RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5286
(311 letters)
>gnl|CDD|217617 pfam03567, Sulfotransfer_2, Sulfotransferase family. This family
includes a variety of sulfotransferase enzymes.
Chondroitin 6-sulfotransferase catalyzes the transfer of
sulfate to position 6 of the N-acetylgalactosamine
residue of chondroitin. This family also includes
Heparan sulfate 2-O-sulfotransferase (HS2ST) and Heparan
sulfate 6-sulfotransferase (HS6ST). Heparan sulfate (HS)
is a co-receptor for a number of growth factors,
morphogens, and adhesion proteins. HS biosynthetic
modifications may determine the strength and outcome of
HS-ligand interactions. Mice that lack HS2ST undergo
developmental failure only after midgestation,the most
dramatic effect being the complete failure of kidney
development. Heparan sulphate 6- O -sulfotransferase
(HS6ST) catalyzes the transfer of sulphate from
adenosine 3'-phosphate, 5'-phosphosulphate to the 6th
position of the N -sulphoglucosamine residue in heparan
sulphate.
Length = 238
Score = 112 bits (282), Expect = 1e-29
Identities = 56/268 (20%), Positives = 86/268 (32%), Gaps = 50/268 (18%)
Query: 29 VIIYNRVPKTGSTSFVNMAYDMCRKKRFNVLHVNVTGNNHVLSLADQYRFVNNVTKWRDR 88
I+Y RVPK STS+ + + + +F +N ++ W
Sbjct: 5 KIVYCRVPKVASTSWKRILCVLYGENKF-------LADNRSIND-----------TWAHS 46
Query: 89 RPALYHGHFGFIDFQQFGSKE------QPLFINILRKPLDRLVSYYYFLRYGDNYRPHLV 142
+ + H F D + S E + +R P +R VS Y G NY +
Sbjct: 47 KRSCGWSHGSFRDLSELTSCEIRKRLRKYFKFAFVRDPFERFVSAYRNKCVGANYGSDMR 106
Query: 143 RK-----KHGDKTTFDECIRLNRTECSLENMWLQVPFLCGHAA-ACWVPGNPWALEKAKE 196
K G +F+E + L N+ + + H A C
Sbjct: 107 CKGRKPTDDGSGVSFEEFVEC------LLNLAPERTYFDRHWAPQC----------DLCH 150
Query: 197 NLVTKYLLVGVTEELTDFVSLLEAALPSFFRGGTDHFLTSNKSH----LRRTNRKIDPSE 252
+ KY LVG E L + S + L R G F T+R E
Sbjct: 151 PCLIKYDLVGKYETLEEDASAILRLLGRLRRQGVPLFGLEEIPRDLETAHSTHRSTKRLE 210
Query: 253 ETVQQIKKSKIWELENELYEYALEQFHF 280
K+ E+YE+ E F +
Sbjct: 211 AEYFVRIDPKLRRRLYEIYEFDFELFGY 238
>gnl|CDD|239860 cd04395, RhoGAP_ARHGAP21, RhoGAP_ARHGAP21: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP21-like proteins. ArhGAP21 is a multi-domain
protein, containing RhoGAP, PH and PDZ domains, and is
believed to play a role in the organization of the
cell-cell junction complex. It has been shown to
function as a GAP of Cdc42 and RhoA, and to interact
with alpha-catenin and Arf6. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 196
Score = 33.1 bits (76), Expect = 0.090
Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 13/105 (12%)
Query: 184 VPGNPWALEKAKENLVTKYLLVGVTEELTDFVSLLEAALPSFFRGGTDHFLTSNKSH-LR 242
VPGN A+ +E L + + + V+++ + L SFFR + T+
Sbjct: 42 VPGNNAAISALQEELNRGGFDIDLQDPRWRDVNVVSSLLKSFFRKLPEPLFTNELYPDFI 101
Query: 243 RTNRKIDPSEETVQQIKKSKIWELEN---ELYEYALEQFHFVKKH 284
NR DP E ++ EL L ++ E + +H
Sbjct: 102 EANRIEDPVE---------RLKELRRLIHSLPDHHYETLKHLIRH 137
>gnl|CDD|216059 pfam00685, Sulfotransfer_1, Sulfotransferase domain.
Length = 254
Score = 33.1 bits (76), Expect = 0.15
Identities = 20/148 (13%), Positives = 42/148 (28%), Gaps = 20/148 (13%)
Query: 35 VPKTGST---SFVNMAYDMCRKKRFNVLHVNVTGNNHVLSLADQYRFVNNVTKWRDRRPA 91
PK+G+T +++ + ++F ++ ++ + Y
Sbjct: 9 YPKSGTTWLQEILSLIPNRGDFEKFE--EPHLFNPHNRSPFLEWYDLFVIFDVAEGPVRL 66
Query: 92 LYHGHFGFIDFQQFGSKEQPLF-------INILRKPLDRLVSYYYFLRYGDNYRPHLVRK 144
I I ++R P D VSYY+F R +
Sbjct: 67 NALPSPRIIKTHLPLHLLPKSLWDPNAKIIYLVRNPKDVAVSYYHFFRM--------AKI 118
Query: 145 KHGDKTTFDECIRLNRTECSLENMWLQV 172
T F+ + + + + V
Sbjct: 119 LKAPGTPFEFVEDFLNGKVNCGSYFDHV 146
>gnl|CDD|100003 cd05844, GT1_like_7, Glycosyltransferases catalyze the transfer
of sugar moieties from activated donor molecules to
specific acceptor molecules, forming glycosidic bonds.
The acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed
for nucleotide-sugar-dependent glycosyltransferases.
GTB proteins have distinct N- and C- terminal domains
each containing a typical Rossmann fold. The two
domains have high structural homology despite minimal
sequence homology. The large cleft that separates the
two domains includes the catalytic center and permits a
high degree of flexibility.
Length = 367
Score = 29.1 bits (66), Expect = 3.0
Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 2/49 (4%)
Query: 53 KKRFNVLHVNVTGNNHVLSLA-DQYRFVNNVTKW-RDRRPALYHGHFGF 99
+ + L + + R RP L H HFGF
Sbjct: 44 ALAVRLADLAGGKAGLRLGALRLLTGSAPQLRRLLRRHRPDLVHAHFGF 92
>gnl|CDD|233225 TIGR00994, 3a0901s05TIC20, chloroplast protein import component,
Tic20 family. Two families of proteins are involved in
the chloroplast envelope import appartus.They are the
three proteins of the outer membrane (TOC) and four
proteins in the inner membrane (TIC). This family is
specific for the Tic20 protein [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 267
Score = 28.7 bits (64), Expect = 3.2
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 5/26 (19%)
Query: 154 ECIRLNRTECSLENMWLQVPFLCGHA 179
ECIR C+L M+ VPF+C A
Sbjct: 240 ECIR-----CALAGMYADVPFMCDAA 260
>gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase;
Provisional.
Length = 368
Score = 28.3 bits (64), Expect = 6.1
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 65 GNNHVLSL--ADQYRFVNNVTKWR 86
GN+ LSL DQ+ ++ +WR
Sbjct: 216 GNSRSLSLDLYDQWAYMEKTGQWR 239
>gnl|CDD|212513 cd09987, Arginase_HDAC, Arginase-like and histone-like hydrolases.
Arginase-like/histone-like hydrolase superfamily
includes metal-dependent enzymes that belong to
Arginase-like amidino hydrolase family and
histone/histone-like deacetylase class I, II, IV family,
respectively. These enzymes catalyze hydrolysis of amide
bond. Arginases are known to be involved in control of
cellular levels of arginine and ornithine, in histidine
and arginine degradation and in clavulanic acid
biosynthesis. Deacetylases play a role in signal
transduction through histone and/or other protein
modification and can repress/activate transcription of a
number of different genes. They participate in different
cellular processes including cell cycle regulation, DNA
damage response, embryonic development, cytokine
signaling important for immune response and
post-translational control of the acetyl coenzyme A
synthetase. Mammalian histone deacetyases are known to
be involved in progression of different tumors. Specific
inhibitors of mammalian histone deacetylases are an
emerging class of promising novel anticancer drugs.
Length = 217
Score = 27.3 bits (61), Expect = 8.2
Identities = 12/67 (17%), Positives = 19/67 (28%), Gaps = 3/67 (4%)
Query: 96 HFGFIDFQQFGSKEQPLFINILRKPLDRLVSYYYFLRYGDNYRPHL---VRKKHGDKTTF 152
H + FG ++L +PL V G + RK +
Sbjct: 60 HHDVRTPEAFGKGNHHTPRHLLCEPLISDVHIVSIGIRGVSNGEAGGAYARKLGVVYFSM 119
Query: 153 DECIRLN 159
E +L
Sbjct: 120 TEVDKLG 126
>gnl|CDD|163539 TIGR03827, GNAT_ablB, putative beta-lysine N-acetyltransferase.
Members of this protein family are GNAT family
acetyltransferases, based on a seed alignment in which
every member is associated with a lysine 2,3-aminomutase
family protein, usually as the adjacent gene. This
family includes AblB, the enzyme beta-lysine
acetyltransferase that completes the two-step synthesis
of the osmolyte (compatible solute)
N-epsilon-acetyl-beta-lysine; all members of the family
may have this function. Note that
N-epsilon-acetyl-beta-lysine has been observed only in
methanogenic archaea (e.g. Methanosarcina) but that this
model, paired with TIGR03820, suggests a much broader
distribution.
Length = 266
Score = 27.6 bits (62), Expect = 8.9
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 188 PWALEKAKENLVTKYLLVGVTEELTDFVS----LLEAALPSFFRGGTDHFLTSNKSHLRR 243
P AK+ TK ++ V L EA +P +F G +F++
Sbjct: 28 PDLDALAKKEGYTK-IIAKVPGSDKPLFEERGYLEEAKIPGYFNGHDAYFMSK----YLD 82
Query: 244 TNRKIDPSEETVQQI 258
+R+I E ++
Sbjct: 83 EDRRISSHSEKEDEV 97
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 0.136 0.425
Gapped
Lambda K H
0.267 0.0773 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,029,388
Number of extensions: 1525423
Number of successful extensions: 1154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1150
Number of HSP's successfully gapped: 13
Length of query: 311
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 214
Effective length of database: 6,635,264
Effective search space: 1419946496
Effective search space used: 1419946496
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: 59 (26.4 bits)