RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 045812
(105 letters)
>gnl|CDD|184841 PRK14831, PRK14831, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 249
Score = 125 bits (317), Expect = 2e-37
Identities = 45/88 (51%), Positives = 61/88 (69%), Gaps = 4/88 (4%)
Query: 18 GLNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAF 77
L+ + +P+HVAVIMDGN RWA++RGLP GH GV +L++L+ C WG+ LT +AF
Sbjct: 14 DLDPQRLPKHVAVIMDGNGRWAKRRGLPRIMGHRRGVDALKDLLRCCKDWGIGALTAYAF 73
Query: 78 SYDNWV----EVEFLMKLFEKSIKSELE 101
S +NW EV FLM LFE+ ++ ELE
Sbjct: 74 STENWSRPLEEVNFLMTLFERVLRRELE 101
>gnl|CDD|223099 COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid
metabolism].
Length = 245
Score = 117 bits (296), Expect = 3e-34
Identities = 46/86 (53%), Positives = 64/86 (74%), Gaps = 4/86 (4%)
Query: 20 NREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSY 79
+PRHVA+IMDGN RWA++RGLP GH+AG ++LRE++E C G+K LT++AFS
Sbjct: 12 LPARLPRHVAIIMDGNRRWAKKRGLPRIEGHKAGAKALREILEWCLELGIKYLTLYAFST 71
Query: 80 DNW----VEVEFLMKLFEKSIKSELE 101
+NW EV FLM+LFEK+++ EL+
Sbjct: 72 ENWKRPKEEVSFLMELFEKALREELK 97
>gnl|CDD|184840 PRK14830, PRK14830, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 251
Score = 116 bits (293), Expect = 9e-34
Identities = 37/86 (43%), Positives = 60/86 (69%), Gaps = 4/86 (4%)
Query: 19 LNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFS 78
L++ +P+H+A+IMDGN RWA++R LP AGH+AG+ +++++ + GVKVLT++AFS
Sbjct: 17 LDKGNIPKHIAIIMDGNGRWAKKRMLPRIAGHKAGMDTVKKITKAASELGVKVLTLYAFS 76
Query: 79 YDNWV----EVEFLMKLFEKSIKSEL 100
+NW EV+FLM L + + +
Sbjct: 77 TENWKRPKDEVKFLMNLPVEFLDKFV 102
>gnl|CDD|216392 pfam01255, Prenyltransf, Putative undecaprenyl diphosphate
synthase. Previously known as uncharacterized protein
family UPF0015, a single member of this family has been
identified as an undecaprenyl diphosphate synthase.
Length = 222
Score = 113 bits (285), Expect = 6e-33
Identities = 38/75 (50%), Positives = 54/75 (72%), Gaps = 4/75 (5%)
Query: 31 IMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW----VEVE 86
IMDGN RWA++RGLP + GH AG ++RE++E C G+K LT++AFS +NW EV+
Sbjct: 1 IMDGNRRWAKKRGLPRTEGHRAGAEAVREILEWCLELGIKYLTLYAFSTENWKRPKEEVD 60
Query: 87 FLMKLFEKSIKSELE 101
FLM+L E+ ++ LE
Sbjct: 61 FLMELLERKLRRLLE 75
>gnl|CDD|238265 cd00475, CIS_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases
(cis-IPPS); homodimers which catalyze the successive
1'-4 condensation of the isopentenyl diphosphate (IPP)
molecule to trans,trans-farnesyl diphosphate (FPP) or to
cis,trans-FPP to form long-chain polyprenyl
diphosphates. A few can also catalyze the condensation
of IPP to trans-geranyl diphosphate to form the
short-chain cis,trans- FPP. In prokaryotes, the
cis-IPPS, undecaprenyl diphosphate synthase (UPP
synthase) catalyzes the formation of the carrier lipid
UPP in bacterial cell wall peptidooglycan biosynthesis.
Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl
diphosphate (dedol-PP) synthase catalyzes the formation
of the polyisoprenoid glycosyl carrier lipid dolichyl
monophosphate. cis-IPPS are mechanistically and
structurally distinct from trans-IPPS, lacking the DDXXD
motifs, yet requiring Mg2+ for activity.
Length = 221
Score = 113 bits (285), Expect = 6e-33
Identities = 39/81 (48%), Positives = 55/81 (67%), Gaps = 4/81 (4%)
Query: 25 PRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW-- 82
P+HVA IMDGN RWA+QRG+ GH+AG LR+++ C GVK +T++AFS +NW
Sbjct: 1 PKHVAFIMDGNRRWAKQRGMDRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFSTENWKR 60
Query: 83 --VEVEFLMKLFEKSIKSELE 101
EV+FLM+LF ++ L+
Sbjct: 61 PKEEVDFLMELFRDVLRRILK 81
>gnl|CDD|129165 TIGR00055, uppS, undecaprenyl diphosphate synthase. This enzyme
builds undecaprenyl diphosphate, a molecule that in
bacteria is used a carrier in synthesizing cell wall
components. Alternate name: undecaprenyl pyrophosphate
synthetase. Activity has been demonstrated
experimentally for members of this family from
Micrococcus luteus, E. coli, Haemophilus influenzae, and
Streptococcus pneumoniae [Cell envelope, Biosynthesis
and degradation of surface polysaccharides and
lipopolysaccharides].
Length = 226
Score = 109 bits (274), Expect = 3e-31
Identities = 42/79 (53%), Positives = 59/79 (74%), Gaps = 4/79 (5%)
Query: 26 RHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW--- 82
RHVA+IMDGN RWA+++G P + GH+AGV+SLR ++ C GV+ LT++AFS +NW
Sbjct: 1 RHVAIIMDGNGRWAKKKGKPRAYGHKAGVKSLRRILRWCANLGVECLTLYAFSTENWKRP 60
Query: 83 -VEVEFLMKLFEKSIKSEL 100
EV+FLM+LFEK + E+
Sbjct: 61 KEEVDFLMELFEKKLDREV 79
>gnl|CDD|237831 PRK14836, PRK14836, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 253
Score = 106 bits (267), Expect = 5e-30
Identities = 42/84 (50%), Positives = 61/84 (72%), Gaps = 4/84 (4%)
Query: 22 EAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDN 81
E +PRH+A+IMDGN RWA++RG P GH AGVR++R +E C G+++LT+FAFS +N
Sbjct: 12 ENIPRHIAIIMDGNGRWAKRRGKPRVEGHRAGVRAVRRTIEFCLEKGIEMLTLFAFSSEN 71
Query: 82 WV----EVEFLMKLFEKSIKSELE 101
W+ EV LM+LF K++ E++
Sbjct: 72 WLRPADEVSALMELFLKALDREVD 95
>gnl|CDD|237827 PRK14832, PRK14832, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 253
Score = 106 bits (266), Expect = 7e-30
Identities = 45/86 (52%), Positives = 61/86 (70%), Gaps = 4/86 (4%)
Query: 19 LNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFS 78
L+ + +P+H+AVIMDGN RWA +GLP AGH G R+L+EL+ C WG+K LT +AFS
Sbjct: 13 LDPQKIPQHIAVIMDGNGRWATSQGLPRIAGHRQGARTLKELLRCCKDWGIKALTAYAFS 72
Query: 79 YDNWV----EVEFLMKLFEKSIKSEL 100
+NW EV+FLM LFE+ ++ EL
Sbjct: 73 TENWQRPIEEVDFLMLLFERLLRREL 98
>gnl|CDD|237828 PRK14833, PRK14833, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 233
Score = 105 bits (264), Expect = 1e-29
Identities = 38/85 (44%), Positives = 57/85 (67%), Gaps = 4/85 (4%)
Query: 24 MPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW- 82
+H+A+IMDGN RWA+ RG +AGH+ GV++LRE+ C ++ LT++AFS +NW
Sbjct: 4 TLKHLAIIMDGNGRWAKLRGKARAAGHKKGVKTLREITIWCANHKLECLTLYAFSTENWK 63
Query: 83 ---VEVEFLMKLFEKSIKSELEGFI 104
EV+FLMKL +K +K E ++
Sbjct: 64 RPKSEVDFLMKLLKKYLKDERSTYL 88
>gnl|CDD|237832 PRK14839, PRK14839, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 239
Score = 94.1 bits (234), Expect = 4e-25
Identities = 41/83 (49%), Positives = 52/83 (62%), Gaps = 4/83 (4%)
Query: 27 HVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW---- 82
HVA+IMDGN RWA RGLP AGH AGV ++R +VE G+ LT++AFS DNW
Sbjct: 12 HVAIIMDGNGRWATARGLPRLAGHRAGVEAIRRVVEAAPDLGIGTLTLYAFSSDNWRRPA 71
Query: 83 VEVEFLMKLFEKSIKSELEGFIR 105
EV LM+L +++E E R
Sbjct: 72 AEVGGLMRLLRAYLRNETERLAR 94
>gnl|CDD|184846 PRK14838, PRK14838, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 242
Score = 89.5 bits (222), Expect = 2e-23
Identities = 37/85 (43%), Positives = 53/85 (62%), Gaps = 4/85 (4%)
Query: 19 LNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFS 78
++ +P+H+A+IMDGN RWA++RG S GH+AG ++ + E R GVK LT++ FS
Sbjct: 5 IDMNRIPQHIAIIMDGNGRWAKERGKERSFGHQAGAETVHIITEEAARLGVKFLTLYTFS 64
Query: 79 YDNWV----EVEFLMKLFEKSIKSE 99
+NW EV LM L SI+ E
Sbjct: 65 TENWNRPSDEVAALMSLLLDSIEEE 89
>gnl|CDD|237829 PRK14834, PRK14834, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 249
Score = 87.5 bits (217), Expect = 2e-22
Identities = 42/94 (44%), Positives = 55/94 (58%), Gaps = 4/94 (4%)
Query: 11 ARGGVAGGLNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVK 70
A + ++PRHVA+IMDGN RWA+ RGLP +AGH AGV +LR +V G+
Sbjct: 1 AAAPAKDESDAMSVPRHVAIIMDGNGRWAKARGLPRAAGHRAGVEALRRVVRAAGELGIG 60
Query: 71 VLTVFAFSYDNWV----EVEFLMKLFEKSIKSEL 100
LT+FAFS +NW EV L L I+ +L
Sbjct: 61 YLTLFAFSSENWSRPASEVSDLFGLLRLFIRRDL 94
>gnl|CDD|173302 PRK14841, PRK14841, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 233
Score = 83.5 bits (206), Expect = 4e-21
Identities = 41/82 (50%), Positives = 53/82 (64%), Gaps = 4/82 (4%)
Query: 24 MPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNWV 83
+P+HVA+IMDGN RWA++RGLP GH+ G L V+ G+K LT F+FS +NW
Sbjct: 3 IPQHVAIIMDGNGRWAKKRGLPRIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFSTENWK 62
Query: 84 ----EVEFLMKLFEKSIKSELE 101
EVEFLM LF + I E+E
Sbjct: 63 RPKEEVEFLMDLFVQMIDREME 84
>gnl|CDD|237826 PRK14829, PRK14829, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 243
Score = 79.4 bits (196), Expect = 1e-19
Identities = 34/73 (46%), Positives = 46/73 (63%), Gaps = 4/73 (5%)
Query: 21 REAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYD 80
+ +PRH+AV+MDGN RWA QRGL + GH+AG L ++V GV L+++ FS +
Sbjct: 11 KNKLPRHIAVVMDGNGRWATQRGLKRTEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFSTE 70
Query: 81 NWV----EVEFLM 89
NW EV FLM
Sbjct: 71 NWKRSPDEVRFLM 83
>gnl|CDD|173298 PRK14837, PRK14837, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 230
Score = 78.3 bits (193), Expect = 3e-19
Identities = 33/87 (37%), Positives = 54/87 (62%), Gaps = 4/87 (4%)
Query: 19 LNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFS 78
+N+ ++P HV +IMDGN RWA ++GL GH+ G++ +E+V+ + G+K L+++ FS
Sbjct: 1 MNKNSLPSHVGIIMDGNRRWALKKGLSFFEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFS 60
Query: 79 YDNW----VEVEFLMKLFEKSIKSELE 101
+NW E+E LM L + SE
Sbjct: 61 TENWNRTDSEIEHLMFLIADYLSSEFN 87
>gnl|CDD|173301 PRK14840, PRK14840, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 250
Score = 74.9 bits (184), Expect = 8e-18
Identities = 35/87 (40%), Positives = 53/87 (60%), Gaps = 8/87 (9%)
Query: 22 EAMPRHVAVIMDGNVRWARQ----RGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAF 77
+++PRHVA+IMDGN RW R+ + +GH G +SL ++V+ G++VLT+FAF
Sbjct: 16 QSLPRHVAIIMDGNRRWYRKHEQFCQKRAISGHYYGAKSLPQIVDTALHLGIEVLTLFAF 75
Query: 78 SYDNWV----EVEFLMKLFEKSIKSEL 100
S +N+ EV L LF + S+L
Sbjct: 76 STENFSRSKEEVAELFSLFNSQLDSQL 102
>gnl|CDD|237830 PRK14835, PRK14835, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 275
Score = 71.4 bits (175), Expect = 3e-16
Identities = 34/78 (43%), Positives = 49/78 (62%), Gaps = 4/78 (5%)
Query: 24 MPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW- 82
+PRH+ +I+DGN R+AR GL GHE GV+ E++E C G+ +T++ FS DN+
Sbjct: 41 LPRHLGLILDGNRRFARALGLQREMGHEFGVQKAYEVLEWCLELGIPTVTIWVFSTDNFS 100
Query: 83 ---VEVEFLMKLFEKSIK 97
EVE LM LFE+ +
Sbjct: 101 RSPAEVETLMNLFEREAR 118
>gnl|CDD|185571 PTZ00349, PTZ00349, dehydrodolichyl diphosphate synthetase;
Provisional.
Length = 322
Score = 70.0 bits (171), Expect = 1e-15
Identities = 28/70 (40%), Positives = 50/70 (71%), Gaps = 4/70 (5%)
Query: 26 RHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW--- 82
+H+++IMDGN R+A+++GL S+ GH G ++L +++E+C + +K+L+VF+FS N+
Sbjct: 21 KHISIIMDGNRRFAKEKGLHSAIGHFMGSKALIQIIEICIKLKIKILSVFSFSLLNYNRS 80
Query: 83 -VEVEFLMKL 91
E+ FL L
Sbjct: 81 PEEIHFLFYL 90
>gnl|CDD|173303 PRK14842, PRK14842, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 241
Score = 68.9 bits (168), Expect = 2e-15
Identities = 31/88 (35%), Positives = 51/88 (57%), Gaps = 4/88 (4%)
Query: 18 GLNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAF 77
GL +P H+AVIMDGN RWA +G S GH G ++ L++ +G+K ++++AF
Sbjct: 2 GLFESTIPAHIAVIMDGNGRWAESQGKKRSEGHREGANAIDRLMDASLEYGLKNISLYAF 61
Query: 78 SYDNW----VEVEFLMKLFEKSIKSELE 101
S +NW E+ + L + I++ L+
Sbjct: 62 STENWKRPITEIRSIFGLLVEFIETRLD 89
>gnl|CDD|173288 PRK14827, PRK14827, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 296
Score = 68.8 bits (168), Expect = 3e-15
Identities = 31/70 (44%), Positives = 44/70 (62%), Gaps = 4/70 (5%)
Query: 24 MPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNWV 83
+P HVA++MDGN RWA QRGL + GH+ G + ++ G+K L+++AFS +NW
Sbjct: 67 LPNHVAIVMDGNGRWATQRGLARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFSTENWK 126
Query: 84 ----EVEFLM 89
EV FLM
Sbjct: 127 RSPEEVRFLM 136
>gnl|CDD|182326 PRK10240, PRK10240, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 229
Score = 63.8 bits (155), Expect = 9e-14
Identities = 32/78 (41%), Positives = 49/78 (62%), Gaps = 4/78 (5%)
Query: 32 MDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDNW----VEVEF 87
MDGN RWA+++G + GH+AG +S+R V G++ LT++AFS +NW EV
Sbjct: 1 MDGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRPAQEVSA 60
Query: 88 LMKLFEKSIKSELEGFIR 105
LM+LF ++ SE++ R
Sbjct: 61 LMELFVWALDSEVKSLHR 78
>gnl|CDD|237825 PRK14828, PRK14828, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 256
Score = 57.4 bits (139), Expect = 2e-11
Identities = 27/68 (39%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 15 VAGGLNREAMPRHVAVIMDGNVRWARQRGLPS-SAGHEAGVRSLRELVELCCRWGVKVLT 73
+ G L+ +P HV +I+DGN RWAR+ G S GH AG + E + C V V+T
Sbjct: 17 LLGELDGAQVPGHVGIIVDGNRRWARKAGFTDVSQGHRAGAAKIGEFLGWCDETDVNVVT 76
Query: 74 VFAFSYDN 81
++ S DN
Sbjct: 77 LYLLSTDN 84
>gnl|CDD|225035 COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 411
Score = 29.3 bits (66), Expect = 0.34
Identities = 12/54 (22%), Positives = 19/54 (35%), Gaps = 1/54 (1%)
Query: 13 GGVAGGLNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCR 66
G+ L R + + +DG R R L + A +R R L+
Sbjct: 75 AGLRPRLLRPVLGDGSLLTLDGP-EHTRLRKLLAPAFTPRALRGYRPLIREIAD 127
>gnl|CDD|235152 PRK03705, PRK03705, glycogen debranching enzyme; Provisional.
Length = 658
Score = 26.5 bits (59), Expect = 2.6
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 33 DGNVRWARQRGLPSSAGH-EAGVRSLRELVELCCRW 67
DGNVRW ++ P SA + G + L+ + L RW
Sbjct: 574 DGNVRWLNRQAQPLSADEWQQGPKQLQ--ILLSDRW 607
>gnl|CDD|180701 PRK06801, PRK06801, hypothetical protein; Provisional.
Length = 286
Score = 26.3 bits (58), Expect = 3.1
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 46 SSAGHEAGVRSLRELVELCCRWGVKV 71
S+ +E VR RE+V++C GV V
Sbjct: 106 STLEYEENVRQTREVVKMCHAVGVSV 131
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 26.1 bits (57), Expect = 4.9
Identities = 15/23 (65%), Positives = 17/23 (73%), Gaps = 2/23 (8%)
Query: 51 EAGVRSL-RELVELCCRWGVKVL 72
EAGVRSL RE+ +L CR VK L
Sbjct: 538 EAGVRSLEREISKL-CRKAVKQL 559
>gnl|CDD|237374 PRK13388, PRK13388, acyl-CoA synthetase; Provisional.
Length = 540
Score = 25.8 bits (57), Expect = 4.9
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 11 ARGGVAGGLNREAMPRHVAVIMD 33
AR L P HV V++
Sbjct: 38 ARAAALIALADPDRPLHVGVLLG 60
>gnl|CDD|234048 TIGR02887, spore_ger_x_C, germination protein, Ger(x)C family.
Members of this protein family are restricted to
endospore-forming members of the Firmicutes lineage of
bacteria, including the genera Bacillus, Clostridium,
Thermoanaerobacter, Carboxydothermus, etc. Members are
nearly all predicted lipoproteins and belong to probable
transport operons, some of which have been characterized
as crucial to germination in response to alanine.
Members typically have been gene symbols gerKC, gerAC,
gerYC, etc [Transport and binding proteins, Amino acids,
peptides and amines, Cellular processes, Sporulation and
germination].
Length = 371
Score = 25.7 bits (57), Expect = 5.4
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 84 EVEFLMKLFEKSIKSELEGFIR 105
++ + K EK I+ E+E I+
Sbjct: 295 NLKKIEKEAEKEIEKEIEQLIK 316
>gnl|CDD|212095 cd00451, GH38N_AMII_euk, N-terminal catalytic domain of eukaryotic
class II alpha-mannosidases; glycoside hydrolase family
38 (GH38). The family corresponds to a group of
eukaryotic class II alpha-mannosidases (AlphaMII), which
contain Golgi alpha-mannosidases II (GMII), the major
broad specificity lysosomal alpha-mannosidases (LAM,
MAN2B1), the noval core-specific lysosomal alpha
1,6-mannosidases (Epman, MAN2B2), and similar proteins.
GMII catalyzes the hydrolysis of the terminal both
alpha-1,3-linked and alpha-1,6-linked mannoses from the
high-mannose oligosaccharide GlcNAc(Man)5(GlcNAc)2 to
yield GlcNAc(Man)3(GlcNAc)2 (GlcNAc,
N-acetylglucosmine), which is the committed step of
complex N-glycan synthesis. LAM is a broad specificity
exoglycosidase hydrolyzing all known alpha 1,2-, alpha
1,3-, and alpha 1,6-mannosidic linkages from numerous
high mannose type oligosaccharides. Different from LAM,
Epman can efficiently cleave only the alpha 1,6-linked
mannose residue from (Man)3GlcNAc, but not
(Man)3(GlcNAc)2 or other larger high mannose
oligosaccharides, in the core of N-linked glycans.
Members in this family are retaining glycosyl hydrolases
of family GH38 that employs a two-step mechanism
involving the formation of a covalent glycosyl enzyme
complex. Two carboxylic acids positioned within the
active site act in concert: one as a catalytic
nucleophile and the other as a general acid/base
catalyst.
Length = 258
Score = 25.6 bits (57), Expect = 5.7
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 81 NWVEVEFLMKLFEKSIKSELEGFIR 105
W E+ FL + +E + F +
Sbjct: 47 IWAEIGFLERWWEDQGNDTKQQFKK 71
>gnl|CDD|220812 pfam10566, Glyco_hydro_97, Glycoside hydrolase 97. This is the
97th family of glycosidases, in this case bacterial. The
central part of the GH97 family protein sequences
represents a typical and complete (beta/alpha)8-barrel
or catalytic TIM-barrel type domain. The N- and
C-terminal parts of the sequences, mainly consisting of
beta-strands, most probably form two additional
non-catalytic domains with as yet unknown functions. The
non-catalytic domains of glycosidases from the
alpha-galactosidase and alpha-glucosidase superfamilies
are also predominantly composed of beta-strands, and at
least some of these domains are involved in
oligomerisation and carbohydrate binding. In all known
glycosidases with the (beta-alpha)8-barrel fold, the
amino acid residues at the active site are located on
the C-termini of the beta-strands.
Length = 621
Score = 25.5 bits (56), Expect = 6.0
Identities = 18/80 (22%), Positives = 29/80 (36%), Gaps = 12/80 (15%)
Query: 24 MPRHVAVIMDGNVR---WARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYD 80
+ +A V W Q+ L L E +L +WGV V D
Sbjct: 331 LQELIAYGKSKGVGIILWTNQKAL---------YAQLDEAFKLYEKWGVVGFKVDFLDRD 381
Query: 81 NWVEVEFLMKLFEKSIKSEL 100
+ V ++ + EK+ K +L
Sbjct: 382 DQEMVRWVYEALEKAAKYKL 401
>gnl|CDD|218615 pfam05504, Spore_GerAC, Spore germination B3/ GerAC like,
C-terminal. The GerAC protein of the Bacillus subtilis
spore is required for the germination response to
L-alanine. Members of this family are thought to be
located in the inner spore membrane. Although the
function of this family is unclear, they are likely to
encode the components of the germination apparatus that
respond directly to this germinant, mediating the
spore's response.
Length = 171
Score = 25.2 bits (56), Expect = 6.2
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 77 FSYDNWVEVEFLMKLFEKSIKSELEGFIR 105
N E++ L K EK IK E+E I+
Sbjct: 87 LDLFNPKELKKLEKALEKEIKKEIEKLIK 115
>gnl|CDD|224007 COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate
transport and metabolism].
Length = 274
Score = 25.2 bits (55), Expect = 6.7
Identities = 15/84 (17%), Positives = 28/84 (33%), Gaps = 6/84 (7%)
Query: 22 EAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLTVFAFSYDN 81
+ + V V+ G A P A +L EL E+ G+ + N
Sbjct: 94 KELGAKVVVVHPGLGAGADDPDSPEEARERW-AEALEELAEIAEELGIGLALENHHHPGN 152
Query: 82 WV-----EVEFLMKLFEKSIKSEL 100
V ++ L ++ ++ L
Sbjct: 153 VVETGADALDLLREVDSPNVGLLL 176
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 25.6 bits (57), Expect = 6.8
Identities = 9/16 (56%), Positives = 13/16 (81%), Gaps = 1/16 (6%)
Query: 50 HEAGVRSL-RELVELC 64
EAGVR+L RE+ ++C
Sbjct: 539 REAGVRNLEREIAKIC 554
>gnl|CDD|182155 PRK09936, PRK09936, hypothetical protein; Provisional.
Length = 296
Score = 25.2 bits (55), Expect = 7.1
Identities = 8/24 (33%), Positives = 9/24 (37%)
Query: 37 RWARQRGLPSSAGHEAGVRSLREL 60
A SS G + SLR L
Sbjct: 264 EIASLLAKRSSCGKDTLYFSLRYL 287
>gnl|CDD|224171 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 25.4 bits (56), Expect = 8.2
Identities = 18/59 (30%), Positives = 22/59 (37%), Gaps = 12/59 (20%)
Query: 15 VAGGLNREAMPRHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELVELCCRWGVKVLT 73
A GL M V I +R L +AG R LR +E G+KVL
Sbjct: 160 AARGLKDLGMEVTVVHIAP----TLMERQLDRTAG-----RLLRRKLE---DLGIKVLL 206
>gnl|CDD|224822 COG1910, COG1910, Periplasmic molybdate-binding protein/domain
[Inorganic ion transport and metabolism].
Length = 223
Score = 25.0 bits (55), Expect = 9.2
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 26 RHVAVIMDGNVRWARQRGLPSSAGHEAGVRSLRELV 61
AV++ G + R++GL G+ + SL +L+
Sbjct: 64 PGEAVLIRG---YLREQGLMVQKGNPKNISSLEDLL 96
>gnl|CDD|133129 cd06598, GH31_transferase_CtsZ, CtsZ (cyclic
tetrasaccharide-synthesizing enzyme Z) is a bacterial
6-alpha-glucosyltransferase, first identified in
Arthrobacter globiformis, that produces cyclic
tetrasaccharides together with a closely related enzyme
CtsY. CtsZ and CtsY both have a glycosyl hydrolase
family 31 (GH31) catalytic domain. All GH31 enzymes
cleave a terminal carbohydrate moiety from a substrate
that varies considerably in size, depending on the
enzyme, and may be either a starch or a glycoprotein.
Length = 317
Score = 25.0 bits (55), Expect = 10.0
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 77 FSYDNWVEVEFLMKLF 92
F Y NW EV+ +K
Sbjct: 18 FGYRNWQEVDDTIKTL 33
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
0.324 0.139 0.427
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,439,942
Number of extensions: 465998
Number of successful extensions: 794
Number of sequences better than 10.0: 1
Number of HSP's gapped: 778
Number of HSP's successfully gapped: 57
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.2 bits)