RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3726
(127 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 = 176 bits (448), Expect = 6e-58
Identities = 71/130 (54%), Positives = 89/130 (68%), Gaps = 4/130 (3%)
Query: 2 YFDLNYNGFHEGRIIVGLFGKDVPKTVENFKTLAT----VGVENKTYIGTKFHRIVKNFV 57
+FD+ G GRI++ LF VPKT ENF+ L T G + Y G+ FHR++ +F+
Sbjct: 4 FFDITIGGEPAGRIVMELFADVVPKTAENFRALCTGEKGKGGKPFGYKGSTFHRVIPDFM 63
Query: 58 LQGGDVVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPW 117
+QGGD +G G SIYG+KF DENFK+KHTG G +SMAN+GPN+NG QFFIT TPW
Sbjct: 64 IQGGDFTRGNGTGGKSIYGEKFPDENFKLKHTGPGLLSMANAGPNTNGSQFFITTVKTPW 123
Query: 118 LDGHHTVFGK 127
LDG H VFGK
Sbjct: 124 LDGKHVVFGK 133
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 153 bits (387), Expect = 2e-48
Identities = 69/132 (52%), Positives = 87/132 (65%), Gaps = 6/132 (4%)
Query: 1 MYFDLNYNGFHEGRIIVGLFGKDVPKTVENFKTLATVGVENKT-----YIGTKFHRIVKN 55
++FD+ G GRI + LF PKT ENF+ T G K Y G +FHR++K+
Sbjct: 21 VFFDVTIGGIPAGRIKMELFADIAPKTAENFRQFCT-GEFRKAGLPQGYKGCQFHRVIKD 79
Query: 56 FVLQGGDVVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANSGPNSNGCQFFITMSAT 115
F++QGGD + DG G +SIYG KF+DENF KHTG G +SMANSGPN+NGCQFFIT +
Sbjct: 80 FMIQGGDFLKGDGTGCVSIYGSKFEDENFIAKHTGPGLLSMANSGPNTNGCQFFITCAKC 139
Query: 116 PWLDGHHTVFGK 127
WLD H VFG+
Sbjct: 140 DWLDNKHVVFGR 151
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 151 bits (382), Expect = 9e-48
Identities = 68/132 (51%), Positives = 85/132 (64%), Gaps = 5/132 (3%)
Query: 1 MYFDLNYNGFHEGRIIVGLFGKDVPKTVENFKTLAT---VGVENKT--YIGTKFHRIVKN 55
++FD++ + GRI+ LF PKT ENF+ L VG K Y G+ FHRI+
Sbjct: 18 VFFDISIDNAPAGRIVFELFSDVTPKTAENFRALCIGDKVGSSGKNLHYKGSIFHRIIPQ 77
Query: 56 FVLQGGDVVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANSGPNSNGCQFFITMSAT 115
F+ QGGD+ ++G G SIYG KF DENFK+KH G +SMAN+GPN+NG QFFIT
Sbjct: 78 FMCQGGDITNHNGTGGESIYGRKFTDENFKLKHDQPGLLSMANAGPNTNGSQFFITTVPC 137
Query: 116 PWLDGHHTVFGK 127
PWLDG H VFGK
Sbjct: 138 PWLDGKHVVFGK 149
>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 = 141 bits (357), Expect = 3e-44
Identities = 63/116 (54%), Positives = 77/116 (66%), Gaps = 7/116 (6%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
GRI++ L+G + PKTVENF +LA Y GT FHR++ F++QGGD G GS
Sbjct: 7 GRIVIELYGDEAPKTVENFLSLA----RGGFYDGTTFHRVIPGFMIQGGDPTGTGGGGSG 62
Query: 73 SIYGDKFDDENFKIK-HTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
G KF DENF +K H G +SMAN+GPN+NG QFFIT + TP LDG HTVFGK
Sbjct: 63 --PGYKFPDENFPLKYHHRRGTLSMANAGPNTNGSQFFITTAPTPHLDGKHTVFGK 116
>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 = 136 bits (345), Expect = 1e-42
Identities = 55/126 (43%), Positives = 70/126 (55%), Gaps = 12/126 (9%)
Query: 2 YFDLNYNGFHEGRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGG 61
+ D+ N GRI++ LFG + PKTVENF +L + Y GT FHR++ F++QGG
Sbjct: 1 FLDITTN---LGRIVIELFGDEAPKTVENFLSL----CKKGFYDGTIFHRVIPGFMIQGG 53
Query: 62 DVVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGH 121
D G SI DE G +SMA SGPNS G QFFIT+ P LDG
Sbjct: 54 DPTGPGTGGKRSI-----PDEFVSKLKHKRGTLSMARSGPNSAGSQFFITLGDAPHLDGG 108
Query: 122 HTVFGK 127
+TVFG+
Sbjct: 109 YTVFGR 114
>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 = 136 bits (344), Expect = 2e-42
Identities = 64/116 (55%), Positives = 83/116 (71%), Gaps = 6/116 (5%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I + L+ PKT +NF LA G Y GT FHR++K+F++QGGD GRG
Sbjct: 7 GEITLELYWNHAPKTCKNFYELAKRGY----YNGTIFHRLIKDFMIQGGDPTGT-GRGGA 61
Query: 73 SIYGDKFDDE-NFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
SIYG KF+DE + ++KHTGAG +SMAN+GPN+NG QFFIT++ TPWLDG HT+FG+
Sbjct: 62 SIYGKKFEDEIHPELKHTGAGILSMANAGPNTNGSQFFITLAPTPWLDGKHTIFGR 117
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 132 bits (335), Expect = 6e-41
Identities = 53/118 (44%), Positives = 67/118 (56%), Gaps = 10/118 (8%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I + L+ PKTV NF L V+ Y GT FHR++ F++QGGD DG G
Sbjct: 9 GDITIELYPDKAPKTVANFLQL----VKEGFYDGTIFHRVIPGFMIQGGDPTGGDGTGGP 64
Query: 73 SIYGDKFDDENFKIKH--TGAGFVSMANSG-PNSNGCQFFITMSATPWLDGHHTVFGK 127
F DENF + G +SMA +G PNSNG QFFIT+ P+LDG +TVFG+
Sbjct: 65 GP---PFKDENFALNGDRHKRGTLSMARAGDPNSNGSQFFITVVDNPFLDGKYTVFGQ 119
>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 = 121 bits (305), Expect = 2e-36
Identities = 60/116 (51%), Positives = 76/116 (65%), Gaps = 6/116 (5%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I + LF ++ PKTVENF T A N Y T FHR++K F++Q GD DG G
Sbjct: 7 GDIHIRLFPEEAPKTVENFTTHA----RNGYYNNTIFHRVIKGFMIQTGDPT-GDGTGGE 61
Query: 73 SIYGDKFDDE-NFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
SI+G +F+DE + +KH +SMAN+GPN+NG QFFIT ATPWLD HTVFG+
Sbjct: 62 SIWGKEFEDEFSPSLKHDRPYTLSMANAGPNTNGSQFFITTVATPWLDNKHTVFGR 117
>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 = 117 bits (296), Expect = 5e-35
Identities = 58/116 (50%), Positives = 71/116 (61%), Gaps = 6/116 (5%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I + LF D PK ENF L G Y G FHR +K F++Q GD G+G
Sbjct: 10 GDIKIELFCDDCPKACENFLALCASG----YYNGCIFHRNIKGFMVQTGDPT-GTGKGGE 64
Query: 73 SIYGDKFDDENFK-IKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
SI+G KF+DE + +KH G VSMAN+GPN+NG QFFIT + P LDG +TVFGK
Sbjct: 65 SIWGKKFEDEFRETLKHDSRGVVSMANNGPNTNGSQFFITYAKQPHLDGKYTVFGK 120
>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 = 115 bits (289), Expect = 6e-34
Identities = 55/116 (47%), Positives = 68/116 (58%), Gaps = 6/116 (5%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G + + L PK ENF L + Y GT FHR ++NF++QGGD GRG
Sbjct: 9 GDLNLELHCDKAPKACENFIKLC----KKGYYDGTIFHRSIRNFMIQGGDPT-GTGRGGE 63
Query: 73 SIYGDKFDDE-NFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
SI+G F DE + H G G +SMANSGPN+NG QFFIT + LDG HTVFG+
Sbjct: 64 SIWGKPFKDEFKPNLSHDGRGVLSMANSGPNTNGSQFFITYRSCKHLDGKHTVFGR 119
>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 = 110 bits (277), Expect = 7e-32
Identities = 49/116 (42%), Positives = 65/116 (56%), Gaps = 6/116 (5%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I + L+ K+ PK NF L G Y T FHR+V F++QGGD G G
Sbjct: 15 GDIDIELWSKEAPKACRNFIQLCLEGY----YDNTIFHRVVPGFIIQGGDPT-GTGTGGE 69
Query: 73 SIYGDKFDDE-NFKIKHTGAGFVSMANSGPNSNGCQFFITMSATPWLDGHHTVFGK 127
SIYG+ F DE + +++ G V MAN+G +SNG QFF T+ L+ HT+FGK
Sbjct: 70 SIYGEPFKDEFHSRLRFNRRGLVGMANAGDDSNGSQFFFTLDKADELNNKHTLFGK 125
>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 = 82.8 bits (205), Expect = 4e-21
Identities = 45/125 (36%), Positives = 62/125 (49%), Gaps = 14/125 (11%)
Query: 12 EGRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGS 71
G +++ LF + P NF L + K Y F+ + K+F+ Q GD G G
Sbjct: 6 LGDLVIDLFTDECPLACLNFLKLCKL----KYYNFCLFYNVQKDFIAQTGDPTGT-GAGG 60
Query: 72 ISIYGDK-------FDDE-NFKIKHTGAGFVSMANSGPNSNGCQFFITMS-ATPWLDGHH 122
SIY F+ E +KH+ G VSM N+G N NG QF+IT+ +LDG H
Sbjct: 61 ESIYSQLYGRQARFFEPEILPLLKHSKKGTVSMVNAGDNLNGSQFYITLGENLDYLDGKH 120
Query: 123 TVFGK 127
TVFG+
Sbjct: 121 TVFGQ 125
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 81.5 bits (201), Expect = 7e-20
Identities = 43/135 (31%), Positives = 69/135 (51%), Gaps = 14/135 (10%)
Query: 2 YFDLNYNGFHEGRIIVGLFGKDVPKTVENFKTLAT--VGVENKT-----YIGTKFHRI-- 52
+ D++ GR++ LF VP+TVENF+ L T G++ T Y+ T H +
Sbjct: 56 FLDISIGDVLAGRLVFELFEDVVPETVENFRALITGSCGIDTNTGVKLDYLYTPVHHVDR 115
Query: 53 VKNFVLQGGDVVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANSGPNSNGCQFFITM 112
N ++ G +N +S G DE ++ +HT G ++M + GP+++G F IT+
Sbjct: 116 NNNIIVLGELDSFN-----VSSTGTPIADEGYRHRHTERGLLTMISEGPHTSGSVFGITL 170
Query: 113 SATPWLDGHHTVFGK 127
+P LD VFGK
Sbjct: 171 GPSPSLDFKQVVFGK 185
>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 = 53.6 bits (129), Expect = 5e-10
Identities = 37/121 (30%), Positives = 54/121 (44%), Gaps = 13/121 (10%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSI 72
G I+V L+ P TVENF G Y T FHR++ FV+QGG +
Sbjct: 7 GDIVVELYDDKAPITVENFLAYVRKGF----YDNTIFHRVISGFVIQGGG--FTPDLAQK 60
Query: 73 SIYGDKFDDENFKIKHTGAGFVSMANSG-PNSNGCQFFITMSATPWLD-----GHHTVFG 126
++ + +T G ++MA + P+S QFFI + LD +TVFG
Sbjct: 61 ETLKPIKNEAGNGLSNT-RGTIAMARTNAPDSATSQFFINLKDNASLDYQNEQWGYTVFG 119
Query: 127 K 127
+
Sbjct: 120 E 120
>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 = 48.2 bits (115), Expect = 7e-08
Identities = 39/146 (26%), Positives = 48/146 (32%), Gaps = 48/146 (32%)
Query: 21 GKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGD------------------ 62
G + P T NF L G Y G +FHR+ FV+Q GD
Sbjct: 15 GYNAPVTAGNFVDLVERGF----YDGMEFHRVEGGFVVQTGDPQGKNPGFPDPETGKSRT 70
Query: 63 ------------VVYNDGRGSISIYGDKFDDENFKIKHTGAGFVSMANS--GPNSNGCQF 108
VY Y DE + G ++MA + PNS QF
Sbjct: 71 IPLEIKPEGQKQPVYGKTLEEAGRY-----DEQPVLPFNAFGAIAMARTEFDPNSASSQF 125
Query: 109 FI-------TMSATPWLDGHHTVFGK 127
F T S LDG + VFG
Sbjct: 126 FFLLKDNELTPSRNNVLDGRYAVFGY 151
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B (rotamase
B); Provisional.
Length = 164
Score = 38.3 bits (89), Expect = 2e-04
Identities = 34/113 (30%), Positives = 55/113 (48%), Gaps = 10/113 (8%)
Query: 10 FH--EGRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYND 67
FH G I++ F P+TV+NF G Y T FHR++ F++QGG +
Sbjct: 4 FHTNHGDIVIKTFDDKAPETVKNFLDYCREGF----YNNTIFHRVINGFMIQGGG--FEP 57
Query: 68 GRGSISIYGDKFDDENFKIKHTGAGFVSMANSG-PNSNGCQFFITMSATPWLD 119
G + ++ N +K+T G ++MA + P+S QFFI + +L+
Sbjct: 58 GMKQKATKEPIKNEANNGLKNT-RGTLAMARTQAPHSATAQFFINVVDNDFLN 109
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 35.6 bits (82), Expect = 0.003
Identities = 34/137 (24%), Positives = 52/137 (37%), Gaps = 43/137 (31%)
Query: 12 EGRIIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGS 71
G I + L + P +V+NF V + Y T FHR++ F++QGG
Sbjct: 37 AGNIELELNSQKAPVSVKNFVDY----VNSGFYNNTTFHRVIPGFMIQGGGF-------- 84
Query: 72 ISIYGDKFDDENFKIKHTGA--------------GFVSMA-NSGPNSNGCQFFITMSATP 116
E + K G ++MA + +S QFFI ++
Sbjct: 85 ---------TEQMQQKKPNPPIKNEADNGLRNTRGTIAMARTADKDSATSQFFINVADNA 135
Query: 117 WLDGH------HTVFGK 127
+LD H + VFGK
Sbjct: 136 FLD-HGQRDFGYAVFGK 151
>gnl|CDD|130156 TIGR01084, mutY, A/G-specific adenine glycosylase. This equivalog
model identifies mutY members of the pfam00730
superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro
rich loop followed by a conserved aspartate). The major
members of the superfamily are nth and mutY [DNA
metabolism, DNA replication, recombination, and repair].
Length = 275
Score = 27.0 bits (60), Expect = 3.0
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 14 RIIVGLFGKDVPKTVENFKTLATVG 38
+ +V FG + P+ E+ L VG
Sbjct: 90 QEVVEEFGGEFPQDFEDLAALPGVG 114
>gnl|CDD|223255 COG0177, Nth, Predicted EndoIII-related endonuclease [DNA
replication, recombination, and repair].
Length = 211
Score = 26.8 bits (60), Expect = 3.0
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 14 RIIVGLFGKDVPKTVENFKTLATVGVENKT 43
RI++ FG +VP T E +L VG KT
Sbjct: 94 RILLEKFGGEVPDTREELLSLPGVGR--KT 121
>gnl|CDD|132073 TIGR03028, EpsE, polysaccharide export protein EpsE. Sequences in
this family of proteins are members of a polysaccharide
export protein family (pfam02563) which includes the wza
protein from E.coli. This family of proteins are
homologous to the EpsE protein of the methanolan
biosynthesis operon of Methylobacillus species strain
12S. The distribution of this protein appears to be
restricted to a subset of exopolysaccharide operons
containing a syntenic grouping of genes including a
variant of the EpsH exosortase protein. Exosortase has
been proposed to be involved in the targetting and
processing of proteins containing the PEP-CTERM domain
to the exopolysaccharide layer.
Length = 239
Score = 26.3 bits (58), Expect = 4.3
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 12/44 (27%)
Query: 46 GTKFHRIV------------KNFVLQGGDVVYNDGRGSISIYGD 77
G F + + +N ++ GGD++Y D IYG+
Sbjct: 127 GKIFRKQIDFPALFNPGGDNENILVAGGDIIYVDRAPVFYIYGE 170
>gnl|CDD|226232 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 26.2 bits (58), Expect = 4.5
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 34 LATVGVENKTYIGTKFHRIVKNFVLQGGDVVYNDGRGSISIYGDKF 79
LA G E++ I + R + GDV D G + G++
Sbjct: 132 LAERGRESREEILARLARAA-RYTAGPGDVTTIDNSGELEDAGERL 176
>gnl|CDD|237438 PRK13583, hisG, ATP phosphoribosyltransferase catalytic subunit;
Provisional.
Length = 228
Score = 26.1 bits (58), Expect = 5.3
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 45 IGTKFHRIVKNFVLQGGDVVY 65
I TK+ R+ + F+ Q G Y
Sbjct: 134 IATKYWRLTQQFLSQKGVQDY 154
>gnl|CDD|130155 TIGR01083, nth, endonuclease III. This equivalog model identifes
nth members of the pfam00730 superfamily (HhH-GPD:
Helix-hairpin-helix and Gly/Pro rich loop followed by a
conserved aspartate). The major members of the
superfamily are nth and mutY [DNA metabolism, DNA
replication, recombination, and repair].
Length = 191
Score = 25.8 bits (57), Expect = 5.8
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 13 GRIIVGLFGKDVPKTVENFKTLATVG 38
RI+V +G +VP+ E L VG
Sbjct: 90 CRILVERYGGEVPEDREELVKLPGVG 115
>gnl|CDD|216267 pfam01053, Cys_Met_Meta_PP, Cys/Met metabolism PLP-dependent
enzyme. This family includes enzymes involved in
cysteine and methionine metabolism. The following are
members: Cystathionine gamma-lyase, Cystathionine
gamma-synthase, Cystathionine beta-lyase, Methionine
gamma-lyase, OAH/OAS sulfhydrylase, O-succinylhomoserine
sulfhydrylase All of these members participate is
slightly different reactions. All these enzymes use PLP
(pyridoxal-5'-phosphate) as a cofactor.
Length = 382
Score = 26.0 bits (58), Expect = 5.9
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 113 SATPWLDGHHTVFG 126
SAT ++ GH V G
Sbjct: 195 SATKYIGGHSDVVG 208
>gnl|CDD|237563 PRK13928, PRK13928, rod shape-determining protein Mbl; Provisional.
Length = 336
Score = 26.0 bits (58), Expect = 6.2
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 57 VLQGGDVVYNDGRGSISIYGDKFDDE 82
VL G +V SI + GDKFD+
Sbjct: 163 VLSLGGIVT---SSSIKVAGDKFDEA 185
>gnl|CDD|224163 COG1242, COG1242, Predicted Fe-S oxidoreductase [General function
prediction only].
Length = 312
Score = 25.7 bits (57), Expect = 7.3
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 10/57 (17%)
Query: 15 IIVGLFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKNFVLQGGDVV--YNDGR 69
+I GL G+ + +E K +A +GV+ G K H + V++G + Y GR
Sbjct: 188 LINGLPGETRDEMLETAKIVAELGVD-----GIKLHPLH---VVKGTPMEKMYEKGR 236
>gnl|CDD|216094 pfam00747, Viral_DNA_bp, ssDNA binding protein. This protein is
found in herpesviruses and is needed for replication.
Length = 1111
Score = 25.8 bits (57), Expect = 9.7
Identities = 9/27 (33%), Positives = 10/27 (37%)
Query: 62 DVVYNDGRGSISIYGDKFDDENFKIKH 88
NDGR G DE F +H
Sbjct: 398 PDTDNDGRKLPKFSGTVGKDEEFSPEH 424
>gnl|CDD|165196 PHA02861, PHA02861, uncharacterized protein; Provisional.
Length = 149
Score = 25.0 bits (54), Expect = 9.9
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 19 LFGKDVPKTVENFKTLATVGVENKTYIGTKFHRIVKN 55
+FG++ V+NFKTL G+E+ T K + KN
Sbjct: 57 VFGENFRHIVKNFKTL---GIED-TVQAVKCFTVGKN 89
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.142 0.439
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,541,428
Number of extensions: 571160
Number of successful extensions: 534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 502
Number of HSP's successfully gapped: 44
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
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: 53 (24.1 bits)