RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8471
(242 letters)
>gnl|CDD|233514 TIGR01658, EYA-cons_domain, eyes absent protein conserved domain.
This domain is common to all eyes absent (EYA) homologs.
Metazoan EYA's also contain a variable N-terminal domain
consisting largely of low-complexity sequences.
Length = 274
Score = 275 bits (706), Expect = 8e-94
Identities = 90/241 (37%), Positives = 122/241 (50%), Gaps = 45/241 (18%)
Query: 1 ECDQVHIDDVCSDDNGQDLGGYNFGADGFQTPGPLQTAGPLHMGGPPPPALCLSSGVRGG 60
EC++ +DDV S D+G+DL Y F DGF TP L
Sbjct: 63 ECNEPFLDDVRSYDDGKDLSRYEFKTDGFSTP---------------TDDLNK------- 100
Query: 61 VDWMRKLAFRYRKIKDTYNNYRNSVGGLLGPTKREQWLQLRAEIESTTDNWLSLAIKCLN 120
RKLA+R+R + + Y +G LL P E +L +E + TD WLS A+K L
Sbjct: 101 ----RKLAYRHRAVAEIYEKG---LGPLLDPESMEALDELYSETDVYTDRWLSSALKFLE 153
Query: 121 ---------------IINSRSTCTNVIVTCTQLVPALAKVLLFGLGDIFQVENIYSSTKI 165
I+SR C NV+VT QL+P+LAK LLF L IF++EN+YSS K+
Sbjct: 154 QCSCVEESSDGTSLIEISSRDNCINVLVTSGQLIPSLAKCLLFRLDTIFRIENVYSSIKV 213
Query: 166 GKESCFERIGTRFGR-KVTYVVIGDGQDEEAAAKQNNFPFWRVSSHSDLAALYNALDMGF 224
GK CF+ I RFG KV + IGDG +E AA+ N+PF ++ H D + + L +
Sbjct: 214 GKLQCFKWIKERFGHPKVRFCAIGDGWEECTAAQAMNWPFVKIDLHPDSSHRFPGLTLKT 273
Query: 225 L 225
L
Sbjct: 274 L 274
>gnl|CDD|168320 PRK05968, PRK05968, hypothetical protein; Provisional.
Length = 389
Score = 35.8 bits (83), Expect = 0.013
Identities = 24/58 (41%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 143 AKVLLF-GLGD-IFQVENIYSSTKIGKESCFERIGTRFGRKVTYVVIGDGQDEEAAAK 198
+ VL F GD I V ++Y FE I R G +V YV DG+DEEA AK
Sbjct: 93 STVLSFVEPGDRIVAVRHVYPDAF----RLFETILKRMGVEVDYV---DGRDEEAVAK 143
>gnl|CDD|223699 COG0626, MetC, Cystathionine beta-lyases/cystathionine
gamma-synthases [Amino acid transport and metabolism].
Length = 396
Score = 32.6 bits (75), Expect = 0.16
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 171 FERIGTRFGRKVTYVVIGDGQDEEAAAKQNN 201
FE+I +FG +VT+V GD + EAA K+ N
Sbjct: 119 FEKILQKFGVEVTFVDPGDDEALEAAIKEPN 149
>gnl|CDD|235674 PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase
subunit; Reviewed.
Length = 372
Score = 31.3 bits (72), Expect = 0.38
Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 14/62 (22%)
Query: 184 YVVIGDGQDEEAAAKQNNFPF--------------WRVSSHSDLAALYNALDMGFLIVEE 229
+ V+ +D EAA P W + S DL A + L I+EE
Sbjct: 118 FAVVDSAEDLEAALADLGLPAVLKTRRGGYDGKGQWVIRSAEDLEAAWALLGSVPCILEE 177
Query: 230 GL 231
+
Sbjct: 178 FV 179
>gnl|CDD|99985 cd03814, GT1_like_2, This family is most closely related to the GT1
family of glycosyltransferases. 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. The members of this family are found
mainly in bacteria and eukaryotes.
Length = 364
Score = 31.4 bits (72), Expect = 0.40
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 180 RKVTYVVIGDG-QDEEAAAKQNNFPFWRVSSHSDLAALYNALDM 222
V V++GDG A+ N F +LAA Y + D+
Sbjct: 226 PPVRLVIVGDGPARARLEARYPNVHFLGFLDGEELAAAYASADV 269
>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39). Found in
eukaryotes, Rab39 is mainly found in epithelial cell
lines, but is distributed widely in various human
tissues and cell lines. It is believed to be a novel
Rab protein involved in regulating Golgi-associated
vesicular transport during cellular endocytosis. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins.
Length = 211
Score = 29.7 bits (67), Expect = 0.92
Identities = 12/20 (60%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 70 RYRKIKDTYNNYRNSVGGLL 89
R+R I +Y YRNSVG LL
Sbjct: 64 RFRSITRSY--YRNSVGVLL 81
>gnl|CDD|99974 cd03801, GT1_YqgM_like, This family is most closely related to the
GT1 family of glycosyltransferases and named after YqgM
in Bacillus licheniformis about which little is known.
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. The members of this family are found
mainly in certain bacteria and archaea.
Length = 374
Score = 29.3 bits (66), Expect = 1.7
Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 11/52 (21%)
Query: 179 GRKVTYVVIGDGQDEEAAAKQNN---------FPFWRVSSHSDLAALYNALD 221
V V++GDG E F + DL ALY A D
Sbjct: 228 YPDVRLVIVGDGPLREELEALAAELGLGDRVTFLGFV--PDEDLPALYAAAD 277
>gnl|CDD|221745 pfam12737, Mating_C, C-terminal domain of homeodomain 1. Mating in
fungi is controlled by the loci that determine the
mating type of an individual, and only individuals with
differing mating types can mate. Basidiomycete fungi
have evolved a unique mating system, termed tetrapolar
or bifactorial incompatibility, in which mating type is
determined by two unlinked loci; compatibility at both
loci is required for mating to occur. The multi-allelic
tetrapolar mating system is considered to be a novel
innovation that could have only evolved once, and is
thus unique to the mushroom fungi. This domain is
C-terminal to the homeodomain transcription factor
region.
Length = 418
Score = 28.6 bits (64), Expect = 2.8
Identities = 10/42 (23%), Positives = 14/42 (33%), Gaps = 2/42 (4%)
Query: 8 DDVCSDDNGQDLGGYNFGADGFQTPGPLQTAGPLHMGGPPPP 49
V D G NFG++ + PL + G P
Sbjct: 298 SSVDQSATPLDQGFSNFGSNMY--SEPLNPTNDSLLYGLPSS 337
>gnl|CDD|239870 cd04405, RhoGAP_BRCC3-like, RhoGAP_BRCC3-like: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of BRCC3-like proteins. This subgroup
also contains two groups of closely related proteins,
BRCC3 and DEPDC7, which both contain a C-terminal
RhoGAP-like domain and an N-terminal DEP (Disheveled,
Egl-10, and Pleckstrin) domain. The function(s) of
BRCC3 and DEPDC7 are unknown. 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 = 235
Score = 28.5 bits (64), Expect = 3.3
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 100 LRAEIESTTDNWLSLAIKCL-----NIINSRSTCT 129
++ +S D+WL A+ CL ++ S
Sbjct: 60 VKLFSKSQLDHWLLSAMDCLANWPDQLVVDVSRPL 94
>gnl|CDD|218942 pfam06218, NPR2, Nitrogen permease regulator 2. This family of
regulators are involved in post-translational control of
nitrogen permease.
Length = 400
Score = 27.7 bits (62), Expect = 6.7
Identities = 26/96 (27%), Positives = 33/96 (34%), Gaps = 33/96 (34%)
Query: 152 DIFQVENIYSST-KIG--------KESCFERIGTRFGRKVTYVVIGDGQDEEAAAKQNNF 202
DIFQ NIY+ T IG E C YV G + A+ +
Sbjct: 243 DIFQFSNIYAPTSNIGNFLTDPDMAEEC-----------QAYVTT-PGSNLGRASSSST- 289
Query: 203 PFWRVSSHSDLAALYNALDMGFLIVEEGLVGTLAEW 238
+ S + L LY +L G TL EW
Sbjct: 290 --RTLPSRATLFQLYRSLSQGQ---------TLKEW 314
>gnl|CDD|135648 PRK05898, dnaE, DNA polymerase III DnaE; Validated.
Length = 971
Score = 27.5 bits (61), Expect = 7.6
Identities = 13/86 (15%), Positives = 29/86 (33%), Gaps = 8/86 (9%)
Query: 103 EIESTTDNWLS-LAIKCLNIINSRSTCTNVIVTCTQLVPALAKVLLFGLGDIFQVENIYS 161
EIE N+ + + + I S++ N+ L+ K + + ++ I
Sbjct: 891 EIELKNTNYETNIFAQVYEIKQSKTKNGNLSFYLETLINNKKKTITIFQHSKYLIDEI-- 948
Query: 162 STKIGKESCFERIGTRFGRKVTYVVI 187
IG G + + ++
Sbjct: 949 --DIGGIYVR---GVKLLNHLNFIDN 969
>gnl|CDD|172968 PRK14497, PRK14497, putative molybdopterin biosynthesis protein
MoeA/unknown domain fusion protein; Provisional.
Length = 546
Score = 27.1 bits (60), Expect = 9.2
Identities = 8/48 (16%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 139 VPALAKVLLFGLGDIFQVENIYSSTKIGKESCFER--IGTRFGRKVTY 184
+PA K + + GD+ + ++++ + R + G ++ Y
Sbjct: 433 LPAS-KAIKYKFGDVAVISSLFTEPIENYDKVLCRQILVNGEGEEIGY 479
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
0.320 0.138 0.431
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,555,976
Number of extensions: 1171600
Number of successful extensions: 974
Number of sequences better than 10.0: 1
Number of HSP's gapped: 968
Number of HSP's successfully gapped: 18
Length of query: 242
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 148
Effective length of database: 6,768,326
Effective search space: 1001712248
Effective search space used: 1001712248
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 (21.8 bits)
S2: 58 (26.3 bits)