RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16632
(203 letters)
>gnl|CDD|128856 smart00588, NEUZ, domain in neuralized proteins.
Length = 123
Score = 133 bits (338), Expect = 1e-40
Identities = 59/148 (39%), Positives = 75/148 (50%), Gaps = 28/148 (18%)
Query: 14 PLYFHQVHGENVRVSRDGTVAKRYES-FCKGVAFSSRPVKINEKVYVKLLEISTNWSGVI 72
PL FH HG N+R+S G VA+R S FC + FS+RP++INE VK+ ++ WSG +
Sbjct: 2 PLRFHHRHGSNIRLSDSGRVARRSASDFCNALVFSARPLRINELFEVKIEKVVRKWSGAL 61
Query: 73 RFGFTANDPAHLKYA-LPRYVCPDLTNKPGYWAKALAERFADQETVLFYYVIVQPGYWAK 131
RFG T DPA L+ A LP CPDL G+WAK
Sbjct: 62 RFGVTTCDPATLRPASLPTNACPDLV--------------------------DMSGFWAK 95
Query: 132 ALAERFADQETVLFYYVTAAGDVHFGIN 159
AL E A+Q +L V A G+V IN
Sbjct: 96 ALGEGLAEQGGILGLDVLAEGEVVGVIN 123
>gnl|CDD|115807 pfam07177, Neuralized, Neuralized. This family contains a
conserved region approximately 60 residues long within
eukaryotic neuralized and neuralized-like proteins.
Neuralized belongs to a group of ubiquitin ligases and
is required in a subset of Notch pathway-mediated cell
fate decisions during development of the Drosophila
nervous system. Some family members contain multiple
copies of this region.
Length = 68
Score = 109 bits (275), Expect = 8e-32
Identities = 40/68 (58%), Positives = 52/68 (76%)
Query: 14 PLYFHQVHGENVRVSRDGTVAKRYESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIR 73
PL FH HG N+R+S DGT+A+R ESFC + FS+RPV+I E+V VK+L+I NWSG +R
Sbjct: 1 PLQFHPTHGSNIRLSDDGTLARRRESFCDAITFSARPVRIGERVCVKVLKIENNWSGGLR 60
Query: 74 FGFTANDP 81
GFT+ DP
Sbjct: 61 LGFTSLDP 68
>gnl|CDD|240467 cd12887, SPRY_NHR_like, SPRY domain in neuralized homology repeat.
This family contains the neuralized homology repeat 1
(NHR1) domain similar to the SPRY domain (known to
mediate specific protein-protein interactions) at the
C-terminus of a conserved region within eukaryotic
neuralized and neuralized-like proteins. In Drosophila,
the neuralized protein (Neur) belongs to a group of
ubiquitin ligases and is required in a subset of Notch
pathway-mediated cell fate decisions during development
of the nervous system. Neur binds to the Notch receptor
ligand Delta through its first NHR1 domain and mediates
its ubiquitination for endocytosis. Multiple copies of
this region are found in some members of the family.
Length = 161
Score = 94.9 bits (237), Expect = 6e-25
Identities = 59/181 (32%), Positives = 89/181 (49%), Gaps = 24/181 (13%)
Query: 16 YFHQVHGENVRVSRDGTVAKR-YESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIRF 74
FH+ HG+NVR+S DG A R +SF G+ FSSRP++ E V++ ++ WSG +
Sbjct: 1 RFHENHGKNVRLSNDGRTATRVKDSFNNGIVFSSRPLRPGELFEVRIDKLEDRWSGSLEI 60
Query: 75 GFTANDPAHLKYALPRYVCPDLTN-KPGYWAKALAERFADQETVLFYYVIVQPGYWAK-- 131
G T DP L LP P T+ K G W L+ +V V+ Y
Sbjct: 61 GVTTLDPESLD--LP----PSATDLKSGTW--ILSGS-----SVFKNGNKVRENYGPDLD 107
Query: 132 ALAERFADQETVLFYYVTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQL 191
L D+ V+ T G +HF INGE++GV + + P++A+ D+YG + +
Sbjct: 108 RLRVG--DRVGVM---RTPDGSLHFYINGEDQGVAASNIPQ--PVYAVVDLYGQCEQVSI 160
Query: 192 I 192
+
Sbjct: 161 V 161
>gnl|CDD|200593 cd10971, CE4_DAC_u2_5s, Putative catalytic NodB homology domain of
uncharacterized prokaryotic polysaccharide deacetylases
which consist of a 5-stranded beta/alpha barrel. This
family contains many uncharacterized prokaryotic
polysaccharide deacetylases. Although their biological
functions remain unknown, all members of this family are
predicted to contain a conserved domain with a
5-stranded beta/alpha barrel, which is similar to the
catalytic NodB homology domain of rhizobial NodB-like
proteins, belonging to the larger carbohydrate esterase
4 (CE4) superfamily.
Length = 198
Score = 28.8 bits (65), Expect = 1.4
Identities = 11/30 (36%), Positives = 12/30 (40%), Gaps = 5/30 (16%)
Query: 72 IRFGFT-----ANDPAHLKYALPRYVCPDL 96
R GFT A+ LPRY C D
Sbjct: 168 CRLGFTTEVAIADLDDLEPLELPRYDCNDF 197
>gnl|CDD|235301 PRK04452, PRK04452, acetyl-CoA decarbonylase/synthase complex
subunit delta; Provisional.
Length = 319
Score = 28.3 bits (64), Expect = 2.8
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 9/41 (21%)
Query: 100 PGYWAKALAERFADQETVLFYYVIVQPGYWAKALAERF-AD 139
P W +A+ E F D V+ P WAK E + AD
Sbjct: 59 PEDWPEAVKEPFGD--------VMNDPAAWAKKCVEEYGAD 91
>gnl|CDD|240461 cd12881, SPRY_HERC1, SPRY domain in HERC1. This SPRY domain is
found in the HERC1, a large protein related to
chromosome condensation regulator RCC1. It is widely
expressed in many tissues, playing an important role in
intracellular membrane trafficking in the cytoplasm as
well as Golgi apparatus. HERC1 also interacts with
tuberous sclerosis 2 (TSC2, tuberin), which suppresses
cell growth, and results in the destabilization of TSC2.
However, the biological function of HERC1 has yet to be
defined.
Length = 160
Score = 27.7 bits (62), Expect = 2.9
Identities = 12/41 (29%), Positives = 19/41 (46%)
Query: 132 ALAERFADQETVLFYYVTAAGDVHFGINGEEKGVFFTGVET 172
L+ +F + + + FG NGEE GV F V++
Sbjct: 97 RLSPKFTQGDYITCVLDMEERTLSFGKNGEEPGVAFEDVDS 137
>gnl|CDD|218174 pfam04612, T2SM, Type II secretion system (T2SS), protein M. This
family of membrane proteins consists of Type II
secretion system protein M sequences from several
Gram-negative (diderm) bacteria. The precise function of
these proteins is unknown, though in Vibrio cholerae,
the T2SM (EpsM) protein interacts with the T2SL (EpsL)
protein, and also forms homodimers.
Length = 159
Score = 27.2 bits (61), Expect = 3.9
Identities = 9/37 (24%), Positives = 14/37 (37%)
Query: 117 VLFYYVIVQPGYWAKALAERFADQETVLFYYVTAAGD 153
VL Y + QP +A A+R L ++
Sbjct: 29 VLLYLGLWQPLSQRRARAQRRLQAARQLLAWLQEQAP 65
>gnl|CDD|178479 PLN02891, PLN02891, IMP cyclohydrolase.
Length = 547
Score = 27.8 bits (62), Expect = 4.8
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 113 DQETVLFYYVIVQPGYWAKALA 134
D ET +FY ++V P Y K L
Sbjct: 353 DGETRMFYEIVVAPKYTEKGLE 374
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 27.4 bits (62), Expect = 4.9
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 13/46 (28%)
Query: 77 TANDPAHLKYALPRYVCPDLTNKPGYWAKALAERFADQ-ETVLFYY 121
T+++P +Y P +AE F DQ + VL
Sbjct: 79 TSDEPPAERYLAPYTAL------------TIAEYFRDQGKDVLLLL 112
>gnl|CDD|222876 PHA02559, 59, 59 protein; Provisional.
Length = 216
Score = 26.9 bits (60), Expect = 6.5
Identities = 10/47 (21%), Positives = 20/47 (42%), Gaps = 6/47 (12%)
Query: 102 YWAKALAERFADQETVLFYYV--IVQPGYWAKALAERFADQETVLFY 146
Y+ + LAE++ +E + + P W +D + + FY
Sbjct: 57 YFFEKLAEKYTLKELYDIFLSNFVANPDAWIG----DISDADALTFY 99
>gnl|CDD|163653 cd07410, MPP_CpdB_N, Escherichia coli CpdB and related proteins,
N-terminal metallophosphatase domain. CpdB is a
bacterial periplasmic protein with an N-terminal
metallophosphatase domain and a C-terminal
3'-nucleotidase domain. This alignment model represents
the N-terminal metallophosphatase domain, which has
2',3'-cyclic phosphodiesterase activity, hydrolyzing the
2',3'-cyclic phosphates of adenosine, guanosine,
cytosine and uridine to yield nucleoside and phosphate.
CpdB also hydrolyzes the chromogenic substrates
p-nitrophenyl phosphate (PNPP), bis(PNPP) and
p-nitrophenyl phosphorylcholine (NPPC). CpdB is thought
to play a scavenging role during RNA hydrolysis by
converting the non-transportable nucleotides produced by
RNaseI to nucleosides which can easily enter a cell for
use as a carbon source. This family also includes YfkN,
a Bacillus subtilis nucleotide phosphoesterase with two
copies of each of the metallophosphatase and
3'-nucleotidase domains. The N-terminal
metallophosphatase domain belongs to a large superfamily
of distantly related metallophosphatases (MPPs) that
includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA
lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 277
Score = 26.8 bits (60), Expect = 9.3
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 122 VIVQPGYWAKALAE 135
+VQPG W L
Sbjct: 240 PVVQPGNWGSHLGV 253
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 0.137 0.426
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,580,258
Number of extensions: 989599
Number of successful extensions: 807
Number of sequences better than 10.0: 1
Number of HSP's gapped: 801
Number of HSP's successfully gapped: 15
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
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: 57 (25.7 bits)