3e-36
Identities = 57/104 (54%), Positives = 67/104 (64%), Gaps = 12/104 (11%)
Query: 301 TSLGHINLELYCNVFPKTCENFMKHC--ENG------YYNGTKFHRSIRNFMIQGGDPT- 351
G I +EL+ +V PKT ENF C E G Y G+ FHR I +FMIQGGD T
Sbjct: 12 EPAGRIVMELFADVVPKTAENFRALCTGEKGKGGKPFGYKGSTFHRVIPDFMIQGGDFTR 71
Query: 352 GTGTGGESIWGKPFEDE-FKPNYTHTGRGVLSMANSGPNTNTSQ 394
G GTGG+SI+G+ F DE FK HTG G+LSMAN+GPNTN SQ
Sbjct: 72 GNGTGGKSIYGEKFPDENFK--LKHTGPGLLSMANAGPNTNGSQ 113
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 112 bits (282), Expect = 1e-29
Identities = 52/103 (50%), Positives = 62/103 (60%), Gaps = 15/103 (14%)
Query: 304 GHINLELYCNVFPKTCENFMKHC---------ENGYYNGTKFHRSIRNFMIQGGDPT-GT 353
G I EL+ +V PKT ENF C +N +Y G+ FHR I FM QGGD T
Sbjct: 30 GRIVFELFSDVTPKTAENFRALCIGDKVGSSGKNLHYKGSIFHRIIPQFMCQGGDITNHN 89
Query: 354 GTGGESIWGKPFEDEFKPNYT--HTGRGVLSMANSGPNTNTSQ 394
GTGGESI+G+ F DE N+ H G+LSMAN+GPNTN SQ
Sbjct: 90 GTGGESIYGRKFTDE---NFKLKHDQPGLLSMANAGPNTNGSQ 129
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 108 bits (271), Expect = 5e-28
Identities = 52/102 (50%), Positives = 64/102 (62%), Gaps = 14/102 (13%)
Query: 304 GHINLELYCNVFPKTCENFMKHCENGY--------YNGTKFHRSIRNFMIQGGD-PTGTG 354
G I +EL+ ++ PKT ENF + C + Y G +FHR I++FMIQGGD G G
Sbjct: 33 GRIKMELFADIAPKTAENFRQFCTGEFRKAGLPQGYKGCQFHRVIKDFMIQGGDFLKGDG 92
Query: 355 TGGESIWGKPFEDEFKPNYT--HTGRGVLSMANSGPNTNTSQ 394
TG SI+G FEDE N+ HTG G+LSMANSGPNTN Q
Sbjct: 93 TGCVSIYGSKFEDE---NFIAKHTGPGLLSMANSGPNTNGCQ 131
>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 = 102 bits (257), Expect = 4e-26
Identities = 43/103 (41%), Positives = 61/103 (59%), Gaps = 7/103 (6%)
Query: 299 LVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGGE 358
L T+LG + ++L+ + P C NF+K C+ YYN F+ ++F+ Q GDPTGTG GGE
Sbjct: 2 LETTLGDLVIDLFTDECPLACLNFLKLCKLKYYNFCLFYNVQKDFIAQTGDPTGTGAGGE 61
Query: 359 SIWGKP-------FEDEFKPNYTHTGRGVLSMANSGPNTNTSQ 394
SI+ + FE E P H+ +G +SM N+G N N SQ
Sbjct: 62 SIYSQLYGRQARFFEPEILPLLKHSKKGTVSMVNAGDNLNGSQ 104
>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 = 77.5 bits (191), Expect = 5e-17
Identities = 38/96 (39%), Positives = 54/96 (56%), Gaps = 6/96 (6%)
Query: 301 TSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGGESI 360
TSLG I +ELY + P T ENF+ + G+Y+ T FHR I F+IQGG T E+
Sbjct: 4 TSLGDIVVELYDDKAPITVENFLAYVRKGFYDNTIFHRVISGFVIQGGGFTPDLAQKET- 62
Query: 361 WGKPFEDEFKPNYTHTG-RGVLSMANSG-PNTNTSQ 394
KP ++E + RG ++MA + P++ TSQ
Sbjct: 63 -LKPIKNE--AGNGLSNTRGTIAMARTNAPDSATSQ 95
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 71.0 bits (174), Expect = 2e-14
Identities = 38/102 (37%), Positives = 54/102 (52%), Gaps = 4/102 (3%)
Query: 294 DGYVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGT 353
D +V L TS G+I LEL P + +NF+ + +G+YN T FHR I FMIQGG T
Sbjct: 28 DPHVLLTTSAGNIELELNSQKAPVSVKNFVDYVNSGFYNNTTFHRVIPGFMIQGGGFTEQ 87
Query: 354 GTGGESIWGKPFEDEFKPNYTHTGRGVLSMA-NSGPNTNTSQ 394
+ P ++E N RG ++MA + ++ TSQ
Sbjct: 88 MQQKKP--NPPIKNE-ADNGLRNTRGTIAMARTADKDSATSQ 126
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B (rotamase
B); Provisional.
Length = 164
Score = 59.9 bits (145), Expect = 7e-11
Identities = 37/103 (35%), Positives = 56/103 (54%), Gaps = 12/103 (11%)
Query: 297 VRLVTSLGHINLELYCNVFPKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTG 356
V T+ G I ++ + + P+T +NF+ +C G+YN T FHR I FMIQGG G G
Sbjct: 2 VTFHTNHGDIVIKTFDDKAPETVKNFLDYCREGFYNNTIFHRVINGFMIQGG---GFEPG 58
Query: 357 GESIWGKPFEDEFKPNYTHTG----RGVLSMANSG-PNTNTSQ 394
+ K ++ K N + G RG L+MA + P++ T+Q
Sbjct: 59 MKQ---KATKEPIK-NEANNGLKNTRGTLAMARTQAPHSATAQ 97
>gnl|CDD|214531 smart00135, LY, Low-density lipoprotein-receptor YWTD domain. Type
"B" repeats in low-density lipoprotein (LDL) receptor
that plays a central role in mammalian cholesterol
metabolism. Also present in a variety of molecules
similar to gp300/megalin.
Length = 43
Score = 54.5 bits (132), Expect = 4e-10
Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 169 VITNGLITPDGLAIDWLTEKLYWTDSETNKLEVSSLDGKKR 209
++++GL P+GLA+DW+ +LYWTD + +EV++LDG R
Sbjct: 3 LLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVANLDGTNR 43
Score = 50.3 bits (121), Expect = 1e-08
Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 256 KVIVDSTIFWPNGIAIDFNNRLLYWIDGRLTFIEVMDYDG 295
+ ++ S + PNG+A+D+ LYW D L IEV + DG
Sbjct: 1 RTLLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVANLDG 40
Score = 41.4 bits (98), Expect = 2e-05
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 215 EDIDQPRAIALVPQDSIMFWTDWGEVPKIERGAMNGDPR 253
+ P +A+ + ++WTDWG IE ++G R
Sbjct: 6 SGLGHPNGLAVDWIEGRLYWTDWGL-DVIEVANLDGTNR 43
Score = 33.7 bits (78), Expect = 0.007
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 133 AIDYYYKKSMVCWTDHGTEMISCCTFDGNNV 163
A+D+ + + WTD G ++I DG N
Sbjct: 15 AVDWIEGR--LYWTDWGLDVIEVANLDGTNR 43
>gnl|CDD|215683 pfam00058, Ldl_recept_b, Low-density lipoprotein receptor repeat
class B. This domain is also known as the YWTD motif
after the most conserved region of the repeat. The YWTD
repeat is found in multiple tandem repeats and has been
predicted to form a beta-propeller structure.
Length = 42
Score = 47.5 bits (114), Expect = 9e-08
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 232 MFWTDWGEVPKIERGAMNGDPRHRKVIVDSTIFWPNGIAID 272
++WTD I +NG R+ + + WPNGIA+D
Sbjct: 3 LYWTDSSLRASISVADLNG--SDRRTLFSEDLQWPNGIAVD 41
Score = 40.6 bits (96), Expect = 2e-05
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 187 EKLYWTDSET-NKLEVSSLDGKKRKVLYWEDIDQPRAIAL 225
+LYWTDS + V+ L+G R+ L+ ED+ P IA+
Sbjct: 1 GRLYWTDSSLRASISVADLNGSDRRTLFSEDLQWPNGIAV 40
Score = 33.3 bits (77), Expect = 0.011
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 145 WTDHGTEM-ISCCTFDGNNVGSKHNVITNGLITPDGLAIDW 184
WTD IS +G + + + L P+G+A+D
Sbjct: 5 WTDSSLRASISVADLNG---SDRRTLFSEDLQWPNGIAVDP 42
>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 = 49.7 bits (119), Expect = 3e-07
Identities = 32/106 (30%), Positives = 46/106 (43%), Gaps = 27/106 (25%)
Query: 316 PKTCENFMKHCENGYYNGTKFHRSIRNFMIQGGDPTGTGTGG-ESIWGK----PFE---- 366
P T NF+ E G+Y+G +FHR F++Q GDP G G + GK P E
Sbjct: 19 PVTAGNFVDLVERGFYDGMEFHRVEGGFVVQTGDPQGKNPGFPDPETGKSRTIPLEIKPE 78
Query: 367 DEFKPNYTHTGR----------------GVLSMANS--GPNTNTSQ 394
+ +P Y T G ++MA + PN+ +SQ
Sbjct: 79 GQKQPVYGKTLEEAGRYDEQPVLPFNAFGAIAMARTEFDPNSASSQ 124
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 39.9 bits (93), Expect = 0.001
Identities = 32/103 (31%), Positives = 46/103 (44%), Gaps = 18/103 (17%)
Query: 304 GHINLELYCNVFPKTCENFMK--------HCENGY---YNGTKFHRSIRNF-MIQGGDPT 351
G + EL+ +V P+T ENF G Y T H RN +I G+
Sbjct: 67 GRLVFELFEDVVPETVENFRALITGSCGIDTNTGVKLDYLYTPVHHVDRNNNIIVLGELD 126
Query: 352 GTGTGGESIWGKPFEDE-FKPNYTHTGRGVLSMANSGPNTNTS 393
S G P DE ++ + HT RG+L+M + GP+T+ S
Sbjct: 127 SFNV---SSTGTPIADEGYR--HRHTERGLLTMISEGPHTSGS 164
>gnl|CDD|225926 COG3391, COG3391, Uncharacterized conserved protein [Function
unknown].
Length = 381
Score = 37.2 bits (86), Expect = 0.013
Identities = 35/158 (22%), Positives = 60/158 (37%), Gaps = 12/158 (7%)
Query: 156 CTFDGNNVGSKHNVITNGLIT-------PDGLAIDWLTEKLYWTDSETNKLEVSSLDGKK 208
T D N V S + TN ++ P GLA+D + +Y ++ VS +D
Sbjct: 91 TTGDSNTV-SVIDTATNTVLGSIPVGLGPVGLAVDPDGKYVYVANAGNGNNTVSVIDAAT 149
Query: 209 RKVLYWE-DIDQPRAIALVPQDSIMFWTDW--GEVPKIERGAMNGDPRHRKVIVDSTIFW 265
KV + P +A+ P + ++ T+ V I+ + R +
Sbjct: 150 NKVTATIPVGNTPTGVAVDPDGNKVYVTNSDDNTVSVIDTSGNSVV-RGSVGSLVGVGTG 208
Query: 266 PNGIAIDFNNRLLYWIDGRLTFIEVMDYDGYVRLVTSL 303
P GIA+D + +Y + V+ D VT+
Sbjct: 209 PAGIAVDPDGNRVYVANDGSGSNNVLKIDTATGNVTAT 246
Score = 30.3 bits (68), Expect = 2.1
Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 4/86 (4%)
Query: 146 TDHGTEMISCCTFDGNNVGSKHNVITNGLIT-PDGLAIDWLTEKLYWTDSETNKLEVSSL 204
T+ +S GN+V G+ T P G+A+D ++Y + + V +
Sbjct: 177 TNSDDNTVSVIDTSGNSVVRGSVGSLVGVGTGPAGIAVDPDGNRVYVANDGSGSNNVLKI 236
Query: 205 DGKKRKVLYWE---DIDQPRAIALVP 227
D V + PR +A+ P
Sbjct: 237 DTATGNVTATDLPVGSGAPRGVAVDP 262
>gnl|CDD|227361 COG5028, COG5028, Vesicle coat complex COPII, subunit SEC24/subunit
SFB2/subunit SFB3 [Intracellular trafficking and
secretion].
Length = 861
Score = 32.5 bits (74), Expect = 0.42
Identities = 25/112 (22%), Positives = 43/112 (38%), Gaps = 10/112 (8%)
Query: 8 IPQYRPEISLDDRSFAL-YSATIMDIPSSVVYLYPH-LIRPE-ISLDDRSFALYSATIMD 64
+ Y+ E+ + S L A + +P ++ L R D R AL T +
Sbjct: 641 LKAYKKELVKSNTSTQLPLPANLKLLPLLMLALLKSSAFRSGSTPSDIRISALNRLTSLP 700
Query: 65 IPSSVVYLYPHLISLHVI-------DPNSDEMPVQERCSFEKLQPDGAYLLD 109
+ + +YP L +LH + D +P + L+ G YL+D
Sbjct: 701 LKQLMRNIYPTLYALHDMPIEAGLPDEGLLVLPSPINATSSLLESGGLYLID 752
>gnl|CDD|219847 pfam08450, SGL, SMP-30/Gluconolaconase/LRE-like region. This
family describes a region that is found in proteins
expressed by a variety of eukaryotic and prokaryotic
species. These proteins include various enzymes, such as
senescence marker protein 30 (SMP-30), gluconolactonase
and luciferin-regenerating enzyme (LRE). SMP-30 is known
to hydrolyse diisopropyl phosphorofluoridate in the
liver, and has been noted as having sequence similarity,
in the region described in this family, with PON1 and
LRE.
Length = 245
Score = 31.8 bits (73), Expect = 0.42
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 8/68 (11%)
Query: 233 FWT---DWGEVPKIERGA---MNGDPRHRKVIVDSTIFWPNGIAIDFNNRLLYWIDGRLT 286
FW + P E GA ++ D + +V+ TI NG+A + + LY+ D
Sbjct: 98 FWFGTMGFDIAPGGEPGALYRLDPDGKVERVLDGITI--SNGLAWSPDGKTLYFADSPTR 155
Query: 287 FIEVMDYD 294
I DYD
Sbjct: 156 RIWAFDYD 163
>gnl|CDD|215497 PLN02919, PLN02919, haloacid dehalogenase-like hydrolase family
protein.
Length = 1057
Score = 31.4 bits (71), Expect = 1.0
Identities = 16/38 (42%), Positives = 25/38 (65%)
Query: 169 VITNGLITPDGLAIDWLTEKLYWTDSETNKLEVSSLDG 206
++T+ L P LAID L +L+ +DS N++ V+ LDG
Sbjct: 562 LLTSPLKFPGKLAIDLLNNRLFISDSNHNRIVVTDLDG 599
>gnl|CDD|201354 pfam00626, Gelsolin, Gelsolin repeat.
Length = 76
Score = 28.4 bits (64), Expect = 1.2
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 87 DEMPVQERCSFEKLQPDGAYLLD 109
+P S E L YLLD
Sbjct: 2 FVLPPPVPLSQESLNSGDCYLLD 24
>gnl|CDD|218277 pfam04815, Sec23_helical, Sec23/Sec24 helical domain. COPII-coated
vesicles carry proteins from the endoplasmic reticulum
to the Golgi complex. This vesicular transport can be
reconstituted by using three cytosolic components
containing five proteins: the small GTPase Sar1p, the
Sec23p/24p complex, and the Sec13p/Sec31p complex. This
domain is composed of five alpha helices.
Length = 103
Score = 29.0 bits (66), Expect = 1.4
Identities = 5/32 (15%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 42 HLIRPE-ISLDDRSFALYSATIMDIPSSVVYL 72
+R +S D+R++A + + + ++ +
Sbjct: 72 PALRGGNVSPDERAYARCLLLSLPVENLLLMI 103
Score = 27.9 bits (63), Expect = 3.0
Identities = 4/25 (16%), Positives = 14/25 (56%)
Query: 15 ISLDDRSFALYSATIMDIPSSVVYL 39
+S D+R++A + + + ++ +
Sbjct: 79 VSPDERAYARCLLLSLPVENLLLMI 103
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 30.8 bits (69), Expect = 1.4
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 10/78 (12%)
Query: 42 HLIRPEISLDDRSFALYSATIMDIPSSVVYLYPHLISLHVIDPNS--DEMPVQER----- 94
++ + EI D + ++L M I SS++Y+YP + +H+ + D M V +
Sbjct: 1373 NVTKKEILHDLKVYSLIKLLSMPIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPK 1432
Query: 95 ---CSFEKLQPDGAYLLD 109
S EK+ +G YLLD
Sbjct: 1433 TIPSSAEKIYSNGIYLLD 1450
>gnl|CDD|234019 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat
protein TolB. Members of this protein family are the
TolB periplasmic protein of Gram-negative bacteria. TolB
is part of the Tol-Pal (peptidoglycan-associated
lipoprotein) multiprotein complex, comprising five
envelope proteins, TolQ, TolR, TolA, TolB and Pal, which
form two complexes. The TolQ, TolR and TolA
inner-membrane proteins interact via their transmembrane
domains. The {beta}-propeller domain of the periplasmic
protein TolB is responsible for its interaction with
Pal. TolB also interacts with the outer-membrane
peptidoglycan-associated proteins Lpp and OmpA. TolA
undergoes a conformational change in response to changes
in the proton-motive force, and interacts with Pal in an
energy-dependent manner. The C-terminal periplasmic
domain of TolA also interacts with the N-terminal domain
of TolB. The Tol-PAL system is required for bacterial
outer membrane integrity. E. coli TolB is involved in
the tonB-independent uptake of group A colicins
(colicins A, E1, E2, E3 and K), and is necessary for the
colicins to reach their respective targets after initial
binding to the bacteria. It is also involved in uptake
of filamentous DNA. Study of its structure suggest that
the TolB protein might be involved in the recycling of
peptidoglycan or in its covalent linking with
lipoproteins. The Tol-Pal system is also implicated in
pathogenesis of E. coli, Haemophilus ducreyi ,
Salmonella enterica and Vibrio cholerae, but the
mechanism(s) is unclear [Transport and binding proteins,
Other, Cellular processes, Pathogenesis].
Length = 417
Score = 29.9 bits (68), Expect = 2.2
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 268 GIAIDFNNRLLY---WIDGRLTFIEVMDYDGY-VRLVTSLGHINL 308
G F+ R+ Y GR ++V DYDG + +T L
Sbjct: 149 GERGAFSTRIAYVSKSGKGRRYELQVADYDGANPQTITRSREPIL 193
>gnl|CDD|201301 pfam00554, RHD, Rel homology domain (RHD). Proteins containing the
Rel homology domain (RHD) are eukaryotic transcription
factors. The RHD is composed of two structural domains.
This is the N-terminal domain that is similar to that
found in P53. The C-terminal domain has an
immunoglobulin-like fold (See pfam01833) that binds to
DNA.
Length = 169
Score = 28.4 bits (64), Expect = 4.7
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 286 TF--IEVMDYDGYVRLVTSLGHINLELYCNVFPKTCENFMKHCENGYY 331
TF +++ +YDG + SL + P K C++G
Sbjct: 37 TFPTVQICNYDGPAVIRVSLVTKDE----PHRPHPHSLVGKDCKDGVC 80
>gnl|CDD|222409 pfam13837, Myb_DNA-bind_4, Myb/SANT-like DNA-binding domain. This
presumed domain appears to be related to other
Myb/SANT-like DNA binding domains. In particular
pfam10545 seems most related. This family is greatly
expanded in plants and appears in several proteins
annotated as transposon proteins.
Length = 84
Score = 27.2 bits (61), Expect = 4.8
Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 8/36 (22%)
Query: 190 YWTDSET--------NKLEVSSLDGKKRKVLYWEDI 217
WTD ET +L+ G KR WE+I
Sbjct: 3 KWTDEETRALIEIWGERLDSLFQRGTKRNKHVWEEI 38
>gnl|CDD|221251 pfam11832, DUF3352, Protein of unknown function (DUF3352). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are typically between 538 to 575
amino acids in length.
Length = 541
Score = 28.9 bits (65), Expect = 5.1
Identities = 19/92 (20%), Positives = 34/92 (36%), Gaps = 11/92 (11%)
Query: 204 LDGKKRKVLYWEDIDQPRAIALVPQDSIM--FW-TDWGEVPK-IERGAMNGDPRHRKVIV 259
L + L + ++ PRA VP+D+ + TD +P + G R R+
Sbjct: 20 LLRQSPLRLVDQPLNLPRAARFVPRDAPLTLHLLTDPDRLPALAQAGT---PARQRRAAR 76
Query: 260 DSTIFWPNG----IAIDFNNRLLYWIDGRLTF 287
+G +DF + W+ +T
Sbjct: 77 KELRQLRDGLLALAGLDFEKDIQPWVGDEVTL 108
>gnl|CDD|163448 TIGR03736, PRTRC_ThiF, PRTRC system ThiF family protein. A novel
genetic system characterized by six major proteins,
included a ParB homolog and a ThiF homolog, is
designated PRTRC, or ParB-Related,ThiF-Related Cassette.
This family is the PRTRC system ThiF family protein.
Length = 244
Score = 28.5 bits (64), Expect = 5.8
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 209 RKVLYWEDIDQPRAIALVPQDSIMFWTDWGEVPKIERGAMNGDPRHRKVIV 259
R+ Y D+ Q +AI LV + + TDW P ER + HR IV
Sbjct: 63 RQAFYPADVGQNKAIVLVNRLNQAMGTDWTAHP--ERVERSST-LHRPDIV 110
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 28.5 bits (64), Expect = 6.9
Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 203 SLDGKKRKVLYWEDIDQPRAIALVPQDSIMFWTDW--GEVPKIERGAMNGDPRHRKVIVD 260
DG ++L +D+ P +A P ++ D + + + G R+ VD
Sbjct: 149 DPDGGVVRLL-DDDLTIPNGLAFSPDGKTLYVADTPANRIHRYDLDPATGPIGGRRGFVD 207
Query: 261 STI--FWPNGIAID 272
P+G+A+D
Sbjct: 208 FDEEPGLPDGMAVD 221
Score = 27.7 bits (62), Expect = 9.4
Identities = 11/39 (28%), Positives = 17/39 (43%)
Query: 256 KVIVDSTIFWPNGIAIDFNNRLLYWIDGRLTFIEVMDYD 294
++D + PNG+A + + LY D I D D
Sbjct: 155 VRLLDDDLTIPNGLAFSPDGKTLYVADTPANRIHRYDLD 193
>gnl|CDD|182153 PRK09934, PRK09934, fimbrial-like adhesin protein SfmF;
Provisional.
Length = 171
Score = 27.5 bits (61), Expect = 7.6
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 301 TSLGHINLELYCNVFPKTC 319
LG IN+EL+ NV TC
Sbjct: 22 DPLGEINIELHGNVVDFTC 40
>gnl|CDD|197777 smart00534, MUTSac, ATPase domain of DNA mismatch repair MUTS
family.
Length = 185
Score = 27.5 bits (62), Expect = 9.4
Identities = 6/49 (12%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 22 FALYSATIMDIPSSVVYLYPHLIRPEISLDDRSFALYSATIMDIPSSVV 70
+ ++ ++ +LY + + + +S+ + A + +P V+
Sbjct: 134 VRNLHMSALEETENITFLY----KLKPGVAGKSYGIEVAKLAGLPKEVI 178
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
0.320 0.139 0.438
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,714,934
Number of extensions: 2038879
Number of successful extensions: 1472
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1450
Number of HSP's successfully gapped: 50
Length of query: 395
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 296
Effective length of database: 6,546,556
Effective search space: 1937780576
Effective search space used: 1937780576
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: 60 (26.8 bits)