RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy793
(414 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 = 242 bits (621), Expect = 8e-80
Identities = 100/210 (47%), Positives = 116/210 (55%), Gaps = 47/210 (22%)
Query: 12 IVFLDVSIGEEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRII 71
VF D++IG E GR+V+ELF +VPKTAENFRALCTGE KGK GK + GS FHR+I
Sbjct: 2 KVFFDITIGGEPAGRIVMELFADVVPKTAENFRALCTGE--KGKGGKPFGYKGSTFHRVI 59
Query: 72 PQFMIQGGDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGT 131
P FMIQGGD T NGTGG+SIY
Sbjct: 60 PDFMIQGGDFTRGNGTGGKSIY-------------------------------------- 81
Query: 132 GGESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCV 191
GE F DENFKLKH G LS+AN G PNTN SQFFIT P LDGK+VVFG V
Sbjct: 82 -GEK-----FPDENFKLKHTGPGLLSMANAG-PNTNGSQFFITTVKTPWLDGKHVVFGKV 134
Query: 192 RQGFGVAREVSYVEAENDKPLVTCTITNSG 221
+G V +++ V + N KP I + G
Sbjct: 135 VEGMDVVKKIENVGSGNGKPKKKVVIADCG 164
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 207 bits (529), Expect = 8e-66
Identities = 100/212 (47%), Positives = 114/212 (53%), Gaps = 46/212 (21%)
Query: 13 VFLDVSIGEEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIP 72
VF D+SI GR+V ELF + PKTAENFRALC G+ G GK LH+ GS
Sbjct: 18 VFFDISIDNAPAGRIVFELFSDVTPKTAENFRALCIGD-KVGSSGKNLHYKGS------- 69
Query: 73 QFMIQGGDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTG 132
FHRIIPQFM QGGDITN NGTG
Sbjct: 70 -------------------------------------IFHRIIPQFMCQGGDITNHNGTG 92
Query: 133 GESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVR 192
GESIYG F DENFKLKH G LS+AN G PNTN SQFFIT PCP LDGK+VVFG V
Sbjct: 93 GESIYGRKFTDENFKLKHDQPGLLSMANAG-PNTNGSQFFITTVPCPWLDGKHVVFGKVI 151
Query: 193 QGFGVAREVSYVEAENDKPLVTCTITNSGQLS 224
+G V R + ++ P +T+ G+L
Sbjct: 152 EGMEVVRAMEKEGTQSGYPKKPVVVTDCGELQ 183
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 160 bits (407), Expect = 1e-47
Identities = 90/216 (41%), Positives = 109/216 (50%), Gaps = 49/216 (22%)
Query: 10 NYIVFLDVSIGEEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHR 69
N +VF DV+IG GR+ +ELF I PKTAENFR CTGE+ K G + G +FHR
Sbjct: 18 NPVVFFDVTIGGIPAGRIKMELFADIAPKTAENFRQFCTGEFRKA--GLPQGYKGCQFHR 75
Query: 70 IIPQFMIQGGDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFN 129
+I FMIQGGD GD
Sbjct: 76 VIKDFMIQGGDFLK---------------------------------------GD----- 91
Query: 130 GTGGESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFG 189
GTG SIYG FEDENF KH G LS+AN+G PNTN QFFIT A C LD K+VVFG
Sbjct: 92 GTGCVSIYGSKFEDENFIAKHTGPGLLSMANSG-PNTNGCQFFITCAKCDWLDNKHVVFG 150
Query: 190 CVR-QGFGVAREVSYVE-AENDKPLVTCTITNSGQL 223
V G V R++ V N++P + C I+ G++
Sbjct: 151 RVLGDGLLVVRKIENVATGPNNRPKLACVISECGEM 186
>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 = 151 bits (383), Expect = 2e-44
Identities = 77/197 (39%), Positives = 94/197 (47%), Gaps = 57/197 (28%)
Query: 24 VGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDITN 83
GR+VIEL+ PKT ENF +L G + + G+ FHR+IP FMIQGGD T
Sbjct: 6 KGRIVIELYGDEAPKTVENFLSLARGGF----------YDGTTFHRVIPGFMIQGGDPTG 55
Query: 84 FNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPCFED 143
G G S G F DENF LK Y HR
Sbjct: 56 TGGGG--SGPGYKFPDENFPLK----YHHR------------------------------ 79
Query: 144 ENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVAREVSY 203
G LS+AN G PNTN SQFFIT AP PHLDGK+ VFG V +G V ++
Sbjct: 80 ---------RGTLSMANAG-PNTNGSQFFITTAPTPHLDGKHTVFGKVVEGMDVVDKIER 129
Query: 204 VE-AENDKPLVTCTITN 219
+ EN +P+ TI++
Sbjct: 130 GDTDENGRPIKPVTISD 146
>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 = 6e-41
Identities = 62/192 (32%), Positives = 80/192 (41%), Gaps = 55/192 (28%)
Query: 19 IGEEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQG 78
I E G + IEL+ PKT NF L + + G+ FHR+IP FMIQG
Sbjct: 3 ILETNKGDITIELYPDKAPKTVANFLQLVKEGF----------YDGTIFHRVIPGFMIQG 52
Query: 79 GDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYG 138
GD T +GTGG F+DENF
Sbjct: 53 GDPTGGDGTGGPGPP---FKDENF------------------------------------ 73
Query: 139 PCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVA 198
+HK G LS+A G PN+N SQFFIT+ P LDGK VFG V +G V
Sbjct: 74 -----ALNGDRHKR-GTLSMARAGDPNSNGSQFFITVVDNPFLDGKYTVFGQVVEGMDVV 127
Query: 199 REVSYVEAENDK 210
++ + ++
Sbjct: 128 DKIKNGDTDDSG 139
>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 = 137 bits (346), Expect = 4e-39
Identities = 70/206 (33%), Positives = 86/206 (41%), Gaps = 63/206 (30%)
Query: 14 FLDVSIGEEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQ 73
FLD++ GR+VIELF PKT ENF +LC K + G+ FHR+IP
Sbjct: 1 FLDITTNL---GRIVIELFGDEAPKTVENFLSLC----------KKGFYDGTIFHRVIPG 47
Query: 74 FMIQGGDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGG 133
FMIQGGD T G SI
Sbjct: 48 FMIQGGDPTGPGTGGKRSI----------------------------------------- 66
Query: 134 ESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQ 193
DE G LS+A +G PN+ SQFFITL PHLDG VFG V +
Sbjct: 67 --------PDEFVSKLKHKRGTLSMARSG-PNSAGSQFFITLGDAPHLDGGYTVFGRVVE 117
Query: 194 GFGVAREVSYVEAENDKPLVTCTITN 219
G V ++ VE + D+PL IT+
Sbjct: 118 GMDVVEKIEKVETDGDRPLKDVKITS 143
>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 = 132 bits (333), Expect = 4e-37
Identities = 72/197 (36%), Positives = 84/197 (42%), Gaps = 56/197 (28%)
Query: 24 VGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDITN 83
+G + IELF PK ENF ALC Y + G FHR I FM+Q GD T
Sbjct: 9 LGDIKIELFCDDCPKACENFLALCASGY----------YNGCIFHRNIKGFMVQTGDPTG 58
Query: 84 FNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPCFED 143
G GGESI+G FEDE F T
Sbjct: 59 -TGKGGESIWGKKFEDE---------------------------FRET------------ 78
Query: 144 ENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVAREVSY 203
LKH G +S+AN G PNTN SQFFIT A PHLDGK VFG V GF +
Sbjct: 79 ----LKHDSRGVVSMANNG-PNTNGSQFFITYAKQPHLDGKYTVFGKVIDGFETLDTLEK 133
Query: 204 VEAE-NDKPLVTCTITN 219
+ + +PL I +
Sbjct: 134 LPVDKKYRPLEEIRIKD 150
>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 = 124 bits (313), Expect = 2e-34
Identities = 70/193 (36%), Positives = 90/193 (46%), Gaps = 57/193 (29%)
Query: 21 EEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGD 80
E +G + +EL+ + PKT +NF L Y + G+ FHR+I FMIQGGD
Sbjct: 3 ETTMGEITLELYWNHAPKTCKNFYELAKRGY----------YNGTIFHRLIKDFMIQGGD 52
Query: 81 ITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPC 140
T G GG SIYG
Sbjct: 53 PTG---------------------------------------------TGRGGASIYGKK 67
Query: 141 FEDE-NFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVAR 199
FEDE + +LKH G LS+AN G PNTN SQFFITLAP P LDGK+ +FG V +G V
Sbjct: 68 FEDEIHPELKHTGAGILSMANAG-PNTNGSQFFITLAPTPWLDGKHTIFGRVSKGMKVIE 126
Query: 200 EVSYVEAENDKPL 212
+ V+ + D+P+
Sbjct: 127 NMVEVQTQTDRPI 139
>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 = 119 bits (300), Expect = 3e-32
Identities = 69/195 (35%), Positives = 80/195 (41%), Gaps = 58/195 (29%)
Query: 25 GRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDITNF 84
G + +EL PK ENF LC Y + G+ FHR I FMIQGGD T
Sbjct: 9 GDLNLELHCDKAPKACENFIKLCKKGY----------YDGTIFHRSIRNFMIQGGDPT-- 56
Query: 85 NGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDE 144
GTG GGESI+G F+DE
Sbjct: 57 -GTG------------------------------------------RGGESIWGKPFKDE 73
Query: 145 -NFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVAREVSY 203
L H G LS+AN+G PNTN SQFFIT C HLDGK+ VFG V G +
Sbjct: 74 FKPNLSHDGRGVLSMANSG-PNTNGSQFFITYRSCKHLDGKHTVFGRVVGGLETLEAMEN 132
Query: 204 VEAE-NDKPLVTCTI 217
V D+P I
Sbjct: 133 VPDPGTDRPKEEIKI 147
>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 = 116 bits (293), Expect = 2e-31
Identities = 61/127 (48%), Positives = 74/127 (58%), Gaps = 9/127 (7%)
Query: 100 ENFKLKVISQY-----FHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDE-NFKLKHKFE 153
ENF + Y FHR+I FMIQ GD T +GTGGESI+G FEDE + LKH
Sbjct: 23 ENFTTHARNGYYNNTIFHRVIKGFMIQTGDPTG-DGTGGESIWGKEFEDEFSPSLKHDRP 81
Query: 154 GQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCVRQGFGVAREVSYVEA-ENDKPL 212
LS+AN G PNTN SQFFIT P LD K+ VFG V +G V + + V+ +ND+P
Sbjct: 82 YTLSMANAG-PNTNGSQFFITTVATPWLDNKHTVFGRVVKGMDVVQRIENVKTDKNDRPY 140
Query: 213 VTCTITN 219
I N
Sbjct: 141 EDIKIIN 147
>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 = 99.7 bits (249), Expect = 7e-25
Identities = 40/82 (48%), Positives = 54/82 (65%), Gaps = 3/82 (3%)
Query: 111 FHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDE-NFKLKHKFEGQLSLANTGHPNTNNS 169
FHR++P F+IQGGD T GTGGESIYG F+DE + +L+ G + +AN G ++N S
Sbjct: 47 FHRVVPGFIIQGGDPTG-TGTGGESIYGEPFKDEFHSRLRFNRRGLVGMANAG-DDSNGS 104
Query: 170 QFFITLAPCPHLDGKNVVFGCV 191
QFF TL L+ K+ +FG V
Sbjct: 105 QFFFTLDKADELNNKHTLFGKV 126
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 93.0 bits (231), Expect = 1e-21
Identities = 62/214 (28%), Positives = 95/214 (44%), Gaps = 50/214 (23%)
Query: 13 VFLDVSIGEEKVGRMVIELFKHIVPKTAENFRALCTGEYG-KGKLGKALHFTGSRFHRII 71
FLD+SIG+ GR+V ELF+ +VP+T ENFRAL TG G G L + + H +
Sbjct: 55 AFLDISIGDVLAGRLVFELFEDVVPETVENFRALITGSCGIDTNTGVKLDYLYTPVHHV- 113
Query: 72 PQFMIQGGDITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGT 131
D N + V+ G++ +FN
Sbjct: 114 ---------------------------DRNNNIIVL---------------GELDSFN-- 129
Query: 132 GGESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKNVVFGCV 191
S G DE ++ +H G L++ + G P+T+ S F ITL P P LD K VVFG
Sbjct: 130 --VSSTGTPIADEGYRHRHTERGLLTMISEG-PHTSGSVFGITLGPSPSLDFKQVVFGKA 186
Query: 192 RQGFGVAREVSYVEAEN-DKPLVTCTITNSGQLS 224
+ ++ + ++ +PL+ T++ G L+
Sbjct: 187 VDDLSLLEKLESLPLDDVGRPLLPVTVSFCGALT 220
>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 = 72.4 bits (178), Expect = 4e-15
Identities = 59/201 (29%), Positives = 80/201 (39%), Gaps = 52/201 (25%)
Query: 21 EEKVGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGD 80
E +G +VI+LF P NF LC +Y + F+ + F+ Q GD
Sbjct: 3 ETTLGDLVIDLFTDECPLACLNFLKLCKLKY----------YNFCLFYNVQKDFIAQTGD 52
Query: 81 ITNFNGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPC 140
T G GGESIY G F
Sbjct: 53 PTG-TGAGGESIYSQ-------------------------LYGRQARF------------ 74
Query: 141 FEDE-NFKLKHKFEGQLSLANTGHPNTNNSQFFITLAP-CPHLDGKNVVFGCVRQGFGVA 198
FE E LKH +G +S+ N G N SQF+ITL +LDGK+ VFG V +GF V
Sbjct: 75 FEPEILPLLKHSKKGTVSMVNAGDNL-NGSQFYITLGENLDYLDGKHTVFGQVVEGFDVL 133
Query: 199 REVSYVEAEND-KPLVTCTIT 218
+++ ++D +PL I
Sbjct: 134 EKINDAIVDDDGRPLKDIRIK 154
>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 = 62.8 bits (153), Expect = 2e-12
Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 9/109 (8%)
Query: 272 NEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFKAYK 331
L ++ Y +A+ Y Y ++ A N+AA K Y+
Sbjct: 1 EALLNLGNLYYKLGDYDEALEY---YEKALEL------DPDNADAYYNLAAAYYKLGKYE 51
Query: 332 RAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPN 380
A+ + L ++P+N KA + G A + +E+ L+ YE+AL+L PN
Sbjct: 52 EALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 55.1 bits (133), Expect = 9e-10
Identities = 21/88 (23%), Positives = 43/88 (48%)
Query: 316 ALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQAL 375
ALLN+ + K Y A+ + L ++P+N A + A + +E+ L+DYE+AL
Sbjct: 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKAL 61
Query: 376 DLLPNDQQILKEIAFVRKQMRHHLNLEK 403
+L P++ + + ++ + +
Sbjct: 62 ELDPDNAKAYYNLGLAYYKLGKYEEALE 89
Score = 35.0 bits (81), Expect = 0.011
Identities = 11/41 (26%), Positives = 23/41 (56%)
Query: 349 KALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIA 389
+AL G + ++++ L+ YE+AL+L P++ +A
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLA 41
>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 = 55.9 bits (135), Expect = 2e-09
Identities = 46/189 (24%), Positives = 66/189 (34%), Gaps = 62/189 (32%)
Query: 25 GRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDITNF 84
G +V+EL+ P T ENF A KG + + FHR+I F+IQGG T
Sbjct: 7 GDIVVELYDDKAPITVENFLAYVR----KG------FYDNTIFHRVISGFVIQGGGFTP- 55
Query: 85 NGTGGESIYGPCFEDENFKLKVISQYFHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDE 144
E+ G
Sbjct: 56 ------------------------------------DLAQKETLKPIKNEAGNG------ 73
Query: 145 NFKLKHKFEGQLSLANTGHPNTNNSQFFITLAPCPHLDGKN-----VVFGCVRQGFGVAR 199
L + G +++A T P++ SQFFI L LD +N VFG V +G V
Sbjct: 74 ---LSNT-RGTIAMARTNAPDSATSQFFINLKDNASLDYQNEQWGYTVFGEVTEGMDVVD 129
Query: 200 EVSYVEAEN 208
+++ VE +
Sbjct: 130 KIAGVETYS 138
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 56.0 bits (135), Expect = 3e-09
Identities = 36/106 (33%), Positives = 51/106 (48%), Gaps = 8/106 (7%)
Query: 111 FHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQ 170
FHR+IP FMIQGG F + P ++E G +++A T ++ SQ
Sbjct: 70 FHRVIPGFMIQGG---GFTEQMQQKKPNPPIKNEADNGLRNTRGTIAMARTADKDSATSQ 126
Query: 171 FFITLAPCPHLD-GKN----VVFGCVRQGFGVAREVSYVEAENDKP 211
FFI +A LD G+ VFG V +G VA ++S V + P
Sbjct: 127 FFINVADNAFLDHGQRDFGYAVFGKVVKGMDVADKISQVPTHDVGP 172
Score = 35.6 bits (82), Expect = 0.022
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 24 VGRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDIT 82
G + +EL P + +NF + + + FHR+IP FMIQGG T
Sbjct: 37 AGNIELELNSQKAPVSVKNFVDYVNSGF----------YNNTTFHRVIPGFMIQGGGFT 85
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 51.5 bits (124), Expect = 8e-09
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 316 ALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMN-NFEQGLQDYEQA 374
AL N+ K Y AI + L ++P+N +A + A + + ++E+ L+D E+A
Sbjct: 5 ALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKA 64
Query: 375 LDLLP 379
L+L P
Sbjct: 65 LELDP 69
Score = 36.9 bits (86), Expect = 0.001
Identities = 12/53 (22%), Positives = 29/53 (54%)
Query: 346 NNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIAFVRKQMRHH 398
+N +AL G A + ++++ ++ YE+AL+L P++ + +A ++
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKD 53
>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 = 53.9 bits (130), Expect = 1e-07
Identities = 31/115 (26%), Positives = 50/115 (43%), Gaps = 16/115 (13%)
Query: 271 GNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFKAY 330
G Y L ++ AQ+ Y Q+ + + A L +A + L +
Sbjct: 132 GLAYLGLGQLELAQKSY----------EQALAIDPR------SLYAKLGLAQLALAENRF 175
Query: 331 KRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQIL 385
A L D++L +P NV AL +G +S+ N E L Y +A+ L PN+ +L
Sbjct: 176 DEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVL 230
Score = 41.6 bits (98), Expect = 8e-04
Identities = 17/80 (21%), Positives = 37/80 (46%)
Query: 317 LLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALD 376
L +A L K+A+ + ++ P++ +A GRAQ++ + + + +++ L
Sbjct: 570 ALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLA 629
Query: 377 LLPNDQQILKEIAFVRKQMR 396
L P+ L +A M+
Sbjct: 630 LQPDSALALLLLADAYAVMK 649
Score = 39.7 bits (93), Expect = 0.003
Identities = 29/133 (21%), Positives = 46/133 (34%), Gaps = 9/133 (6%)
Query: 257 LNQMEDVIRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAA 316
L I N+ L + ++++A + + K + A
Sbjct: 213 LAAYRKAIALRPNNIAVLLALATILIEAGEFEEA--------EKHADALLKKAPNSPLAH 264
Query: 317 LLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALD 376
L A V + K Y+ A D L P + AL G ++ + N EQ Q Q L
Sbjct: 265 YLK-ALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILK 323
Query: 377 LLPNDQQILKEIA 389
PN Q + +A
Sbjct: 324 YAPNSHQARRLLA 336
Score = 35.8 bits (83), Expect = 0.049
Identities = 14/67 (20%), Positives = 28/67 (41%), Gaps = 1/67 (1%)
Query: 315 AALLNMAAVQ-LKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQ 373
A L++ L +++A ++P N A + G +++S + + + D E
Sbjct: 363 PAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLET 422
Query: 374 ALDLLPN 380
A L P
Sbjct: 423 AAQLDPE 429
Score = 34.7 bits (80), Expect = 0.097
Identities = 21/118 (17%), Positives = 42/118 (35%), Gaps = 9/118 (7%)
Query: 269 NSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFK 328
+S L + + Y KA+ +K ++ + T A + +A + L K
Sbjct: 633 DSALALLLLADAYAVMKNYAKAITSLK-----RALELKPDN----TEAQIGLAQLLLAAK 683
Query: 329 AYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILK 386
+ A + + P G + ++ +Q Y +AL P+ Q +K
Sbjct: 684 RTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIK 741
Score = 32.7 bits (75), Expect = 0.36
Identities = 32/136 (23%), Positives = 53/136 (38%), Gaps = 12/136 (8%)
Query: 249 KSNPETVQLNQMEDVIRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKH 308
+ E V+ +E ++T N L ++ AQ+ Y KA IK Y K +
Sbjct: 750 GNTAEAVK--TLEAWLKTHPNDAVLRTALAELYLAQKDYDKA---IKHYQTV-VKKAPDN 803
Query: 309 FRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGL 368
L N+A + L+ K RA+ + L + PN L G V ++ L
Sbjct: 804 -----AVVLNNLAWLYLELKD-PRALEYAERALKLAPNIPAILDTLGWLLVEKGEADRAL 857
Query: 369 QDYEQALDLLPNDQQI 384
+A+++ P I
Sbjct: 858 PLLRKAVNIAPEAAAI 873
Score = 32.7 bits (75), Expect = 0.43
Identities = 18/91 (19%), Positives = 38/91 (41%), Gaps = 6/91 (6%)
Query: 297 YNQSQSKTQQKHFRSYYTA------ALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKA 350
Y + ++ A +A++QL+ AI L ++P++ A
Sbjct: 306 YQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAA 365
Query: 351 LFRRGRAQVSMNNFEQGLQDYEQALDLLPND 381
L G A +++ +FE+ + +A +L P +
Sbjct: 366 LSLLGEAYLALGDFEKAAEYLAKATELDPEN 396
Score = 32.4 bits (74), Expect = 0.48
Identities = 14/65 (21%), Positives = 24/65 (36%)
Query: 316 ALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQAL 375
ALL + L + A+ + + PNN+ L + FE+ + + L
Sbjct: 195 ALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEAEKHADALL 254
Query: 376 DLLPN 380
PN
Sbjct: 255 KKAPN 259
Score = 30.8 bits (70), Expect = 1.6
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 315 AALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQA 374
A L + QL +A++ +L ++P++ AL A M N+ + + ++A
Sbjct: 602 EAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRA 661
Query: 375 LDLLPN--DQQILK 386
L+L P+ + QI
Sbjct: 662 LELKPDNTEAQIGL 675
Score = 30.4 bits (69), Expect = 1.8
Identities = 22/122 (18%), Positives = 40/122 (32%), Gaps = 14/122 (11%)
Query: 277 LNRMHDAQRKYKKAVR-YIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFKAYKRAIN 335
L R A KAV + K Q ALL +A K Y +AI
Sbjct: 607 LGRAQLAAGDLNKAVSSFKKL-----LALQPDSA-----LALLLLADAYAVMKNYAKAIT 656
Query: 336 LCDDILLMEPNNVKALFRRGRAQVSMNNFEQGL---QDYEQALDLLPNDQQILKEIAFVR 392
L ++P+N +A + ++ E + ++ ++ ++ +
Sbjct: 657 SLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQ 716
Query: 393 KQ 394
K
Sbjct: 717 KD 718
Score = 30.4 bits (69), Expect = 2.1
Identities = 16/61 (26%), Positives = 31/61 (50%)
Query: 330 YKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIA 389
YK AI + L +PN+ +A F G+ +++ ++ ++ +AL L Q+L +A
Sbjct: 38 YKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKALSLGYPKNQVLPLLA 97
Query: 390 F 390
Sbjct: 98 R 98
Score = 30.4 bits (69), Expect = 2.2
Identities = 28/123 (22%), Positives = 45/123 (36%), Gaps = 13/123 (10%)
Query: 264 IRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAV 323
++ +S N KL+R A +AV K +A +
Sbjct: 730 LKRAPSSQN-AIKLHRALLASGNTAEAV---KTLEAWLKTHPNDAV------LRTALAEL 779
Query: 324 QLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFE-QGLQDYEQALDLLPNDQ 382
L K Y +AI ++ P+N L A + + + + L+ E+AL L PN
Sbjct: 780 YLAQKDYDKAIKHYQTVVKKAPDNAVVL--NNLAWLYLELKDPRALEYAERALKLAPNIP 837
Query: 383 QIL 385
IL
Sbjct: 838 AIL 840
Score = 29.3 bits (66), Expect = 5.1
Identities = 19/144 (13%), Positives = 54/144 (37%), Gaps = 17/144 (11%)
Query: 255 VQLNQMEDVIRTIKNSGNEYFK-------LNRMHDAQRKYKKAVRYIKWYNQSQSKTQQK 307
+ + E + K+ ++ K ++ Q+ Y A++ + + +Q
Sbjct: 680 LAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQ-- 737
Query: 308 HFRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQG 367
A L+ A + A A+ + L PN+ ++ ++++
Sbjct: 738 ------NAIKLHRALLASGNTA--EAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKA 789
Query: 368 LQDYEQALDLLPNDQQILKEIAFV 391
++ Y+ + P++ +L +A++
Sbjct: 790 IKHYQTVVKKAPDNAVVLNNLAWL 813
Score = 28.9 bits (65), Expect = 5.8
Identities = 23/151 (15%), Positives = 59/151 (39%), Gaps = 22/151 (14%)
Query: 256 QLNQMEDVIRTIK-------NSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKH 308
+ Q + + K ++ + + L ++ + KA + ++ +
Sbjct: 443 RSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREA---FEKAL-SIEPDF 498
Query: 309 FRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGL 368
F A N+A + ++ AI + +L ++P N++A+ + N E+ +
Sbjct: 499 F-----PAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAV 553
Query: 369 QDYEQALDLLPNDQQILKEIAFVRKQMRHHL 399
E+A +L P + + +A +++L
Sbjct: 554 AWLEKAAELNPQEIEPALALA------QYYL 578
>gnl|CDD|205550 pfam13371, TPR_9, Tetratricopeptide repeat.
Length = 73
Score = 44.1 bits (105), Expect = 4e-06
Identities = 16/69 (23%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 328 KAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKE 387
+ ++RA+ + + +LL+ P++ RG + F+ L D E L+L P+ +
Sbjct: 9 EDFERALAVVERLLLLAPDDPYERRDRGLLYAQLGCFQAALADLEYFLELCPDAPDAER- 67
Query: 388 IAFVRKQMR 396
+R+Q+
Sbjct: 68 ---IREQLA 73
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 43.4 bits (103), Expect = 5e-06
Identities = 15/64 (23%), Positives = 23/64 (35%)
Query: 318 LNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDL 377
L +A L+ Y A+ + L P +AL G A + + AL
Sbjct: 1 LALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAA 60
Query: 378 LPND 381
P+D
Sbjct: 61 DPDD 64
Score = 30.7 bits (70), Expect = 0.16
Identities = 8/47 (17%), Positives = 16/47 (34%)
Query: 352 FRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIAFVRKQMRHH 398
RA + ++++ L E AL P + L + +
Sbjct: 1 LALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRL 47
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 46.4 bits (108), Expect = 1e-05
Identities = 26/147 (17%), Positives = 60/147 (40%), Gaps = 8/147 (5%)
Query: 257 LNQMEDVIRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAA 316
+ ++ + L + +A +Y++A+ ++ K A
Sbjct: 153 YEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL--------KLNPDDDAEA 204
Query: 317 LLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALD 376
LLN+ + LK Y+ A+ + L ++P+N +AL+ + + +E+ L+ E+AL+
Sbjct: 205 LLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE 264
Query: 377 LLPNDQQILKEIAFVRKQMRHHLNLEK 403
L P+ + + + + L
Sbjct: 265 LDPDLYNLGLALLLLLAEALELLEKAD 291
Score = 30.2 bits (66), Expect = 1.8
Identities = 19/128 (14%), Positives = 46/128 (35%), Gaps = 12/128 (9%)
Query: 251 NPETVQLNQMEDVIRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFR 310
+ +E + + + + + + + +A+ ++ + +
Sbjct: 3 DLLLALAILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLL 62
Query: 311 SYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQD 370
ALL + ++ + ++A+ L + PN +AL G + L
Sbjct: 63 LLLALALLKLGRLEEALELLEKALEL-----ELLPNLAEALLNLGLL-------LEALGK 110
Query: 371 YEQALDLL 378
YE+AL+LL
Sbjct: 111 YEEALELL 118
>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 = 44.7 bits (106), Expect = 2e-05
Identities = 51/191 (26%), Positives = 73/191 (38%), Gaps = 49/191 (25%)
Query: 25 GRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGGDITNF 84
G + I L + P TA NF L +G + G FHR+ F++Q GD
Sbjct: 7 GTITIVLDGYNAPVTAGNFVDLVE----RG------FYDGMEFHRVEGGFVVQTGD---- 52
Query: 85 NGTGGESIYGPCFEDENFKLKVISQYFHRIIP-QFMIQGGDITNFNGTGGESIYGPCFE- 142
G++ P E R IP + +G + +YG E
Sbjct: 53 --PQGKNPGFPDPETGKS----------RTIPLEIKPEGQ---------KQPVYGKTLEE 91
Query: 143 ----DENFKLKHKFEGQLSLANTGH-PNTNNSQFFITL-------APCPHLDGKNVVFGC 190
DE L G +++A T PN+ +SQFF L + LDG+ VFG
Sbjct: 92 AGRYDEQPVLPFNAFGAIAMARTEFDPNSASSQFFFLLKDNELTPSRNNVLDGRYAVFGY 151
Query: 191 VRQGFGVAREV 201
V G + RE+
Sbjct: 152 VTDGLDILREL 162
>gnl|CDD|226687 COG4235, COG4235, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 287
Score = 43.5 bits (103), Expect = 1e-04
Identities = 32/159 (20%), Positives = 55/159 (34%), Gaps = 26/159 (16%)
Query: 251 NPETVQ--LNQMEDVIRTIKNSGNE-------YFKLNRMHDAQRKYKKAVRYIKWYNQSQ 301
+ ++ + ++E ++ Y L R DA Y+ A+R + +
Sbjct: 134 AEQEMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG--DNPE 191
Query: 302 SKTQQKHFRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSM 361
AL A Q+ K A L L ++P N++AL A
Sbjct: 192 ILLG-------LAEALYYQAGQQMTAK----ARALLRQALALDPANIRALSLLAFAAFEQ 240
Query: 362 NNFEQGLQDYEQALDLLPND----QQILKEIAFVRKQMR 396
++ + ++ LDLLP D I + IA Q
Sbjct: 241 GDYAEAAAAWQMLLDLLPADDPRRSLIERSIARALAQRS 279
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 38.6 bits (91), Expect = 1e-04
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPND 381
KAL+ G A + + +++ L+ YE+AL+L PN+
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B (rotamase
B); Provisional.
Length = 164
Score = 41.4 bits (97), Expect = 2e-04
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 111 FHRIIPQFMIQGGDITNFNGTGGESIYGPCFEDENFKLKHKFEGQLSLANTGHPNTNNSQ 170
FHR+I FMIQGG G ++ P + N LK+ G L++A T P++ +Q
Sbjct: 41 FHRVINGFMIQGGGFE--PGMKQKATKEPIKNEANNGLKNT-RGTLAMARTQAPHSATAQ 97
Query: 171 FFITLA 176
FFI +
Sbjct: 98 FFINVV 103
Score = 37.9 bits (88), Expect = 0.003
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 25 GRMVIELFKHIVPKTAENFRALCTGEYGKGKLGKALHFTGSRFHRIIPQFMIQGG 79
G +VI+ F P+T +NF C + + + FHR+I FMIQGG
Sbjct: 9 GDIVIKTFDDKAPETVKNFLDYCREGF----------YNNTIFHRVINGFMIQGG 53
>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 = 37.4 bits (88), Expect = 4e-04
Identities = 12/34 (35%), Positives = 24/34 (70%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPND 381
+AL+ G A + + ++++ L+ YE+AL+L PN+
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
>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 = 36.0 bits (84), Expect = 0.001
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPND 381
+AL+ G A + ++E+ L+ YE+AL+L PN+
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 36.6 bits (85), Expect = 0.002
Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 310 RSYYTAALLNMAAVQLKFKAYKRAINLCDDILLME-------PNNVKALFRRGRAQVSMN 362
AAL N+A V + Y A+ L + L + P +AL R +++
Sbjct: 1 HPDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALG 60
Query: 363 NFEQGLQDYEQALDLLPN 380
++++ L+ E+AL L
Sbjct: 61 DYDEALEYLEKALALREA 78
Score = 28.5 bits (64), Expect = 1.2
Identities = 15/77 (19%), Positives = 25/77 (32%), Gaps = 11/77 (14%)
Query: 261 EDVIRTIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTA-ALLN 319
D+ + N +L +A +KA+ + TA AL N
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELAREL----------GEDHPETARALNN 51
Query: 320 MAAVQLKFKAYKRAINL 336
+A + L Y A+
Sbjct: 52 LARLYLALGDYDEALEY 68
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 33.3 bits (76), Expect = 0.014
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIA 389
AL RA +++ + ++ L +AL L P+D + L +A
Sbjct: 1 PAALLALARALLALGDLDEALALLRRALALDPDDPEALLLLA 42
Score = 31.8 bits (72), Expect = 0.039
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 315 AALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRA 357
AALL +A L A+ L L ++P++ +AL R
Sbjct: 2 AALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|225523 COG2976, COG2976, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 207
Score = 35.1 bits (81), Expect = 0.039
Identities = 30/145 (20%), Positives = 57/145 (39%), Gaps = 22/145 (15%)
Query: 249 KSNPETVQLNQMEDVIRTIKNSGNEYFKLNRMHDAQR-----KYKKAVRYIKWYNQSQSK 303
KS + Q N Y L + A+ KA +K + ++
Sbjct: 70 KSIAAAEKFVQ--------ANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQ---ALAQ 118
Query: 304 TQQKHFRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNN 363
T+ ++ ++ A L +A VQL+ K A+ D I + A RG ++ +
Sbjct: 119 TKDENLKA---LAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAE-LRGDILLAKGD 174
Query: 364 FEQGLQDYEQALDLLPND--QQILK 386
++ YE+AL+ + ++IL+
Sbjct: 175 KQEARAAYEKALESDASPAAREILQ 199
>gnl|CDD|233924 TIGR02552, LcrH_SycD, type III secretion low calcium response
chaperone LcrH/SycD. Genes in this family are found in
type III secretion operons. LcrH, from Yersinia is
believed to have a regulatory function in the
low-calcium response of the secretion system. The same
protein is also known as SycD (SYC = Specific Yop
Chaperone) for its chaperone role. In Pseudomonas, where
the homolog is known as PcrH, the chaperone role has
been demonstrated and the regulatory role appears to be
absent. ScyD/LcrH contains three central
tetratricopeptide-like repeats that are predicted to
fold into an all-alpha-helical array.
Length = 135
Score = 32.7 bits (75), Expect = 0.15
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 308 HFRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQG 367
+ S Y L AA K Y+ AI+ ++P++ + F +++ E
Sbjct: 48 PYNSRYWLGL---AACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESA 104
Query: 368 LQDYEQALDLLPNDQQ--ILKEIA 389
L+ + A+++ + + LKE A
Sbjct: 105 LKALDLAIEICGENPEYSELKERA 128
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 29.4 bits (67), Expect = 0.24
Identities = 6/33 (18%), Positives = 16/33 (48%)
Query: 349 KALFRRGRAQVSMNNFEQGLQDYEQALDLLPND 381
AL++ A + + + ++ + E+ L P+
Sbjct: 1 DALYKLALAYLKLGDTDEAKEALERLLKRYPDS 33
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 29.4 bits (67), Expect = 0.28
Identities = 10/33 (30%), Positives = 21/33 (63%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPN 380
+A + G+ + + ++E+ + YE+AL+L PN
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALELDPN 33
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 32.8 bits (75), Expect = 0.34
Identities = 20/127 (15%), Positives = 41/127 (32%), Gaps = 26/127 (20%)
Query: 274 YFKLNRMHDAQRKYKKAVR-----YIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFK 328
+ N+ +A + KKA+ + N +Q ALL
Sbjct: 350 LLEANKAKEAIERLKKALALDPNSPLLQLNLAQ--------------ALLKG-------G 388
Query: 329 AYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEI 388
+ AI + + L +P + +A + N + L + L +Q + +
Sbjct: 389 KPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFL 448
Query: 389 AFVRKQM 395
+Q+
Sbjct: 449 MRASQQV 455
Score = 31.6 bits (72), Expect = 0.84
Identities = 16/68 (23%), Positives = 28/68 (41%)
Query: 313 YTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYE 372
AA A Y A+ L ++ +P+N L G + N ++ ++ +
Sbjct: 305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLK 364
Query: 373 QALDLLPN 380
+AL L PN
Sbjct: 365 KALALDPN 372
>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 = 32.7 bits (74), Expect = 0.41
Identities = 14/67 (20%), Positives = 30/67 (44%)
Query: 314 TAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQ 373
T + + A++ L+ +A D L + + + R + F Q +DY++
Sbjct: 365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQK 424
Query: 374 ALDLLPN 380
++DL P+
Sbjct: 425 SIDLDPD 431
Score = 32.3 bits (73), Expect = 0.48
Identities = 21/105 (20%), Positives = 40/105 (38%), Gaps = 17/105 (16%)
Query: 267 IKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLK 326
+K GN+ ++ + + KA++ + K YY+ N AA
Sbjct: 130 LKEKGNKAYR-------NKDFNKAIKLYSK------AIECKPDPVYYS----NRAACHNA 172
Query: 327 FKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDY 371
+++ + L ++P+ KAL RR A + + L D
Sbjct: 173 LGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDL 217
>gnl|CDD|219095 pfam06585, JHBP, Haemolymph juvenile hormone binding protein
(JHBP). This family consists of several insect-specific
haemolymph juvenile hormone binding proteins (JHBP).
Juvenile hormone regulates embryogenesis, maintains the
status quo of larval development and stimulates
reproductive maturation in the adult insect. JH is
transported from the sites of its synthesis to target
tissues by a haemolymph carrier called juvenile
hormone-binding protein (JHBP). JHBP protects the JH
molecules from hydrolysis by non-specific esterases
present in the insect haemolymph. The crystal structure
of the JHBP from Galleria mellonella shows an unusual
fold consisting of a long alpha-helix wrapped in a much
curved antiparallel beta-sheet. The folding pattern for
this structure closely resembles that found in some
tandem-repeat mammalian lipid-binding and bactericidal
permeability-increasing proteins, with a similar
organisation of the major cavity and a disulfide bond
linking the long helix and the beta-sheet. It would
appear that JHBP forms two cavities, only one of which,
the one near the N- and C-termini, binds the hormone;
binding induces a conformational change, of unknown
significance. This family now includes DUF233,
pfam03027.
Length = 246
Score = 31.2 bits (71), Expect = 0.74
Identities = 22/109 (20%), Positives = 45/109 (41%), Gaps = 15/109 (13%)
Query: 312 YYTAALLNM-AAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQD 370
+ L N+ A +LK + Y+R D ++ +K G + + N G ++
Sbjct: 143 DFNLTLENVKATGKLKGRLYER-----DGKTYLKVTKLKVEIDVGDVKFDLENLFNGNKE 197
Query: 371 YEQALDLLPND--QQILKEIA-----FVRKQMRHHLN--LEKMTYARMF 410
A++ N+ +++L E+ + K LN +K+ Y +F
Sbjct: 198 LGDAMNKFINENWKELLNELKPAIEEALEKIFVDILNKIFKKVPYDDLF 246
>gnl|CDD|185750 cd09237, V_ScBro1_like, Protein-interacting V-domain of
Saccharomyces cerevisiae Bro1 and related domains. This
family contains the V-shaped (V) domain of Saccharomyces
cerevisiae Bro1, and related domains. It belongs to the
V_Alix_like superfamily which also includes the V-domain
of Saccharomyces cerevisiae Rim20 (also known as PalA),
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), and related
domains. Bro1 interacts with the ESCRT (Endosomal
Sorting Complexes Required for Transport) system, and
participates in endosomal trafficking. The mammalian
Alix V-domain (belonging to a different family) contains
a binding site, partially conserved in the superfamily,
for the retroviral late assembly (L) domain YPXnL motif.
The Alix V-domain is also a dimerization domain. Bro1
also has an N-terminal Bro1-like domain, which binds
Snf7, a component of the ESCRT-III complex, and a
C-terminal proline-rich region (PRR). The C-terminal
portion (V-domain and PRR) of S. cerevisiae Bro1
interacts with Doa4, a ubiquitin thiolesterase needed to
remove ubiquitin from MVB cargoes. It interacts with a
YPxL motif in the Doa4s catalytic domain to stimulate
its deubiquitination activity.
Length = 356
Score = 31.5 bits (72), Expect = 0.89
Identities = 19/91 (20%), Positives = 32/91 (35%), Gaps = 15/91 (16%)
Query: 234 NDGSQDVYPP--FPEDW-KSNPETVQL----NQMEDVIRTIKNSGNEYFKLNRMHDAQRK 286
N S+ FPE+ K P +L + +I +K ++ FKL + + Q K
Sbjct: 240 NSKSKSEIEKQLFPEELEKFKPLQNRLEATIFKQSSLINELKIELDKLFKLPGVKEKQSK 299
Query: 287 YKKAVRYIKWYNQSQSKTQQKHFRSYYTAAL 317
K Q K + + Y +
Sbjct: 300 EKSK--------QKLRKEFFEKLKKAYNSFK 322
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 27.5 bits (62), Expect = 1.2
Identities = 9/41 (21%), Positives = 21/41 (51%), Gaps = 7/41 (17%)
Query: 329 AYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQ 369
Y++A+ L +PNN +A + +++ +++ LQ
Sbjct: 1 LYEKALEL-------DPNNAEAYYNLALLLLNLGQYDEALQ 34
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 30.9 bits (70), Expect = 1.2
Identities = 13/50 (26%), Positives = 28/50 (56%)
Query: 330 YKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLP 379
+ A++L + ++PNN + R +A + + NF + + D +A++L P
Sbjct: 18 FALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDP 67
>gnl|CDD|234164 TIGR03302, OM_YfiO, outer membrane assembly lipoprotein YfiO.
Members of this protein family include YfiO, a
near-essential protein of the outer membrane, part of a
complex involved in protein insertion into the bacterial
outer membrane. Many proteins in this family are
annotated as ComL, based on the involvement of this
protein in natural transformation with exogenous DNA in
Neisseria gonorrhoeae. This protein family shows
sequence similarity to, but is distinct from, the
tol-pal system protein YbgF (TIGR02795) [Protein fate,
Protein and peptide secretion and trafficking].
Length = 235
Score = 30.2 bits (69), Expect = 1.6
Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 16/87 (18%)
Query: 284 QRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTA-ALLNMAAVQLKFKAYKRAINLCDDILL 342
Y +A++Y + + ++ S Y A L++A K Y AI D +
Sbjct: 46 SGDYTEAIKYFE-------ALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIR 98
Query: 343 MEPNNVK---ALFRRGRAQVSMNNFEQ 366
+ PN+ A + RG ++N+ Q
Sbjct: 99 LHPNHPDADYAYYLRG-----LSNYNQ 120
>gnl|CDD|226428 COG3914, Spy, Predicted O-linked N-acetylglucosamine transferase,
SPINDLY family [Posttranslational modification, protein
turnover, chaperones].
Length = 620
Score = 30.5 bits (69), Expect = 1.9
Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 6/80 (7%)
Query: 321 AAVQLKFKAYKRAINLCDDILLMEPNNVKALFRR------GRAQVSMNNFEQGLQDYEQA 374
AA++L + ++ + + P+N + L GR + + E+A
Sbjct: 109 AALELDGLQFLALADISEIAEWLSPDNAEFLGHLIRFYQLGRYLKLLGRTAEAELALERA 168
Query: 375 LDLLPNDQQILKEIAFVRKQ 394
+DLLP ++L + R++
Sbjct: 169 VDLLPKYPRVLGALMTARQE 188
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 30.1 bits (68), Expect = 2.1
Identities = 14/60 (23%), Positives = 28/60 (46%)
Query: 330 YKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIA 389
+ A+++ + P + +A G A + F++ + Y QAL+L PN+ I +
Sbjct: 116 FGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLG 175
>gnl|CDD|239630 cd03575, NTR_WFIKKN, NTR domain, WFIKKN subfamily; WFIKKN proteins
contain a C-terminal NTR domain and are putative
secreted proteins which may be multivalent protease
inhibitors that act on serine proteases as well as
metalloproteases. Human WFIKKN and a related protein
sharing the same domain architecture were observed to
have distinct tissue expression patterns. WFIKKN is also
referred to as growth and differentiation
factor-associated serum protein-1 (GASP-1). It inhibits
the activity of mature myostatin, a specific regulator
of skeletal muscle mass and a member of the TGFbeta
superfamily.
Length = 109
Score = 28.5 bits (64), Expect = 2.3
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 177 PCPH---LDGKNVVFGCVRQGFGVAREVSYVEAENDK 210
PCP+ +G ++ G V G V + SYV A +++
Sbjct: 62 PCPNITAGEGPLIIMGDVHDGMAVLQPDSYVRASSER 98
>gnl|CDD|117609 pfam09043, Lys-AminoMut_A, D-Lysine 5,6-aminomutase alpha subunit.
Members of his family are involved in the 1,2
rearrangement of the terminal amino group of DL-lysine
and of L-beta-lysine, using adenosylcobalamin (AdoCbl)
and pyridoxal-5'-phosphate as cofactors. The structure
is predominantly a PLP-binding TIM barrel domain, with
several additional alpha-helices and beta-strands at the
N and C termini. These helices and strands form an
intertwined accessory clamp structure that wraps around
the sides of the TIM barrel and extends up toward the
Ado ligand of the Cbl cofactor, providing most of the
interactions observed between the protein and the Ado
ligand of the Cbl, suggesting that its role is mainly in
stabilising AdoCbl in the precatalytic resting state.
Length = 509
Score = 29.7 bits (67), Expect = 3.1
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 90 ESIYGPCFEDENFKLKVISQYFHRIIPQF 118
+++YG F D N + +I Q+F RII F
Sbjct: 256 DALYGILFRDINMQRTLIDQFFSRIINGF 284
>gnl|CDD|217492 pfam03321, GH3, GH3 auxin-responsive promoter.
Length = 513
Score = 29.5 bits (67), Expect = 3.2
Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 246 EDWKSNPETVQLNQMEDVIRTIKNSGNEY---FKLNRMHDAQRKYKKAV 291
E + SN VQ + +++ +N+ EY + + + +KK V
Sbjct: 7 ELFTSNAVEVQEEVLREILE--RNADTEYGKKYGFSGITSY-DDFKKRV 52
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 29.3 bits (66), Expect = 4.2
Identities = 24/138 (17%), Positives = 56/138 (40%), Gaps = 19/138 (13%)
Query: 280 MHDAQRKYKKAVRYIKWYNQSQSKTQQKHFRSYYTAALLNMAAVQLKFKAYKRAINLCDD 339
++ A R+++KA+ + + +T + +Y +A L RA L
Sbjct: 150 IYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYC----ELAQQALASSDVDRARELLKK 205
Query: 340 ILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQAL----DLLPNDQQILKE-------- 387
L + V+A GR +++ ++++ ++ E+ L + L ++L E
Sbjct: 206 ALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP 265
Query: 388 ---IAFVRKQMRHHLNLE 402
+ F+R+ M + +
Sbjct: 266 AEGLNFLRRAMETNTGAD 283
>gnl|CDD|223663 COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport
and metabolism / Translation, ribosomal structure and
biogenesis].
Length = 152
Score = 28.4 bits (64), Expect = 4.6
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 7/42 (16%)
Query: 162 GHPNTNNSQFFITLAPCP-------HLDGKNVVFGCVRQGFG 196
G+ + ++TL PCP VV+G G
Sbjct: 72 GNYRLKDCTLYVTLEPCPMCAGAIIWARIDRVVYGASDPKTG 113
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 29.3 bits (66), Expect = 4.9
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 9/63 (14%)
Query: 330 YKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIA 389
Y +AI + L ++P+ R RAQ M E Q ++Q L+ LP ++ +++
Sbjct: 1208 YLQAIEKRLEKLAVDPH-------RDRAQ--MLKVESVQQAWQQWLNKLPPARREDEDVK 1258
Query: 390 FVR 392
+R
Sbjct: 1259 EIR 1261
>gnl|CDD|218484 pfam05185, PRMT5, PRMT5 arginine-N-methyltransferase. The human
homologue of yeast Skb1 (Shk1 kinase-binding protein 1)
is PRMT5, an arginine-N-methyltransferase. These
proteins appear to be key mitotic regulators. They play
a role in Jak signalling in higher eukaryotes.
Length = 445
Score = 28.8 bits (65), Expect = 5.4
Identities = 16/59 (27%), Positives = 20/59 (33%), Gaps = 18/59 (30%)
Query: 348 VKALFRRGRAQVSMNNFEQGLQDYEQALDLLPNDQQILKEIAFVRKQMRHHLNLEKMTY 406
+K L ++ FE G +DY QA L P NLE TY
Sbjct: 113 LKYLLKKQPPLSEQEKFESGYEDYLQA-PLQP-----------------LSDNLESQTY 153
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 28.6 bits (64), Expect = 7.4
Identities = 23/153 (15%), Positives = 49/153 (32%), Gaps = 9/153 (5%)
Query: 251 NPETVQLNQMEDVIR---TIKNSGNEYFKLNRMHDAQRKYKKAVRYIKWYNQSQSKTQQK 307
+P V LN D + ++GN + + +K+ + Y Y K K
Sbjct: 84 SPSLVTLNNSNDNLDYIDVSDDNGNLISSVYPHYVNIYYFKEMIHYATSYYDDLKKYSDK 143
Query: 308 HFRSYYTAALLNMAAVQLKFKAYKRAINLCDDILLMEPNNVKALFRRGRAQVSMNNFEQG 367
+ + N D+++++ N K R+ N ++
Sbjct: 144 INEDVEPL----NEEIIKNIEQCLGNKNDLDNLIIVLENPEKYNVRKTLYDEKFNEYKNK 199
Query: 368 LQDYEQALDLLPNDQQILKEIAFVRKQMRHHLN 400
+ + L + K+I + ++R L
Sbjct: 200 KEAFYNC--LKNKKEDYDKKIKKINNEIRKLLK 230
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 28.1 bits (62), Expect = 9.0
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 367 GLQDYEQALDLLPNDQQILKEIAFVRKQMRHHLNLEKMTYARMF 410
GL D + LDL ++Q +A + ++ ++EK+ + RMF
Sbjct: 15 GLADAGELLDLAESEQDEDTALAVIADLDKYQAHVEKLEFQRMF 58
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 0.137 0.413
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: 21,106,659
Number of extensions: 2049583
Number of successful extensions: 1804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1742
Number of HSP's successfully gapped: 100
Length of query: 414
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 315
Effective length of database: 6,546,556
Effective search space: 2062165140
Effective search space used: 2062165140
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 (26.6 bits)