RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6979
(167 letters)
>gnl|CDD|132999 cd00899, b4GalT, Beta-4-Galactosyltransferase is involved in the
formation of the poly-N-acetyllactosamine core
structures present in glycoproteins and
glycosphingolipids. Beta-4-Galactosyltransferase
transfers galactose from uridine diphosphogalactose to
the terminal beta-N-acetylglucosamine residues, hereby
forming the poly-N-acetyllactosamine core structures
present in glycoproteins and glycosphingolipids. At
least seven homologous beta-4-galactosyltransferase
isoforms have been identified that use different types
of glycoproteins and glycolipids as substrates. Of the
seven identified members of the
beta-1,4-galactosyltransferase subfamily (beta1,4-Gal-T1
to -T7), b1,4-Gal-T1 is most characterized
(biochemically). It is a Golgi-resident type II membrane
enzyme with a cytoplasmic domain, membrane spanning
region, and a stem region and catalytic domain facing
the lumen.
Length = 219
Score = 131 bits (333), Expect = 4e-39
Identities = 43/70 (61%), Positives = 54/70 (77%)
Query: 95 PFNRASLFNVGYAEAIKIREFDCFIFHDVDLIPEDDRNLYTCPGMPRHMSVAVDSMNYRL 154
FNRA L NVG+ EA+K ++DCFIFHDVDL+PE+DRNLY C PRH+SV +D +Y+L
Sbjct: 47 RFNRAKLLNVGFLEALKDGDWDCFIFHDVDLLPENDRNLYGCEEGPRHLSVPLDKFHYKL 106
Query: 155 PYASLFGGVS 164
PY + FGGV
Sbjct: 107 PYKTYFGGVL 116
Score = 91.5 bits (228), Expect = 2e-23
Identities = 32/55 (58%), Positives = 40/55 (72%)
Query: 29 QLVNGFSNEYWGWGGEDDDMSNRVKAAGLQIIRYPPDIAKYSMLRHRKEKANPQS 83
+ VNGFSN YWGWGGEDDD+ NR+KAAGL+I R D +Y M+RH +K N +
Sbjct: 124 RKVNGFSNAYWGWGGEDDDLYNRIKAAGLKITRPSGDTGRYKMIRHIHDKRNRDN 178
Score = 33.7 bits (78), Expect = 0.024
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 1 MLVRQQIDYTIFIIEQ 16
L RQQ+DY IF+IEQ
Sbjct: 27 FLQRQQLDYRIFVIEQ 42
>gnl|CDD|222351 pfam13733, Glyco_transf_7N, N-terminal region of glycosyl
transferase group 7. This is the N-terminal half of a
family of galactosyltransferases from a wide range of
Metazoa with three related galactosyltransferases
activities, all three of which are possessed by one
sequence in some cases. EC:2.4.1.90, N-acetyllactosamine
synthase; EC:2.4.1.38,
Beta-N-acetylglucosaminyl-glycopeptide beta-1,4-
galactosyltransferase; and EC:2.4.1.22 Lactose synthase.
Note that N-acetyllactosamine synthase is a component of
Lactose synthase along with alpha-lactalbumin, in the
absence of alpha-lactalbumin EC:2.4.1.90 is the
catalyzed reaction.
Length = 136
Score = 82.9 bits (205), Expect = 5e-21
Identities = 28/43 (65%), Positives = 33/43 (76%)
Query: 95 PFNRASLFNVGYAEAIKIREFDCFIFHDVDLIPEDDRNLYTCP 137
PFNRA L NVG EA++ +DCFI HDVDL+PE+D NLYTC
Sbjct: 92 PFNRAKLLNVGVLEALRDEPWDCFILHDVDLLPENDENLYTCD 134
Score = 30.5 bits (69), Expect = 0.22
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 1 MLVRQQIDYTIFIIEQEVEVPTVPWDKDQLVN 32
L RQQ+ Y IF+IEQ P+++ +L+N
Sbjct: 72 FLQRQQLAYGIFVIEQA---GNGPFNRAKLLN 100
>gnl|CDD|217196 pfam02709, Glyco_transf_7C, N-terminal domain of
galactosyltransferase. This is the N-terminal domain
of a family of galactosyltransferases from a wide range
of Metazoa with three related galactosyltransferases
activities, all three of which are possessed by one
sequence in some cases. EC:2.4.1.90,
N-acetyllactosamine synthase; EC:2.4.1.38,
Beta-N-acetylglucosaminyl-glycopeptide beta-1,4-
galactosyltransferase; and EC:2.4.1.22 Lactose
synthase. Note that N-acetyllactosamine synthase is a
component of Lactose synthase along with
alpha-lactalbumin, in the absence of alpha-lactalbumin
EC:2.4.1.90 is the catalyzed reaction.
Length = 78
Score = 78.4 bits (194), Expect = 6e-20
Identities = 27/45 (60%), Positives = 33/45 (73%)
Query: 31 VNGFSNEYWGWGGEDDDMSNRVKAAGLQIIRYPPDIAKYSMLRHR 75
VNGFSN +WGWGGEDDD+ R+ AGL+I R I +Y MLRH+
Sbjct: 34 VNGFSNNFWGWGGEDDDLYARLLLAGLKIERPKFAIGRYHMLRHK 78
Score = 36.8 bits (86), Expect = 4e-04
Identities = 15/27 (55%), Positives = 18/27 (66%)
Query: 141 RHMSVAVDSMNYRLPYASLFGGVSNIY 167
RH+SVA+D NY+LPY FGGV
Sbjct: 1 RHLSVALDKFNYKLPYKGYFGGVLAFS 27
>gnl|CDD|133042 cd06420, GT2_Chondriotin_Pol_N, N-terminal domain of Chondroitin
polymerase functions as a GalNAc transferase.
Chondroitin polymerase is a two domain, bi-functional
protein. The N-terminal domain functions as a GalNAc
transferase. The bacterial chondroitin polymerase
catalyzes elongation of the chondroitin chain by
alternatively transferring the GlcUA and GalNAc moiety
from UDP-GlcUA and UDP-GalNAc to the non-reducing ends
of the chondroitin chain. The enzyme consists of
N-terminal and C-terminal domains in which the two
active sites catalyze the addition of GalNAc and GlcUA,
respectively. Chondroitin chains range from 40 to over
100 repeating units of the disaccharide. Sulfated
chondroitins are involved in the regulation of various
biological functions such as central nervous system
development, wound repair, infection, growth factor
signaling, and morphogenesis, in addition to its
conventional structural roles. In Caenorhabditis
elegans, chondroitin is an essential factor for the worm
to undergo cytokinesis and cell division. Chondroitin is
synthesized as proteoglycans, sulfated and secreted to
the cell surface or extracellular matrix.
Length = 182
Score = 36.0 bits (84), Expect = 0.004
Identities = 17/35 (48%), Positives = 24/35 (68%), Gaps = 1/35 (2%)
Query: 25 WDKDQL-VNGFSNEYWGWGGEDDDMSNRVKAAGLQ 58
W KD L VNGF E+ GWGGED ++ R+ +G++
Sbjct: 134 WKKDLLAVNGFDEEFTGWGGEDSELVARLLNSGIK 168
>gnl|CDD|220577 pfam10111, Glyco_tranf_2_2, Glycosyltransferase like family 2.
Members of this family of prokaryotic proteins include
putative glucosyltransferase, which are involved in
bacterial capsule biosynthesis.
Length = 278
Score = 32.8 bits (75), Expect = 0.061
Identities = 21/91 (23%), Positives = 31/91 (34%), Gaps = 21/91 (23%)
Query: 31 VNGFSNEYWGWGGEDDDMSNRVKAAGLQIIRYPPDIAKYSMLRHRKEKANPQSSFFPHSI 90
+ GF + G GGED ++ R+ + P D+ Y + K S F
Sbjct: 180 IGGFDENFRGHGGEDFELLYRLLLYY-KKFPPPKDLLTY-----DEYKWPITYSGF---- 229
Query: 91 SEGHPFNRASLFNVGYAEAIKIREFDCFIFH 121
RA +G E + IFH
Sbjct: 230 -------RAYFSYLGLPELFEGI----VIFH 249
>gnl|CDD|171897 PRK13198, ureB, urease subunit beta; Reviewed.
Length = 158
Score = 30.8 bits (69), Expect = 0.22
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 17 EVEVPTVPWDKDQLVNGFSNEYWGWGGE 44
E EVP +P+ Q + GF+N GW GE
Sbjct: 104 ETEVPLIPFGGKQTLYGFNNLVDGWTGE 131
>gnl|CDD|236514 PRK09434, PRK09434, aminoimidazole riboside kinase; Provisional.
Length = 304
Score = 29.9 bits (68), Expect = 0.51
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 123 VDLIPEDDRNLYTCP-GMPRHMSVAV 147
VDLIPE + CP G P +++V +
Sbjct: 13 VDLIPEGENRYLKCPGGAPANVAVGI 38
>gnl|CDD|133029 cd04186, GT_2_like_c, Subfamily of Glycosyltransferase Family GT2
of unknown function. GT-2 includes diverse families of
glycosyltransferases with a common GT-A type structural
fold, which has two tightly associated beta/alpha/beta
domains that tend to form a continuous central sheet of
at least eight beta-strands. These are enzymes that
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. Glycosyltransferases have been
classified into more than 90 distinct sequence based
families.
Length = 166
Score = 28.7 bits (65), Expect = 1.1
Identities = 11/41 (26%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 23 VPWDKDQLVNGFSNEYWGWGGEDDDMSNRVKAAGLQIIRYP 63
V + + V GF +++ + ED D+ R + AG +++ P
Sbjct: 119 VRREVFEEVGGFDEDFFLYY-EDVDLCLRARLAGYRVLYVP 158
>gnl|CDD|236539 PRK09490, metH, B12-dependent methionine synthase; Provisional.
Length = 1229
Score = 27.8 bits (63), Expect = 3.2
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 10/50 (20%)
Query: 127 PED---DRNLYT-CPGMPRHMSVAVDSMN------YRLPYASLFGGVSNI 166
PED D N++ G+ H + AVD + LP+A + GGVSN+
Sbjct: 519 PEDIIFDPNIFAVATGIEEHNNYAVDFIEATRWIKQNLPHAKISGGVSNV 568
>gnl|CDD|99737 cd00613, GDC-P, Glycine cleavage system P-protein, alpha- and
beta-subunits. This family consists of Glycine cleavage
system P-proteins EC:1.4.4.2 from bacterial, mammalian
and plant sources. The P protein is part of the glycine
decarboxylase multienzyme complex EC:2.1.2.10 (GDC) also
annotated as glycine cleavage system or glycine
synthase. GDC consists of four proteins P, H, L and T.
The reaction catalysed by this protein is: Glycine +
lipoylprotein <=> S-aminomethyldihydrolipoylprotein +
CO2. Alpha-beta-type dimers associate to form an
alpha(2)beta(2) tetramer, where the alpha- and
beta-subunits are structurally similar and appear to
have arisen by gene duplication and subsequent
divergence with a loss of one active site. The members
of this CD are widely dispersed among all three forms of
cellular life.
Length = 398
Score = 27.6 bits (62), Expect = 3.3
Identities = 11/47 (23%), Positives = 13/47 (27%), Gaps = 5/47 (10%)
Query: 71 MLRHRKEKANPQSSFFPHSISEGHPFNRASLFNVGYAEAIKIREFDC 117
K N P S HP N A G I++ E
Sbjct: 100 AAIRAYHKRN--KVLVPDSA---HPTNPAVARTRGEPLGIEVVEVPS 141
>gnl|CDD|214341 CHL00032, ndhA, NADH dehydrogenase subunit 1.
Length = 363
Score = 27.2 bits (61), Expect = 4.9
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 2 LVRQQIDYTIFIIEQEVEVPTVPWD----KDQLVNGFSNEYWG 40
L RQ I + +F+I E +P+D +++LV G+ EY G
Sbjct: 208 LWRQPIGFIVFLISSLAECERLPFDLPEAEEELVAGYQTEYSG 250
>gnl|CDD|235487 PRK05474, PRK05474, xylose isomerase; Provisional.
Length = 437
Score = 26.7 bits (60), Expect = 6.9
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 118 FIFHDVDLIPEDD 130
+ FHDVD+ PE
Sbjct: 96 YCFHDVDVAPEGA 108
>gnl|CDD|224137 COG1216, COG1216, Predicted glycosyltransferases [General function
prediction only].
Length = 305
Score = 26.3 bits (58), Expect = 8.2
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 31 VNGFSNEYWGWGGEDDDMSNRVKAAGLQIIRYP 63
V GF ++ + ED D+ R + AG +I P
Sbjct: 182 VGGFDERFFIYY-EDVDLCLRARKAGYKIYYVP 213
>gnl|CDD|176457 cd01703, PolY_Pol_iota, DNA Polymerase iota. Pol iota, also called
Rad30B, is a translesion synthesis (TLS) polymerase.
Translesion synthesis is a process that allows the
bypass of a variety of DNA lesions. TLS polymerases
lack proofreading activity and have low fidelity and low
processivity. They use damaged DNA as templates and
insert nucleotides opposite the lesions. Pol iota is
thought to be one of the least efficient polymerases,
particularly when opposite pyrimidines; it can
incorporate the correct nucleotide opposite a purine
much more efficiently than opposite a pyrimidine, and
prefers to insert guanosine instead of adenosine
opposite thymidine. Pol iota is believed to use
Hoogsteen rather than Watson-Crick base pairing, which
may explain the varying efficiency for different
template nucleotides.
Length = 379
Score = 26.3 bits (58), Expect = 8.2
Identities = 18/88 (20%), Positives = 27/88 (30%), Gaps = 14/88 (15%)
Query: 78 KANPQSSFFPHSISEGHPFNRA----SLFNVGYAEAIKIREFDCFIFHDVDLIPEDDRNL 133
K N Q++ P S ++ F + +GY A K+ R+L
Sbjct: 150 KPNQQTTLLPPSCADLMDFMDLHDLRKIPGIGYKTAAKLE----------AHGISSVRDL 199
Query: 134 YTCPGMPRHMSVAVDSMNYRLPYASLFG 161
R A S+ L FG
Sbjct: 200 QEFSNRNRQTVGAAPSLLELLLMVKEFG 227
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
0.322 0.140 0.440
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,866,402
Number of extensions: 806155
Number of successful extensions: 590
Number of sequences better than 10.0: 1
Number of HSP's gapped: 590
Number of HSP's successfully gapped: 29
Length of query: 167
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 77
Effective length of database: 6,945,742
Effective search space: 534822134
Effective search space used: 534822134
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 (21.9 bits)
S2: 55 (25.1 bits)