RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14956
(147 letters)
>gnl|CDD|224000 COG1074, RecB, ATP-dependent exoDNAse (exonuclease V) beta subunit
(contains helicase and exonuclease domains) [DNA
replication, recombination, and repair].
Length = 1139
Score = 29.7 bits (67), Expect = 0.62
Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 4/80 (5%)
Query: 16 ARKGNPIEETGD-LVAEVNTRPDEAGYDPVSSTLWRQREEYCARLIQHAWRKHKQCRAGG 74
AR G+P G+ L A ++ P + R+ + AR I R+ + A
Sbjct: 487 ARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADLEARQIAAWLRELIEGEAVL 546
Query: 75 TEPGSPGSPDGRDTAVLVES 94
+ D AVLV S
Sbjct: 547 DGERPIRA---GDIAVLVRS 563
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 28.7 bits (64), Expect = 1.4
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 2/77 (2%)
Query: 13 DFFARKGNPIEETGDLVAEVNT-RPDEAGYDPVSSTLWRQREEYCARLIQHAW-RKHKQC 70
D RK P+ + ++A + + + DP S+ EE AR I+ A+ + KQ
Sbjct: 197 DLIGRKLKPVILSHHMLAGLKQGQAKMSKSDPDSAIFMEDTEEDVARKIRQAYCPRVKQS 256
Query: 71 RAGGTEPGSPGSPDGRD 87
+ T+ G+P + D R+
Sbjct: 257 ASEITDDGAPVATDDRN 273
>gnl|CDD|238513 cd01062, RNase_T2_prok, Ribonuclease T2 (RNase T2) is a
widespread family of secreted RNases found in every
organism examined thus far. This family includes RNase
Rh, RNase MC1, RNase LE, and self-incompatibility
RNases (S-RNases). Plant T2 RNases are expressed
during leaf senescence in order to scavenge phosphate
from ribonucleotides. They are also expressed in
response to wounding or pathogen invasion. S-RNases are
thought to prevent self-fertilization by acting as
selective cytotoxins of "self" pollen. Generally,
RNases have two distinct binding sites: the primary
site (B1 site) and the subsite (B2 site), for
nucleotides located at the 5'- and 3'- terminal ends of
the sessil bond, respectively. This CD includes the
prokaryotic RNase T2 family members.
Length = 184
Score = 27.3 bits (61), Expect = 2.8
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 59 LIQHAWRKHKQC 70
LI+H WRKH C
Sbjct: 78 LIRHEWRKHGTC 89
>gnl|CDD|226774 COG4324, COG4324, Predicted aminopeptidase [General function
prediction only].
Length = 376
Score = 27.2 bits (60), Expect = 3.4
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 42 DPVSSTLWRQREEYCARLIQH 62
DP+ ST+ RQ + Y A LI H
Sbjct: 183 DPLLSTMLRQDDTYLASLIFH 203
>gnl|CDD|235581 PRK05728, PRK05728, DNA polymerase III subunit chi; Validated.
Length = 142
Score = 26.7 bits (60), Expect = 3.6
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 102 GHRVVIHSRSPSQTSRSAECLFSFKD 127
G RV++ Q E L++F+D
Sbjct: 29 GWRVLVQCEDEEQAEALDEALWTFRD 54
>gnl|CDD|237748 PRK14537, PRK14537, 50S ribosomal protein L20/unknown domain
fusion protein; Provisional.
Length = 230
Score = 26.9 bits (59), Expect = 3.8
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 40 GYDPVSSTLWRQREEYCARLIQHAWRKHKQ 69
GY STL++ E R +Q+A+R KQ
Sbjct: 23 GYFGSKSTLYKTAHEQVMRSLQYAYRDRKQ 52
>gnl|CDD|214823 smart00799, DENN, Domain found in a variety of signalling proteins,
always encircled by uDENN and dDENN. The DENN domain is
found in a variety of signalling proteins involved in
Rab-mediated processes or regulation of MAPKs signalling
pathways. The DENN domain is always encircled on both
sides by more divergent domains, called uDENN (for
upstream DENN) and dDENN (for downstream DENN). The
function of the DENN domain remains to date unclear,
although it appears to represent a good candidate for a
GTP/GDP exchange activity.
Length = 183
Score = 26.4 bits (59), Expect = 5.8
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 9/35 (25%)
Query: 88 TAVLVESDGFSIKNGHRVVIHSRSPSQTSRSAECL 122
A+L+E R++ S + S S E L
Sbjct: 99 AALLLE---------RRIIFTSSNLSTLSAVIEAL 124
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 26.3 bits (59), Expect = 6.2
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 121 CLFSFKDFSMGKWAYLCLL-----CGKNRET 146
C + +W + LL K+RET
Sbjct: 50 CDYLHIQCLTCEWGMVALLLLRFKAAKSRET 80
>gnl|CDD|226242 COG3719, Rna, Ribonuclease I [Translation, ribosomal structure and
biogenesis].
Length = 249
Score = 26.3 bits (58), Expect = 7.5
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 57 ARLIQHAWRKHKQC 70
A L +H WRKH C
Sbjct: 133 AGLERHEWRKHGTC 146
>gnl|CDD|233620 TIGR01890, N-Ac-Glu-synth, amino-acid N-acetyltransferase. This
model represents a clade of amino-acid
N-acetyltransferases acting mainly on glutamate in the
first step of the "acetylated" ornithine biosynthesis
pathway. For this reason it is also called
N-acetylglutamate synthase. The enzyme may also act on
aspartate [Amino acid biosynthesis, Glutamate family].
Length = 429
Score = 26.3 bits (58), Expect = 7.6
Identities = 17/52 (32%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 22 IEETGDLVAEVNTRPDEAGYDPVSSTLWRQREEYCARLIQHAWRKHKQCRAG 73
+ G L AE+ P E V S R E RL+ A K CR G
Sbjct: 207 SDPDGTLAAEL--SPQE-----VESLAERLGSETTRRLLSAAV---KACRGG 248
>gnl|CDD|111742 pfam02888, CaMBD, Calmodulin binding domain. Small-conductance
Ca2+-activated K+ channels (SK channels) are
independent of voltage and gated solely by
intracellular Ca2+. These membrane channels are
heteromeric complexes that comprise pore-forming
alpha-subunits and the Ca2+-binding protein calmodulin
(CaM). CaM binds to the SK channel through this the
CaM-binding domain (CaMBD), which is located in an
intracellular region of the alpha-subunit immediately
carboxy-terminal to the pore. Channel opening is
triggered when Ca2+ binds the EF hands in the N-lobe of
CaM. The structure of this domain complexed with CaM is
known. This domain forms an elongated dimer with a CaM
molecule bound at each end; each CaM wraps around three
alpha-helices, two from one CaMBD subunit and one from
the other.
Length = 76
Score = 24.7 bits (54), Expect = 8.0
Identities = 5/27 (18%), Positives = 13/27 (48%)
Query: 46 STLWRQREEYCARLIQHAWRKHKQCRA 72
+ L ++ + A ++Q W +K +
Sbjct: 2 TQLTKEHKNAAANVLQETWLIYKHTKL 28
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 25.9 bits (57), Expect = 9.6
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 99 IKNGHRVVIHSRSPSQTSRSAECLFSF 125
+K G RVVI SR+ ++ + L +
Sbjct: 21 LKKGARVVISSRNEENLEKALKELKEY 47
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase
[General function prediction only].
Length = 297
Score = 25.7 bits (57), Expect = 9.9
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 99 IKNGHRVVIHSRSPSQTSR 117
K GH+V I +R P + S+
Sbjct: 19 RKGGHQVTILTRRPPKASQ 37
>gnl|CDD|216005 pfam00581, Rhodanese, Rhodanese-like domain. Rhodanese has an
internal duplication. This Pfam represents a single copy
of this duplicated domain. The domain is found as a
single copy in other proteins, including phosphatases
and ubiquitin C-terminal hydrolases.
Length = 106
Score = 25.2 bits (55), Expect = 9.9
Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 4/59 (6%)
Query: 77 PGS----PGSPDGRDTAVLVESDGFSIKNGHRVVIHSRSPSQTSRSAECLFSFKDFSMG 131
PG+ P +E G + +V++ S +++ ++A L + ++G
Sbjct: 31 PGAVNIPLSLPSLDKLESELEELGKKLDKDKTIVVYCASGNRSGQAAALLLALILKALG 89
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 0.134 0.425
Gapped
Lambda K H
0.267 0.0790 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,482,403
Number of extensions: 648377
Number of successful extensions: 638
Number of sequences better than 10.0: 1
Number of HSP's gapped: 638
Number of HSP's successfully gapped: 26
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
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: 54 (24.5 bits)