RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8877
(180 letters)
>gnl|CDD|222419 pfam13854, Kelch_5, Kelch motif. The kelch motif was initially
discovered in Kelch. In this protein there are six
copies of the motif. It has been shown that the
Drosophila ring canal kelch protein is related to
Galactose Oxidase for which a structure has been solved.
The kelch motif forms a beta sheet. Several of these
sheets associate to form a beta propeller structure as
found in pfam00064, pfam00400 and pfam00415.
Length = 42
Score = 44.5 bits (106), Expect = 4e-07
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 106 VPVGRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTR 145
+PV R +H A V G +Y++GGY + +D+Y
Sbjct: 1 LPVPRANHCAVVVGGEIYLYGGYTSGNGQSSDDVYVLSLP 40
Score = 24.9 bits (55), Expect = 5.0
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 11 PRRVNHAAVLNDNKIFTFGGY 31
R NH AV+ +I+ +GGY
Sbjct: 3 VPRANHCAVVVGGEIYLYGGY 23
Score = 24.9 bits (55), Expect = 5.7
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 47 PPSYRDFHTANIIDGRMYIWGGR 69
P R H A ++ G +Y++GG
Sbjct: 1 LPVPRANHCAVVVGGEIYLYGGY 23
>gnl|CDD|177844 PLN02193, PLN02193, nitrile-specifier protein.
Length = 470
Score = 42.6 bits (100), Expect = 4e-05
Identities = 40/140 (28%), Positives = 56/140 (40%), Gaps = 16/140 (11%)
Query: 44 DGEPPSYRDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTT 103
GE P R H + ++Y +GG + ++ L DL+ TW T
Sbjct: 159 KGEGPGLRCSHGIAQVGNKIYSFGGE-------FTPNQPIDKHLYVFDLETRTWSISPAT 211
Query: 104 GSVP----VGRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPP 159
G VP +G R S G LY+FGG + YN Y + T EW + P P
Sbjct: 212 GDVPHLSCLGVRMVSI---GSTLYVFGGRDA--SRQYNGFYSFDTTTNEWKLLTPVEEGP 266
Query: 160 TKRRRQSCIIKGDTLIMFGG 179
T R S + + +FGG
Sbjct: 267 TPRSFHSMAADEENVYVFGG 286
Score = 33.8 bits (77), Expect = 0.035
Identities = 29/134 (21%), Positives = 55/134 (41%), Gaps = 12/134 (8%)
Query: 46 EPPSYRDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGS 105
E P+ R FH+ + +Y++GG + L L ++ W +T G
Sbjct: 264 EGPTPRSFHSMAADEENVYVFGGVSATARL---------KTLDSYNIVDKKWFHCSTPGD 314
Query: 106 VPVGRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPPTKRRRQ 165
R V +++ G+NG +D++ Y + +W +V G P++R
Sbjct: 315 SFSIRGGAGLEVVQGKVWVVYGFNGC---EVDDVHYYDPVQDKWTQVETFGVRPSERSVF 371
Query: 166 SCIIKGDTLIMFGG 179
+ G +++FGG
Sbjct: 372 ASAAVGKHIVIFGG 385
Score = 26.5 bits (58), Expect = 9.7
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 7/87 (8%)
Query: 97 WIRPNTTGSVPVGRRSHSAFVYGDGLYIFGGY---NGLVEEHYNDIYRYCTRRQEWARVI 153
WI+ G P R SH G+ +Y FGG N +++H +Y + + W+
Sbjct: 153 WIKVEQKGEGPGLRCSHGIAQVGNKIYSFGGEFTPNQPIDKH---LYVFDLETRTWSISP 209
Query: 154 PHGAPPTKRRRQSCIIK-GDTLIMFGG 179
G P ++ G TL +FGG
Sbjct: 210 ATGDVPHLSCLGVRMVSIGSTLYVFGG 236
>gnl|CDD|201739 pfam01344, Kelch_1, Kelch motif. The kelch motif was initially
discovered in Kelch. In this protein there are six
copies of the motif. It has been shown that the
Drosophila ring canal kelch protein is related to
Galactose Oxidase, for which a structure has been
solved. The kelch motif forms a beta sheet. Several of
these sheets associate to form a beta propeller
structure as found in pfam00064, pfam00400 and
pfam00415.
Length = 46
Score = 36.1 bits (84), Expect = 4e-04
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 110 RRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARV 152
R V G +Y+ GGY+G + + + Y W+++
Sbjct: 2 RSGAGVVVLGGKIYVIGGYDG--GQSLSSVEVYDPETNTWSKL 42
Score = 28.0 bits (63), Expect = 0.45
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 12 RRVNHAAVLNDNKIFTFGGYCSGE 35
R V+ KI+ GGY G+
Sbjct: 1 PRSGAGVVVLGGKIYVIGGYDGGQ 24
>gnl|CDD|225597 COG3055, COG3055, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 381
Score = 39.3 bits (92), Expect = 6e-04
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 7/80 (8%)
Query: 51 RDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGR 110
R+ A +I G++Y++GG G S S D D +W + +T P G
Sbjct: 83 RNQAVAAVIGGKLYVFGGYGKSV----SSSPQVFNDAYRYDPSTNSWHKLDTRS--PTGL 136
Query: 111 RSHSAFVYGDG-LYIFGGYN 129
S F +Y FGG N
Sbjct: 137 VGASTFSLNGTKIYFFGGVN 156
Score = 30.8 bits (70), Expect = 0.33
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 9/79 (11%)
Query: 107 PVGRRSHSAFVYGDG-LYIFGGY----NGLVEEHYNDIYRYCTRRQEWARVIPHGAPPTK 161
P G R+ + G LY+FGGY + + +ND YRY W ++ PT
Sbjct: 79 PGGARNQAVAAVIGGKLYVFGGYGKSVSSSPQV-FNDAYRYDPSTNSWHKLDTRS--PTG 135
Query: 162 RRRQSCIIKGDT-LIMFGG 179
S T + FGG
Sbjct: 136 LVGASTFSLNGTKIYFFGG 154
>gnl|CDD|237617 PRK14131, PRK14131, N-acetylneuraminic acid mutarotase;
Provisional.
Length = 376
Score = 38.8 bits (91), Expect = 8e-04
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 6/80 (7%)
Query: 51 RDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGR 110
R+ A IDG++Y++GG G +S GS D+ D K +W + +T PVG
Sbjct: 75 REQAVAAFIDGKLYVFGGIGKTNS---EGSPQVFDDVYKYDPKTNSWQKLDTRS--PVGL 129
Query: 111 RSHSAFVY-GDGLYIFGGYN 129
H A YI GG N
Sbjct: 130 AGHVAVSLHNGKAYITGGVN 149
Score = 26.9 bits (60), Expect = 6.0
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 107 PVGRRSHSAFVYGDG-LYIFGGYNGLVEEH----YNDIYRYCTRRQEWARV 152
P G R + + DG LY+FGG E ++D+Y+Y + W ++
Sbjct: 71 PGGPREQAVAAFIDGKLYVFGGIGKTNSEGSPQVFDDVYKYDPKTNSWQKL 121
>gnl|CDD|206134 pfam13964, Kelch_6, Kelch motif.
Length = 50
Score = 34.7 bits (80), Expect = 0.002
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 5/54 (9%)
Query: 110 RRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPPTKRR 163
R HSA G +Y+FGGY+ + N + Y W P R
Sbjct: 2 RTGHSAVSVGGKIYVFGGYSNGS-KASNKVLVYDPETGSWE----KLPPLPTPR 50
Score = 26.3 bits (58), Expect = 2.3
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 13 RVNHAAVLNDNKIFTFGGYCSGEDYVKR 40
R H+AV KI+ FGGY +G +
Sbjct: 2 RTGHSAVSVGGKIYVFGGYSNGSKASNK 29
>gnl|CDD|234253 TIGR03547, muta_rot_YjhT, mutatrotase, YjhT family. Members of
this protein family contain multiple copies of the
beta-propeller-forming Kelch repeat. All are full-length
homologs to YjhT of Escherichia coli, which has been
identified as a mutarotase for sialic acid. This protein
improves bacterial ability to obtain host sialic acid,
and thus serves as a virulence factor. Some bacteria
carry what appears to be a cyclically permuted homolog
of this protein.
Length = 346
Score = 36.9 bits (86), Expect = 0.003
Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 51 RDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGR 110
R+ A IDG++Y++GG G +S GS D+ D K +W + +T PVG
Sbjct: 54 RNQAVAAAIDGKLYVFGGIGKANS---EGSPQVFDDVYRYDPKKNSWQKLDTR--SPVGL 108
Query: 111 RSHSAFVYGDG-LYIFGGYN 129
S F +G Y GG N
Sbjct: 109 LGASGFSLHNGQAYFTGGVN 128
>gnl|CDD|205596 pfam13418, Kelch_4, Galactose oxidase, central domain.
Length = 49
Score = 33.0 bits (76), Expect = 0.008
Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 109 GRRSHSAF-VYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARV 152
R H++ + LY+FGG N +D++ + W R+
Sbjct: 1 PRAYHTSTSIGDGRLYLFGGENED-GSVLSDVWVFDLSTNTWTRL 44
Score = 28.4 bits (64), Expect = 0.39
Identities = 11/28 (39%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 51 RDFHTANII-DGRMYIWGGRGDESSLYH 77
R +HT+ I DGR+Y++GG ++ S+
Sbjct: 2 RAYHTSTSIGDGRLYLFGGENEDGSVLS 29
>gnl|CDD|222113 pfam13415, Kelch_3, Galactose oxidase, central domain.
Length = 48
Score = 32.3 bits (74), Expect = 0.013
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 119 GDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPPTKRR 163
G +Y+FGG ND++ Y W ++ G P R
Sbjct: 1 GGKIYVFGGLGDG-GTRLNDLWVYDLDTNTWEKL---GDLPGPRA 41
Score = 26.9 bits (60), Expect = 1.0
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 11/59 (18%)
Query: 60 DGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGRRSHSAFVY 118
G++Y++GG GD + + VY LD + + G +P R H+A V
Sbjct: 1 GGKIYVFGGLGDGGTRLND-LWVYD-----LDTNTWEKL-----GDLPGPRAGHAATVI 48
>gnl|CDD|177814 PLN02153, PLN02153, epithiospecifier protein.
Length = 341
Score = 34.6 bits (79), Expect = 0.020
Identities = 29/89 (32%), Positives = 36/89 (40%), Gaps = 10/89 (11%)
Query: 97 WIRPNTTGSV-PVGRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPH 155
WI+ G P R SH V GD LY FGG E D+Y + W+ +
Sbjct: 9 WIKVEQKGGKGPGPRCSHGIAVVGDKLYSFGGELKPNEHIDKDLYVFDFNTHTWSIAPAN 68
Query: 156 GAPPTKRRRQSC-----IIKGDTLIMFGG 179
G P R SC + G L +FGG
Sbjct: 69 GDVP----RISCLGVRMVAVGTKLYIFGG 93
Score = 33.8 bits (77), Expect = 0.038
Identities = 30/114 (26%), Positives = 45/114 (39%), Gaps = 10/114 (8%)
Query: 37 YVKRRPMDGEPPSYRDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFT 96
++K G+ P R H ++ ++Y +GG +E DL D T
Sbjct: 9 WIKVEQKGGKGPGPRCSHGIAVVGDKLYSFGGE-------LKPNEHIDKDLYVFDFNTHT 61
Query: 97 WIRPNTTGSVP-VGRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEW 149
W G VP + G LYIFGG + + ++D Y Y T + EW
Sbjct: 62 WSIAPANGDVPRISCLGVRMVAVGTKLYIFGGRDE--KREFSDFYSYDTVKNEW 113
Score = 33.8 bits (77), Expect = 0.038
Identities = 36/144 (25%), Positives = 52/144 (36%), Gaps = 32/144 (22%)
Query: 9 GGPR-RVNHAAVLNDNKIFTFGGYCSGEDYVKRRPMDGEPPSYRDFHTANIIDGRMY--- 64
GGP R H+ ++N ++ FGG V + + P +R NI DG+
Sbjct: 123 GGPEARTFHSMASDENHVYVFGG-------VSKGGLMKTPERFRTIEAYNIADGKWVQLP 175
Query: 65 --------------------IWGGRGDESSLYHSGSEVYCPDLV-YLDLKYFTWIRPNTT 103
IW G +S+ G Y + V + D W TT
Sbjct: 176 DPGENFEKRGGAGFAVVQGKIWVVYGFATSILPGGKSDYESNAVQFFDPASGKWTEVETT 235
Query: 104 GSVPVGRRSHSAFVYGDGLYIFGG 127
G+ P R + V G + IFGG
Sbjct: 236 GAKPSARSVFAHAVVGKYIIIFGG 259
>gnl|CDD|116261 pfam07646, Kelch_2, Kelch motif. The kelch motif was initially
discovered in Kelch. In this protein there are six
copies of the motif. It has been shown that Drosophila
ring canal kelch protein is related to Galactose Oxidase
for which a structure has been solved. The kelch motif
forms a beta sheet. Several of these sheets associate to
form a beta propeller structure as found in pfam00064,
pfam00400 and pfam00415.
Length = 48
Score = 29.6 bits (67), Expect = 0.10
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 110 RRSHSAFVYGDG-LYIFGGYNGLVEEHYNDIYRYCTRRQEWARV 152
R A V G LY+ GG GL + +D++ W +
Sbjct: 1 PRYPHASVVVGGKLYVVGGSTGLGDLSSSDLWVLDPETNVWTEL 44
Score = 26.9 bits (60), Expect = 1.2
Identities = 9/40 (22%), Positives = 15/40 (37%)
Query: 12 RRVNHAAVLNDNKIFTFGGYCSGEDYVKRRPMDGEPPSYR 51
R HA+V+ K++ GG D +P +
Sbjct: 1 PRYPHASVVVGGKLYVVGGSTGLGDLSSSDLWVLDPETNV 40
Score = 25.0 bits (55), Expect = 4.9
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 54 HTANIIDGRMYIWGGRGDESSLYHSGSEVY 83
H + ++ G++Y+ GG L S V
Sbjct: 5 HASVVVGGKLYVVGGSTGLGDLSSSDLWVL 34
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 30.9 bits (70), Expect = 0.40
Identities = 33/180 (18%), Positives = 60/180 (33%), Gaps = 30/180 (16%)
Query: 13 RVNHAAVLNDNKIFTFGG------------YCSGEDYVKRRPMDGEPPSYRDFHTANIID 60
R N + +N+I+ GG + GE + P P R ++
Sbjct: 333 RKNPGVTVFNNRIYVIGGIYNSISLNTVESWKPGESKWREEPPLIFP---RYNPCVVNVN 389
Query: 61 GRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGRRSHSAFVYGD 120
+Y+ GG L + E + L W + + P+ A +
Sbjct: 390 NLIYVIGGISKNDELLKT-VECF-------SLNTNKWSKGSPL---PISHYGGCAIYHDG 438
Query: 121 GLYIFGGYNGL-VEEHYNDIYRYCTRRQEWARVIPHGAPPTKRRRQSCIIKGDTLIMFGG 179
+Y+ GG + + + YN + Y +W + P R S I + + + GG
Sbjct: 439 KIYVIGGISYIDNIKVYNIVESYNPVTNKWTELSSLNFP---RINASLCIFNNKIYVVGG 495
>gnl|CDD|237370 PRK13380, PRK13380, glycine cleavage system protein H; Provisional.
Length = 144
Score = 28.0 bits (63), Expect = 1.6
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 77 HSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGRRSHSAFVYGDGLYI 124
+G E+ P + +K W+R G+V VG ++ + GD +++
Sbjct: 4 ENGCEI--PSELRYTIKNHEWLRLEGDGTVTVGITDYAQTMAGDVVFV 49
>gnl|CDD|215414 PLN02772, PLN02772, guanylate kinase.
Length = 398
Score = 28.3 bits (63), Expect = 2.3
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 8/78 (10%)
Query: 44 DGEPPSYRDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTT 103
+G ++ T+ I + Y+ GG + ++L V LD W+ P
Sbjct: 18 NGFGVKPKNRETSVTIGDKTYVIGGNHEGNTL---SIGVQI-----LDKITNNWVSPIVL 69
Query: 104 GSVPVGRRSHSAFVYGDG 121
G+ P + +SA V
Sbjct: 70 GTGPKPCKGYSAVVLNKD 87
>gnl|CDD|128874 smart00612, Kelch, Kelch domain.
Length = 47
Score = 26.0 bits (58), Expect = 2.6
Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 7/43 (16%)
Query: 122 LYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPPTKRRR 164
+Y+ GG++G + + Y +W + P R
Sbjct: 2 IYVVGGFDG--GQRLKSVEVYDPETNKWTPL-----PSMPTPR 37
>gnl|CDD|183569 PRK12517, PRK12517, RNA polymerase sigma factor; Provisional.
Length = 188
Score = 27.3 bits (61), Expect = 3.5
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 128 YNGLVEEHYNDIYRY 142
Y LV+ + DIYRY
Sbjct: 25 YEALVKALHADIYRY 39
>gnl|CDD|217361 pfam03089, RAG2, Recombination activating protein 2. V-D-J
recombination is the combinatorial process by which the
huge range of immunoglobulin and T cell binding
specificity is generated from a limited amount of
genetic material. This process is synergistically
activated by RAG1 and RAG2 in developing lymphocytes.
Defects in RAG2 in humans are a cause of severe combined
immunodeficiency B cell negative and Omenn syndrome.
Length = 337
Score = 27.7 bits (62), Expect = 4.1
Identities = 29/101 (28%), Positives = 44/101 (43%), Gaps = 24/101 (23%)
Query: 45 GEPPSYRDFHTANIIDGR----MYIWGGRGDESSLYHSG--------SEVYCPDLVYL-D 91
G+ P R HT N++ R ++GGR S G S V CP V+L D
Sbjct: 82 GDVPEARYGHTINVVHSRGKTACVLFGGR----SYMPPGQRTTENWNSVVDCPPQVFLID 137
Query: 92 LKY---FTWIRPNTTGSVPVGRRSHSAFVYGDGLYIFGGYN 129
L++ ++I P G+ H + D +YI GG++
Sbjct: 138 LEFGCCTSYILPELQD----GQSFHVSLARNDTVYILGGHS 174
>gnl|CDD|187825 cd09694, Csm6_III-A, CRISPR/Cas system-associated protein Csm6.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Protein of this family often fused to HTH domain;
loosely associated with CRISPR/Cas systems.
Length = 181
Score = 26.7 bits (59), Expect = 5.1
Identities = 12/51 (23%), Positives = 14/51 (27%)
Query: 109 GRRSHSAFVYGDGLYIFGGYNGLVEEHYNDIYRYCTRRQEWARVIPHGAPP 159
G R V G G G +GL E D+ G P
Sbjct: 85 GARQQVKLVPGLGRDFNYGLSGLSLERMADVLVQLAEGNVGIVTFTGGFKP 135
>gnl|CDD|221616 pfam12516, DUF3719, Protein of unknown function (DUF3719). This
domain family is found in eukaryotes, and is
approximately 70 amino acids in length. There is a
conserved HLR sequence motif. There are two completely
conserved residues (W and H) that may be functionally
important.
Length = 68
Score = 25.5 bits (56), Expect = 5.3
Identities = 11/45 (24%), Positives = 12/45 (26%), Gaps = 10/45 (22%)
Query: 128 YNGLVEEHYNDIYRYCTRRQEWARVIPH-------GAPPTKRRRQ 165
Y G + C QEWA PH P Q
Sbjct: 3 YEGKDSGQTQGLQEEC---QEWAASFPHLRILGRQLVIPQDEGFQ 44
>gnl|CDD|241369 cd13215, PH-GRAM1_AGT26, Autophagy-related protein 26/Sterol
3-beta-glucosyltransferase Pleckstrin homology (PH)
domain, repeat 1. ATG26 (also called
UGT51/UDP-glycosyltransferase 51), a member of the
glycosyltransferase 28 family, resulting in the
biosynthesis of sterol glucoside. ATG26 in decane
metabolism and autophagy. There are 32 known
autophagy-related (ATG) proteins, 17 are components of
the core autophagic machinery essential for all
autophagy-related pathways and 15 are the additional
components required only for certain pathways or
species. The core autophagic machinery includes 1) the
ATG9 cycling system (ATG1, ATG2, ATG9, ATG13, ATG18, and
ATG27), 2) the phosphatidylinositol 3-kinase complex
(ATG6/VPS30, ATG14, VPS15, and ATG34), and 3) the
ubiquitin-like protein system (ATG3, ATG4, ATG5, ATG7,
ATG8, ATG10, ATG12, and ATG16). Less is known about how
the core machinery is adapted or modulated with
additional components to accommodate the nonselective
sequestration of bulk cytosol (autophagosome formation)
or selective sequestration of specific cargos (Cvt
vesicle, pexophagosome, or bacteria-containing
autophagosome formation). The pexophagosome-specific
additions include the ATG30-ATG11-ATG17
receptor-adaptors complex, the coiled-coil protein
ATG25, and the sterol glucosyltransferase ATG26. ATG26
is necessary for the degradation of medium peroxisomes.
It contains 2 GRAM domains and a single PH domain. PH
domains are only found in eukaryotes. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. PH domains also have
diverse functions. They are often involved in targeting
proteins to the plasma membrane, but few display strong
specificity in lipid binding. Any specificity is usually
determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 130
Score = 26.4 bits (59), Expect = 6.4
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 1/37 (2%)
Query: 69 RGDESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGS 105
+GD S Y S +++Y P +DL+Y
Sbjct: 53 KGDVLSWYRSSTDLYFPHGT-IDLRYGISAEITDKDK 88
>gnl|CDD|177609 PHA03372, PHA03372, DNA packaging terminase subunit 1; Provisional.
Length = 668
Score = 27.1 bits (60), Expect = 7.1
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 77 HSGSEVYCPDLVYLDLKYFTWIRPNTTGSVPVGRRSHSAFVYG 119
G +Y VYLD + + R + TG VG +YG
Sbjct: 450 FLGKTLY----VYLDPAFTSNRRASGTGIAAVGTYRDQYIIYG 488
>gnl|CDD|239001 cd02046, hsp47, Heat shock protein 47 (Hsp47), also called
colligin, because of its collagen binding ability, is a
chaperone specific for procollagen. It has been shown to
be essential for collagen biosynthesis, but its exact
function is still unclear. Hsp47 is a non-inhibitory
member of the SERPIN superfamily and corresponds to
clade H.
Length = 366
Score = 26.4 bits (58), Expect = 8.3
Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 51 RDFHTANIIDGRMYIWGGRGD--ESSLYHSGSEVYCPDLVYLDLKYFTWIRPNTTGSVP- 107
+D + +N+ W G+ + +Y E+ P L Y D + ++ N T S+
Sbjct: 304 KDLYLSNVFHAAALEWDTEGNPFDPDIY-GREEMRNPKLFYADHPFIFLVKDNKTNSILF 362
Query: 108 VGR 110
+GR
Sbjct: 363 IGR 365
>gnl|CDD|233756 TIGR02166, dmsA_ynfE, anaerobic dimethyl sulfoxide reductase, A
subunit, DmsA/YnfE family. Members of this family
include known and probable dimethyl sulfoxide reductase
(DMSO reductase) A chains. In E. coli, dmsA encodes the
canonical anaerobic DMSO reductase A chain. The paralog
ynfE, as part of ynfFGH expressed from a multicopy
plasmid, could complement a dmsABC deletion, suggesting
a similar function and some overlap in specificity,
although YnfE could not substitute for DmsA in a mixed
complex.
Length = 797
Score = 26.7 bits (59), Expect = 9.0
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 49 SYRDFHTANIIDGRMYIWGGRGDESSLYHSGSEVYCPDLVYL 90
Y + TA I + Y +G D SSL ++ LV +
Sbjct: 183 QYGSYSTAQINEAMPYTYGISADGSSL----DDIENSKLVVM 220
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
0.323 0.143 0.478
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,829,109
Number of extensions: 905767
Number of successful extensions: 720
Number of sequences better than 10.0: 1
Number of HSP's gapped: 704
Number of HSP's successfully gapped: 47
Length of query: 180
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 89
Effective length of database: 6,901,388
Effective search space: 614223532
Effective search space used: 614223532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.2 bits)