RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5980
(103 letters)
>gnl|CDD|100087 cd03085, PGM1, Phosphoglucomutase 1 (PGM1) catalyzes the
bidirectional interconversion of glucose-1-phosphate
(G-1-P) and glucose-6-phosphate (G-6-P) via a glucose
1,6-diphosphate intermediate, an important metabolic
step in prokaryotes and eukaryotes. In one direction,
G-1-P produced from sucrose catabolism is converted to
G-6-P, the first intermediate in glycolysis. In the
other direction, conversion of G-6-P to G-1-P generates
a substrate for synthesis of UDP-glucose which is
required for synthesis of a variety of cellular
constituents including cell wall polymers and
glycoproteins. The PGM1 family also includes a
non-enzymatic PGM-related protein (PGM-RP) thought to
play a structural role in eukaryotes, as well as
pp63/parafusin, a phosphoglycoprotein that plays an
important role in calcium-regulated exocytosis in
ciliated protozoans. PGM1 belongs to the
alpha-D-phosphohexomutase superfamily which includes
several related enzymes that catalyze a reversible
intramolecular phosphoryl transfer on their sugar
substrates. Other members of this superfamily include
phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 548
Score = 173 bits (441), Expect = 4e-53
Identities = 62/101 (61%), Positives = 74/101 (73%), Gaps = 4/101 (3%)
Query: 2 VDGAQFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKK 61
G F V+VIDSVE Y++LMKEIFDF ++ L+ R FK+ ++MHGVTGPY KK
Sbjct: 170 FGGKPFTVEVIDSVEDYVELMKEIFDFDAIKKLLS----RKGFKVRFDAMHGVTGPYAKK 225
Query: 62 IFLEELGAQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQAM 102
IF+EELGA + VN TPLPDFGG HPDPNLTYA DLV+ M
Sbjct: 226 IFVEELGAPESSVVNCTPLPDFGGGHPDPNLTYAKDLVELM 266
>gnl|CDD|177942 PLN02307, PLN02307, phosphoglucomutase.
Length = 579
Score = 142 bits (360), Expect = 2e-41
Identities = 52/97 (53%), Positives = 66/97 (68%), Gaps = 4/97 (4%)
Query: 6 QFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLE 65
F V+VID VE Y++LMK IFDF ++ L+ RP F ++MHGVTG Y K+IF+E
Sbjct: 191 DFDVEVIDPVEDYVKLMKSIFDFELIKKLLS----RPDFTFCFDAMHGVTGAYAKRIFVE 246
Query: 66 ELGAQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQAM 102
ELGA + +N P DFGG HPDPNLTYA +LV+ M
Sbjct: 247 ELGAPESSLLNCVPKEDFGGGHPDPNLTYAKELVKRM 283
>gnl|CDD|223111 COG0033, Pgm, Phosphoglucomutase [Carbohydrate transport and
metabolism].
Length = 524
Score = 92.8 bits (231), Expect = 1e-23
Identities = 32/94 (34%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 9 VDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLEELG 68
V +ID V+ Y++L++EIFDF ++ +L + + GVTGPY K I + L
Sbjct: 178 VKIIDPVKDYVELLEEIFDFDAIRKAGL--------RLGFDPLGGVTGPYWKAIAEKYLL 229
Query: 69 AQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQAM 102
N P PDF G PD N+ AM
Sbjct: 230 NLTGVNQNVDPTPDFMGLDPDGNIRMDCSSPCAM 263
>gnl|CDD|236050 PRK07564, PRK07564, phosphoglucomutase; Validated.
Length = 543
Score = 91.4 bits (228), Expect = 5e-23
Identities = 32/103 (31%), Positives = 48/103 (46%), Gaps = 15/103 (14%)
Query: 4 GAQFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIF 63
A V+VID V Y++ ++ +FDF ++ +G +L ++ + G TGPY K I
Sbjct: 195 LASMTVEVIDPVADYVEDLENVFDFDAIRK-----AG---LRLGVDPLGGATGPYWKAIA 246
Query: 64 ------LEELGAQPDNAVNTTPLPDFGGHHPDPNLTYA-ADLV 99
L + A D N PL D G D + YA A L+
Sbjct: 247 ERYGLDLTVVNAPVDPTFNFMPLDDDGKIRMDCSSPYAMAGLL 289
>gnl|CDD|224034 COG1109, {ManB}, Phosphomannomutase [Carbohydrate transport and
metabolism].
Length = 464
Score = 55.8 bits (135), Expect = 1e-10
Identities = 21/95 (22%), Positives = 45/95 (47%), Gaps = 11/95 (11%)
Query: 9 VDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLEELG 68
+ D+++ Y++ +K + D K++++ +G G ++ L+ELG
Sbjct: 153 KRIPDALDRYIEFIKSLVDVDLKLR---------GLKVVVDCANGAAGLVAPRL-LKELG 202
Query: 69 AQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQAMQ 103
A+ + +N P F +P+P T DL +A++
Sbjct: 203 AEVVS-INCDPDGLFPNINPNPGETELLDLAKAVK 236
>gnl|CDD|100086 cd03084, phosphohexomutase, The alpha-D-phosphohexomutase
superfamily includes several related enzymes that
catalyze a reversible intramolecular phosphoryl transfer
on their sugar substrates. Members of this family
include the phosphoglucomutases (PGM1 and PGM2),
phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). These
enzymes play important and diverse roles in carbohydrate
metabolism in organisms from bacteria to humans. Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 355
Score = 52.7 bits (127), Expect = 2e-09
Identities = 27/97 (27%), Positives = 49/97 (50%), Gaps = 14/97 (14%)
Query: 4 GAQFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIF 63
G+ VD++ Y + +K++FD + + FK++++S++GV GP ++
Sbjct: 84 GSVKAVDILQR---YFEALKKLFDV----AALSNK----KFKVVVDSVNGVGGPIAPQLL 132
Query: 64 LEELGAQPDNAVNTTPLPDFGGHHPDPN-LTYAADLV 99
E+LGA +N P +FG +PDP T L+
Sbjct: 133 -EKLGA-EVIPLNCEPDGNFGNINPDPGSETNLKQLL 167
>gnl|CDD|100093 cd05800, PGM_like2, This PGM-like (phosphoglucomutase-like) protein
of unknown function belongs to the
alpha-D-phosphohexomutase superfamily and is found in
both archaea and bacteria. The
alpha-D-phosphohexomutases include several related
enzymes that catalyze a reversible intramolecular
phosphoryl transfer on their sugar substrates. Other
members of this superfamily include phosphoglucosamine
mutase (PNGM), phosphoacetylglucosamine mutase (PAGM),
the bacterial phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four structural domains (subdomains)
with a centrally located active site formed by four
loops, one from each subdomain. All four subdomains are
included in this alignment model.
Length = 461
Score = 52.6 bits (127), Expect = 2e-09
Identities = 21/102 (20%), Positives = 46/102 (45%), Gaps = 10/102 (9%)
Query: 1 MVDGAQFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVK 60
+ A+ ++ ID YL+ ++ + D I+ + K++++ M+G Y++
Sbjct: 139 LEARAEGLIETIDPKPDYLEALRSLVDL----EAIREAGL----KVVVDPMYGAGAGYLE 190
Query: 61 KIFLEELGAQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQAM 102
++ L G + + P FGG P+P +L +A+
Sbjct: 191 EL-LRGAGVDVE-EIRAERDPLFGGIPPEPIEKNLGELAEAV 230
>gnl|CDD|217264 pfam02879, PGM_PMM_II, Phosphoglucomutase/phosphomannomutase,
alpha/beta/alpha domain II.
Length = 103
Score = 50.0 bits (120), Expect = 2e-09
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 14/90 (15%)
Query: 16 EVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLEELGAQPDNAV 75
+ Y+ + FD L+ + K++ + +HGV G + ++ L+ LGA+ +
Sbjct: 1 DAYIDRLASAFDLEALK--------KRGLKVVYDPLHGVGGEILPEL-LKRLGAEV-VEL 50
Query: 76 NTTPLPDFGGHHPDP----NLTYAADLVQA 101
N P DF P+P L +LV+
Sbjct: 51 NCEPDGDFPTKAPNPEEPEALELLIELVKE 80
>gnl|CDD|100091 cd03089, PMM_PGM, The phosphomannomutase/phosphoglucomutase
(PMM/PGM) bifunctional enzyme catalyzes the reversible
conversion of 1-phospho to 6-phospho-sugars (e.g.
between mannose-1-phosphate and mannose-6-phosphate or
glucose-1-phosphate and glucose-6-phosphate) via a
bisphosphorylated sugar intermediate. The reaction
involves two phosphoryl transfers, with an intervening
180 degree reorientation of the reaction intermediate
during catalysis. Reorientation of the intermediate
occurs without dissociation from the active site of the
enzyme and is thus, a simple example of processivity, as
defined by multiple rounds of catalysis without release
of substrate. Glucose-6-phosphate and
glucose-1-phosphate are known to be utilized for energy
metabolism and cell surface construction, respectively.
PMM/PGM belongs to the alpha-D-phosphohexomutase
superfamily which includes several related enzymes that
catalyze a reversible intramolecular phosphoryl transfer
on their sugar substrates. Other members of this
superfamily include phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the
phosphoglucomutases (PGM1 and PGM2). Each of these
enzymes has four domains with a centrally located active
site formed by four loops, one from each domain. All
four domains are included in this alignment model.
Length = 443
Score = 41.0 bits (97), Expect = 2e-05
Identities = 23/102 (22%), Positives = 41/102 (40%), Gaps = 20/102 (19%)
Query: 4 GAQFQVDVIDSVEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIF 63
G+ +VD++ Y+ + G+ P K+++++ +G GP ++
Sbjct: 138 GSVEKVDIL---PDYIDRLLSDIKL-----------GKRPLKVVVDAGNGAAGPIAPQLL 183
Query: 64 LEELGAQPDNAVNTTPLPDFGGHHPDP----NLTYAADLVQA 101
E LG + + P F HHPDP NL V+
Sbjct: 184 -EALGCEVI-PLFCEPDGTFPNHHPDPTDPENLEDLIAAVKE 223
>gnl|CDD|234431 TIGR03990, Arch_GlmM, phosphoglucosamine mutase. The MMP1680
protein from Methanococcus maripaludis has been
characterized as the archaeal protein responsible for
the second step of UDP-GlcNAc biosynthesis. This GlmM
protein catalyzes the conversion of
glucosamine-6-phosphate to glucosamine-1-phosphate. The
first-characterized bacterial GlmM protein is modeled by
TIGR01455. These two families are members of the larger
phosphoglucomutase/phosphomannomutase family
(characterized by three domains: pfam02878, pfam02879
and pfam02880), but are not nearest neighbors to each
other. This model also includes a number of sequences
from non-archaea in the Bacteroides, Chlorobi,
Chloroflexi, Planctomycetes and Spirochaetes lineages.
Evidence supporting their inclusion in this equivalog as
having the same activity comes from genomic context and
phylogenetic profiling. A large number of these
organisms are known to produce exo-polysaccharide and
yet only appeared to contain the GlmS enzyme of the
GlmSMU pathway for UDP-GlcNAc biosynthesis
(GenProp0750). In some organisms including Leptospira,
this archaeal GlmM is found adjacent to the GlmS as well
as a putative GlmU non-orthologous homolog. Phylogenetic
profiling of the GlmS-only pattern using PPP identifies
members of this archaeal GlmM family as the
highest-scoring result [Central intermediary metabolism,
Amino sugars].
Length = 443
Score = 37.9 bits (89), Expect = 3e-04
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 11/65 (16%)
Query: 43 PFKLLI---NSMHGVTGPYVKKIFLEELGAQPDNAVNTTPLPDFGGHHPDP---NLTYAA 96
FK+++ N +T PY+ L ELG + +N P F G +P+P NL +
Sbjct: 169 GFKVVVDCGNGAGSLTTPYL----LRELGCKVI-TLNCQPDGTFPGRNPEPTPENLKDLS 223
Query: 97 DLVQA 101
LV+A
Sbjct: 224 ALVKA 228
>gnl|CDD|240294 PTZ00150, PTZ00150, phosphoglucomutase-2-like protein; Provisional.
Length = 584
Score = 33.1 bits (76), Expect = 0.014
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 23/87 (26%)
Query: 10 DVIDS----VEVYLQLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLE 65
V D + Y +K ++ R K++ +MHGV +V+K
Sbjct: 199 LVEDPLAEVSDAYFATLKSEYNPACCD--------RSKVKIVYTAMHGVGTRFVQKAL-H 249
Query: 66 ELG----------AQPDNAVNTTPLPD 82
+G A+PD T P+
Sbjct: 250 TVGLPNLLSVAQQAEPDPEFPTVTFPN 276
>gnl|CDD|100096 cd05803, PGM_like4, This PGM-like (phosphoglucomutase-like) domain
is located C-terminal to a mannose-1-phosphate
guanyltransferase domain in a protein of unknown
function that is found in both prokaryotes and
eukaryotes. This domain belongs to the
alpha-D-phosphohexomutase superfamily which includes
several related enzymes that catalyze a reversible
intramolecular phosphoryl transfer on their sugar
substrates. Members of this superfamily include the
phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine
mutase (PNGM), phosphoacetylglucosamine mutase (PAGM),
the bacterial phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 445
Score = 30.0 bits (68), Expect = 0.18
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 44 FKLLINSMHGVTGPYVKKIFLEELGAQPDNAVNTTPLPDFGGHHPDP---NLTYAADLV 99
FK+ ++S++G G + + LE+LG + +N P F H P+P NLT V
Sbjct: 174 FKVAVDSVNGAGGLLIPR-LLEKLGCEVI-VLNCEPTGLF-PHTPEPLPENLTQLCAAV 229
>gnl|CDD|131070 TIGR02015, BchY, chlorophyllide reductase subunit Y. This model
represents the Y subunit of the three-subunit enzyme,
(bacterio)chlorophyllide reductase. This enzyme is
responsible for the reduction of the chlorin B-ring and
is closely related to the protochlorophyllide reductase
complex which reduces the D-ring. Both of these
complexes in turn are homologous to nitrogenase [Energy
metabolism, Photosynthesis].
Length = 422
Score = 28.7 bits (64), Expect = 0.42
Identities = 21/57 (36%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 50 SMHGVTGPYVKKIFLEE-----LGAQPDNAVNTTPLPDFGGHHPDPNLTYAADLVQA 101
M GV Y LE+ L +PD A+ TTPL F H P L Y +L+ A
Sbjct: 332 EMLGVEVKYRA--SLEDDMEAVLEFEPDLAIGTTPLVQFAKEHGIPAL-YFTNLISA 385
>gnl|CDD|100092 cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and
PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2
is thought to be a phosphopentomutase that catalyzes the
conversion of the nucleoside breakdown products,
ribose-1-phosphate and deoxyribose-1-phosphate to the
corresponding 5-phosphopentoses. PGM2L1 is thought to
catalyze the 1,3-bisphosphoglycerate-dependent synthesis
of glucose 1,6-bisphosphate and other
aldose-bisphosphates that serve as cofactors for several
sugar phosphomutases and possibly also as regulators of
glycolytic enzymes. PGM2 and PGM2L1 belong to the
alpha-D-phosphohexomutase superfamily which includes
several related enzymes that catalyze a reversible
intramolecular phosphoryl transfer on their sugar
substrates. Other members of this superfamily include
phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 487
Score = 27.5 bits (62), Expect = 1.1
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 20 QLMKEIFDFPKLQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIFLEELG 68
++ + K + + K++ +HGV G +V + L+E G
Sbjct: 163 EIDDAYLEAVKKLLVNPELNEGKDLKIVYTPLHGVGGKFVPRA-LKEAG 210
>gnl|CDD|214535 smart00139, MyTH4, Domain in Myosin and Kinesin Tails. Domain
present twice in myosin-VIIa, and also present in 3
other myosins.
Length = 152
Score = 26.9 bits (60), Expect = 1.5
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 16/64 (25%)
Query: 16 EVYLQLMKEIFDFPKLQSLIKG-------SSGRPPFKLLINSMHGVTGPYVKKIFLEELG 68
E+Y QL+K++ D P QS +G +S PP + L+ PY+ + FL
Sbjct: 64 EIYCQLIKQLTDNPSRQSEERGWQLLYLCTSLFPPSERLL--------PYLLQ-FLSRRA 114
Query: 69 AQPD 72
Sbjct: 115 DPGS 118
>gnl|CDD|185312 PRK15414, PRK15414, phosphomannomutase CpsG; Provisional.
Length = 456
Score = 27.2 bits (60), Expect = 1.5
Identities = 27/97 (27%), Positives = 39/97 (40%), Gaps = 23/97 (23%)
Query: 19 LQLMKEIFDFPKLQSLIKGSSGR--------------------PPFKLLINSMHGVTGPY 58
+Q + E DFP + +G + P KL+INS +G GP
Sbjct: 126 VQRLAEANDFPPVDETKRGRYQQINLRDAYVDHLFGYINVKNLTPLKLVINSGNGAAGPV 185
Query: 59 VKKI--FLEELGAQPDN-AVNTTPLPDFGGHHPDPNL 92
V I + LGA + V+ TP +F P+P L
Sbjct: 186 VDAIEARFKALGAPVELIKVHNTPDGNFPNGIPNPLL 222
>gnl|CDD|219260 pfam06999, Suc_Fer-like, Sucrase/ferredoxin-like. This family
contains a number of bacterial and eukaryotic proteins
approximately 400 residues long that resemble ferredoxin
and appear to have sucrolytic activity.
Length = 218
Score = 26.9 bits (60), Expect = 1.6
Identities = 13/40 (32%), Positives = 16/40 (40%)
Query: 53 GVTGPYVKKIFLEELGAQPDNAVNTTPLPDFGGHHPDPNL 92
G+TGP + K F EL GGH PN+
Sbjct: 138 GITGPPLYKEFRAELADLGLYRDRVWECSHIGGHKFAPNV 177
>gnl|CDD|132796 cd06886, PX_SNX27, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 27. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system.
The PX domain of SNXs binds PIs and targets the protein
to PI-enriched membranes. SNXs differ from each other
in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. SNX27
contains an N-terminal PDZ domain followed by a PX
domain and a Ras-Associated (RA) domain. It binds G
protein-gated potassium (Kir3) channels, which play a
role in neuronal excitability control, through its PDZ
domain. SNX27 downregulates Kir3 channels by promoting
their movement in the endosome, reducing surface
expression and increasing degradation. SNX27 also
associates with 5-hydroxytryptamine type 4 receptor
(5-HT4R), cytohesin associated scaffolding protein
(CASP), and diacylglycerol kinase zeta, and may play a
role in their intracellular trafficking and endocytic
recycling. The SNX27 PX domain preferentially binds to
phosphatidylinositol-3-phosphate (PI3P) and is
important for targeting to the early endosome.
Length = 106
Score = 25.8 bits (57), Expect = 2.5
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 9/34 (26%)
Query: 15 VEVYLQLMKEI--FDFPKLQSLIKGSSGRPPFKL 46
++ L KE F FPKL G+ PF L
Sbjct: 42 ANLHQNLKKEFPDFQFPKL-------PGKWPFSL 68
>gnl|CDD|233955 TIGR02627, rhamnulo_kin, rhamnulokinase. This model describes
rhamnulokinase, an enzyme that catalyzes the second step
in rhamnose catabolism.
Length = 454
Score = 26.3 bits (58), Expect = 3.3
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 22 MKEIFDFPKLQSLIKGSSGRPPFKLLIN 49
++I D P +LI+ + P FK +IN
Sbjct: 303 ERDINDLP---ALIEQAQALPAFKSIIN 327
>gnl|CDD|224058 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 26.1 bits (58), Expect = 3.3
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 8 QVDVIDSVE-VYLQLMKEIFDFPK---LQSLIKGSSGRPPFKLLINSMHGVTGPYVKKIF 63
+V V+D V + E+F PK Q I + + L+ + GP ++ F
Sbjct: 211 RVAVLDQGRLVEEGTVSEVFANPKHAITQEFIGETLEIDLPEELLERLESGDGPLLRLTF 270
Query: 64 LEELGAQP 71
E QP
Sbjct: 271 TGESADQP 278
>gnl|CDD|239360 cd03062, TRX_Fd_Sucrase, TRX-like [2Fe-2S] Ferredoxin (Fd)
family, Sucrase subfamily; composed of proteins with
similarity to a novel plant enzyme, isolated from
potato, which contains a Fd-like domain and exhibits
sucrolytic activity. The putative active site of the
Fd-like domain of the enzyme contains two cysteines and
two histidines for possible binding to iron-sulfur
clusters, compared to four cysteines present in the
active site of Fd.
Length = 97
Score = 25.7 bits (57), Expect = 3.3
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 53 GVTGPYVKKIFLEELGAQPDNAVNTTPLPDFGGH 86
G+ GP + EL V + GGH
Sbjct: 17 GICGPPLAAELRAELPEHGPGGVRVWEVSHVGGH 50
>gnl|CDD|216118 pfam00784, MyTH4, MyTH4 domain. Domain in myosin and kinesin
tails, present twice in myosin-VIIa, and also present
in 3 other myosins.
Length = 106
Score = 25.4 bits (56), Expect = 4.8
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 16 EVYLQLMKEIFDFPKLQSLIKG 37
E+Y Q++K+ P QS ++G
Sbjct: 23 EIYCQIIKQTTKNPSKQSALRG 44
>gnl|CDD|239623 cd03565, VHS_Tom1, VHS domain family, Tom1 subfamily; The VHS
domain is an essential part of Tom1 (Target of myb1 -
retroviral oncogene) protein. The VHS domain has a
superhelical structure similar to the structure of the
ARM repeats and is present at the very N-termini of
proteins. It is a right-handed superhelix of eight alpha
helices. The VHS domain has been found in a number of
proteins, some of which have been implicated in
intracellular trafficking and sorting. The VHS domain of
the Tom1 protein is essential for the negative
regulation of Interleukin-1 and Tumor Necrosis
Factor-induced signaling pathways.
Length = 141
Score = 25.5 bits (56), Expect = 5.3
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 3 DGAQFQVDVIDSVEVYLQLMKEIFDFP 29
D + D+ VEVY +L K+ +FP
Sbjct: 115 DAFRGSPDLTGVVEVYEELKKKGIEFP 141
>gnl|CDD|182006 PRK09633, ligD, ATP-dependent DNA ligase; Reviewed.
Length = 610
Score = 25.8 bits (57), Expect = 5.7
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 20 QLMKEIFDFPKLQSLIKGSSGR 41
+K +FD L S +K S +
Sbjct: 455 LELKRLFDQFGLTSFVKTSGNK 476
>gnl|CDD|215742 pfam00136, DNA_pol_B, DNA polymerase family B. This region of DNA
polymerase B appears to consist of more than one
structural domain, possibly including elongation,
DNA-binding and dNTP binding activities.
Length = 458
Score = 25.7 bits (57), Expect = 5.8
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 45 KLLINSMHGVTG 56
K+ NS++G TG
Sbjct: 160 KVTANSVYGFTG 171
>gnl|CDD|240136 cd04866, LigD_Pol_like_3, LigD_Pol_like_3: Polymerase (Pol) domain
of bacterial LigD proteins similar to Pseudomonas
aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain
belongs to the archaeal/eukaryal primase (AEP)
superfamily. In prokaryotes, LigD along with Ku is
required for non-homologous end joining (NHEJ)-mediated
repair of DNA double-strand breaks (DSB). NHEJ-mediated
DNA DSB repair is error-prone. It has been suggested
that LigD Pol contributes to NHEJ-mediated repair DSB
repair in vivo, by filling in short 5'-overhangs with
ribonucleotides; the filled in termini would then be
sealed by the associated LigD ligase domain, resulting
in short stretches of RNA incorporated into the genomic
DNA. The Pol domains of PaeLigD and Mycobacterium
tuberculosis (Mt)LigD are stimulated by manganese, are
error-prone, and prefer adding rNTPs to dNTPs in vitro;
however PaeLigD and MtLigD belong to other subgroups,
proteins in this subgroup await functional
characterization.
Length = 223
Score = 25.5 bits (56), Expect = 6.6
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 20 QLMKEIFDFPKLQSLIKGSSGR 41
L+KEI D L S +K S +
Sbjct: 116 NLLKEILDALGLTSFVKTSGNK 137
>gnl|CDD|145046 pfam01691, Adeno_E1B_19K, Adenovirus E1B 19K protein / small
t-antigen. This family consists of adenovirus E1B 19K
protein or small t-antigen. The E1B 19K protein
inhibits E1A induced apoptosis and hence prolongs the
viability of the host cell. It can also inhibit
apoptosis mediated by tumour necrosis factor alpha and
Fas antigen. E1B 19K blocks apoptosis by interacting
with and inhibiting the p53-inducible and death-
promoting Bax protein. The E1B region of adenovirus
encodes two proteins E1B 19K the small t-antigen as
found in this family and E1B 55K the large t-antigen
which is not found in this family; both of these
proteins inhibit E1A induced apoptosis.
Length = 135
Score = 24.9 bits (55), Expect = 6.7
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 19 LQLMKEIFDFPKLQSLIKGSSGRPPF 44
+ L+K + DF L+ L++G+S R +
Sbjct: 1 MDLLKILEDFKSLRRLLEGASNRTSW 26
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
0.319 0.139 0.410
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,463,910
Number of extensions: 466386
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 395
Number of HSP's successfully gapped: 33
Length of query: 103
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 34
Effective length of database: 7,877,176
Effective search space: 267823984
Effective search space used: 267823984
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 (21.7 bits)
S2: 53 (24.2 bits)