RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15026
(98 letters)
>gnl|CDD|115363 pfam06701, MIB_HERC2, Mib_herc2. Named "mib/herc2 domain" in.
Usually the protein also contains an E3 ligase domain
(either Ring or Hect).
Length = 63
Score = 45.1 bits (107), Expect = 5e-08
Identities = 17/23 (73%), Positives = 18/23 (78%)
Query: 67 GARVQRGLDWKWRDQDGIPPGEG 89
GARV RG+DWKW DQDG GEG
Sbjct: 1 GARVVRGVDWKWGDQDGGEGGEG 23
>gnl|CDD|203750 pfam07738, Sad1_UNC, Sad1 / UNC-like C-terminal. The C. elegans
UNC-84 protein is a nuclear envelope protein that is
involved in nuclear anchoring and migration during
development. The S. pombe Sad1 protein localises at the
spindle pole body. UNC-84 and and Sad1 share a common
C-terminal region, that is often termed the SUN (Sad1
and UNC) domain. In mammals, the SUN domain is present
in two proteins, Sun1 and Sun2. The SUN domain of Sun2
has been demonstrated to be in the periplasm.
Length = 135
Score = 31.5 bits (72), Expect = 0.026
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 1 WRHVRIQ--QNGKNASGQTHYLSLSGFEIYGT 30
++V+++ N G HY L F ++GT
Sbjct: 107 VKYVKLRILSNY----GNEHYTCLYRFRVHGT 134
>gnl|CDD|184061 PRK13454, PRK13454, F0F1 ATP synthase subunit B'; Provisional.
Length = 181
Score = 27.1 bits (60), Expect = 1.2
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 29 GTLTG---VCEDLGRAAREAEASVRKARRLVRTQVMRHLIIG---ARVQRGLD 75
GT+T E+L + A EAE + KA R + R I+ A +Q LD
Sbjct: 65 GTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQR--IVAETRAEIQAELD 115
>gnl|CDD|176397 cd01802, AN1_N, ubiquitin-like domain of AN1. AN1 (also known as
ANUBL1 and RSD-7) is ubiquitin-like protein with a
testis-specific expression in rats that has an
N-terminal ubiquitin-like domain and a C-terminal
zinc-binding domain. Unlike ubiquitin polyproteins and
most ubiquitin fusion proteins, the N-terminal
ubiquitin-like domain of An1 does not undergo
proteolytic processing. The function of AN1 is
unknown.
Length = 103
Score = 26.0 bits (57), Expect = 2.7
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 30 TLTGVCEDLGRAAREAEASVR-KARRLVRTQVMR-HLI 65
TLTG C +L + E SV+ K +RL V + HLI
Sbjct: 34 TLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLI 71
>gnl|CDD|217990 pfam04257, Exonuc_V_gamma, Exodeoxyribonuclease V, gamma subunit.
The Exodeoxyribonuclease V enzyme is a multi-subunit
enzyme comprised of the proteins RecB, RecC (this
family) and RecD. This enzyme plays an important role in
homologous genetic recombination, repair of double
strand DNA breaks resistance to UV irradiation and
chemical DNA-damage. The enzyme (EC:3.1.11.5) catalyzes
ssDNA or dsDNA-dependent ATP hydrolysis, hydrolysis of
ssDNA or dsDNA and unwinding of dsDNA. This family
consists of two AAA domains.
Length = 756
Score = 26.0 bits (58), Expect = 3.3
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 61 MRHLIIGARVQRGLDWKWRDQDGIPPGEGN 90
+R + A ++ GLD + R + G+P E N
Sbjct: 419 LRQWLEEAGIRWGLDAEHRQKLGLPGDEQN 448
>gnl|CDD|227018 COG4672, gp18, Phage-related protein [Function unknown].
Length = 231
Score = 25.5 bits (56), Expect = 4.6
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 6 IQQNGKNASGQTHYLSLSGFEIYGTLTGVCEDL 38
+ NGK +S + SL+ ++G +TG+ EDL
Sbjct: 65 FEMNGKGSSARP---SLTVSNLFGLVTGMAEDL 94
>gnl|CDD|215156 PLN02276, PLN02276, gibberellin 20-oxidase.
Length = 361
Score = 25.7 bits (57), Expect = 5.1
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 37 DLGRAAREAEASVRKARRLVRTQVMRH 63
DLG EA+ +A RLVR ++H
Sbjct: 45 DLGGFLSGDEAATAEAARLVREACLKH 71
>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 504
Score = 25.2 bits (55), Expect = 6.7
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 16/76 (21%)
Query: 22 LSGFEIYGTLTGVCEDLGRAA---------REAEASVRKARRLVRTQVMRHLIIGARVQR 72
L+ EI G L + E GR A R A+ ++R A L+ R L +G V R
Sbjct: 175 LTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLE----RLLALGTPVTR 230
Query: 73 GLDWKWRDQDGIPPGE 88
+ + G+PP E
Sbjct: 231 K---QVEEALGLPPQE 243
>gnl|CDD|223254 COG0176, MipB, Transaldolase [Carbohydrate transport and
metabolism].
Length = 239
Score = 24.9 bits (55), Expect = 7.7
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 40 RAAREAEASVRKARRLVRT 58
+ +AEA + +ARRL +
Sbjct: 70 VLSFDAEAMIEEARRLAKL 88
>gnl|CDD|172956 PRK14483, PRK14483, DhaKLM operon coactivator DhaQ; Provisional.
Length = 329
Score = 25.0 bits (55), Expect = 8.5
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 44 EAEASVRKARRLVRTQVMRHLIIGARVQRG 73
E +AS K RR V V+ H I+GA G
Sbjct: 138 EDDASFNKRRRGVAGTVLLHKILGAAALEG 167
>gnl|CDD|222667 pfam14308, DnaJ-X, X-domain of DnaJ-containing. IN certain plant
and yeast proteins, the DnaJ-1 proteins have a
three-domain structure. The x-domain lies between the
N-terminal DnaJ and the C-terminal Z domains. The exact
function is not known.
Length = 204
Score = 24.8 bits (55), Expect = 9.4
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 20 LSLSGFEIYGTLTGVCEDLGRAAREAEASVRKARRLVRTQVMRHLIIGARVQR 72
++S F+I TL VC+ + + + SV K R+ R + + LI+G Q+
Sbjct: 139 WAISKFDIESTLREVCDKVLK-----DKSVDKKERIKRAEAL--LILGKIFQK 184
>gnl|CDD|219964 pfam08670, MEKHLA, MEKHLA domain. The MEKHLA domain shares
similarity with the PAS domain and is found in the 3'
end of plant HD-ZIP III homeobox genes, and bacterial
proteins.
Length = 148
Score = 24.5 bits (54), Expect = 9.4
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 13/56 (23%)
Query: 45 AEASVRKARRLVRTQVMRHLII----GARV---------QRGLDWKWRDQDGIPPG 87
AE S RK R +VM+ G R+ ++ + WK D+DG G
Sbjct: 82 AEESGRKERCSELAKVMQQGFACLYSGVRISSMGRRFSIEQAVAWKLLDEDGAYHG 137
>gnl|CDD|99914 cd05531, POLBc_B2, DNA polymerase type-B B2 subfamily catalytic
domain. Archaeal proteins that are involved in DNA
replication are similar to those from eukaryotes. Some
archaeal members also possess multiple family B DNA
polymerases (B1, B2 and B3). So far there is no specific
function(s) has been assigned for different members of
the archaea type B DNA polymerases. Phylogenetic
analyses of eubacterial, archaeal, and eukaryotic family
B DNA polymerases are support independent gene
duplications during the evolution of archaeal and
eukaryotic family B DNA polymerases.
Length = 352
Score = 24.6 bits (54), Expect = 9.7
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 35 CEDLGRAAREAEASVRKARRLVRTQVMRHLIIGARVQR 72
E+L + EA R+ + +R + LII ++ +
Sbjct: 246 PEELLKLREEALDLFRRYLQRLREGDLEDLIIEKKISK 283
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 0.139 0.433
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,116,688
Number of extensions: 426208
Number of successful extensions: 450
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 33
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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: 53 (24.1 bits)