RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2284
(175 letters)
>gnl|CDD|203013 pfam04438, zf-HIT, HIT zinc finger. This presumed zinc finger
contains up to 6 cysteine residues that could coordinate
zinc. The domain is named after the HIT protein. This
domain is also found in the Thyroid receptor interacting
protein 3 (TRIP-3) that specifically interacts with the
ligand binding domain of the thyroid receptor.
Length = 30
Score = 48.0 bits (115), Expect = 1e-08
Identities = 15/28 (53%), Positives = 17/28 (60%)
Query: 135 RHFCAVCGFPSNYTCVPCGARYCCVRCL 162
R C+VCG PS Y C CG RYC + C
Sbjct: 2 RKLCSVCGNPSKYRCPRCGVRYCSLECY 29
>gnl|CDD|227522 COG5195, COG5195, Uncharacterized conserved protein [Function
unknown].
Length = 118
Score = 35.4 bits (81), Expect = 0.004
Identities = 22/58 (37%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 100 RFRKSLAQMIEEDKALNSQGSA-YENAEAKPSKFPNRHFCAVCGFPSNYTCVPCGARY 156
R K+L Q+I N Y + EA PS P +C V G P+ YTC G RY
Sbjct: 30 RRFKTLRQLIPRLTIENESSKHRYLSIEAPPSVKPRMKYCDVTGLPAPYTCPNTGLRY 87
>gnl|CDD|237051 PRK12307, PRK12307, putative sialic acid transporter; Provisional.
Length = 426
Score = 31.1 bits (70), Expect = 0.27
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 50 LVMNKKAPKFQETLDAKSGSRKKKSKSAEYYKLKTMEGLFHK 91
+ + +AP+ +E +AK + K S+SA +M+GLF++
Sbjct: 186 IYIRARAPESKEWEEAKLSGKGKHSQSAWSVFSLSMKGLFNR 227
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 29.3 bits (66), Expect = 1.1
Identities = 25/142 (17%), Positives = 47/142 (33%), Gaps = 21/142 (14%)
Query: 5 ANRLSGRIKDANKQRVLDEATRQRRARKALESL----------ESDNFHDDPHADLVMNK 54
A +L+ I++A K+ + A A L +L E + + K
Sbjct: 810 AEKLAEEIEEAEKEVS-EAAAALDEAEARLTALLRAARCTTIEELLAAVERSDTYRELRK 868
Query: 55 KAPKFQETLDAKSGSRKKKSKSAEYYKLKT--MEGLFHKTNQQNYIFRFRKSLAQMIEED 112
+ + TL G ++ AE L + + + I + L ++ +E
Sbjct: 869 RIAALERTLVRAGGGLSLEALVAEAAALDPDELPARLEELARD--IEELEEELNELAQEV 926
Query: 113 KALNSQ------GSAYENAEAK 128
A + GS EA+
Sbjct: 927 GAAKQELARMDGGSTAAELEAE 948
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 28.0 bits (62), Expect = 2.8
Identities = 17/114 (14%), Positives = 38/114 (33%), Gaps = 10/114 (8%)
Query: 22 DEATRQRRARKALESLESDNFHDDPHADLVMNKKAPKFQETLDAKSGSRKKKSKSAEYYK 81
D + + ++E ++F D D KK L+ ++ K A+
Sbjct: 237 DFGSGEDEEDDEEGNIEYEDFFDPKEKD---KKKDAGDDAELEDDEPDKEAVKKEADSKP 293
Query: 82 LKTMEGLFHKTNQQNYI-------FRFRKSLAQMIEEDKALNSQGSAYENAEAK 128
+ E + + Q+ + + + D + S++E +AK
Sbjct: 294 EEEDEEDDEQEDDQDEEEPPEAAMDKVKLDEPVLEGVDLESPKELSSFEKRQAK 347
>gnl|CDD|189881 pfam01194, RNA_pol_N, RNA polymerases N / 8 kDa subunit.
Length = 60
Score = 26.0 bits (58), Expect = 2.9
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 155 RYCCVRCLGTHQD 167
RYCC R L TH D
Sbjct: 42 RYCCRRMLLTHVD 54
>gnl|CDD|235750 PRK06228, PRK06228, F0F1 ATP synthase subunit epsilon; Validated.
Length = 131
Score = 26.8 bits (60), Expect = 3.4
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 10 GRIKDANKQ--RVLDEATRQRRARKALESLESD 40
G +++A +Q LDE R+R R AL LES
Sbjct: 90 GELREAVEQEFLTLDE--RERSVRSALAKLESG 120
>gnl|CDD|227879 COG5592, COG5592, Uncharacterized conserved protein [Function
unknown].
Length = 171
Score = 27.1 bits (60), Expect = 3.4
Identities = 20/77 (25%), Positives = 26/77 (33%), Gaps = 6/77 (7%)
Query: 40 DNFHDDPHADLVMN--KKAPKFQETLDAKSGSRKKKSKSAEYYKLKTMEGLFHKTNQQNY 97
F D P D + N K L K K + +YK T H ++ Y
Sbjct: 65 YVFKDTPEVDRIKNDHKLIETLATNLIKWKRPDKIKERVPLFYKTLTD----HNLAEEEY 120
Query: 98 IFRFRKSLAQMIEEDKA 114
IF KSL E+
Sbjct: 121 IFPRVKSLKGEDEQSAL 137
>gnl|CDD|183221 PRK11595, PRK11595, DNA utilization protein GntX; Provisional.
Length = 227
Score = 27.3 bits (61), Expect = 3.7
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 12/35 (34%)
Query: 134 NRHF------CAVCGFPSNYTCVPCGARYCCVRCL 162
+R C CG P+ + +PCG RCL
Sbjct: 27 SRALRTLKTCCPQCGLPATHPHLPCG------RCL 55
>gnl|CDD|219089 pfam06570, DUF1129, Protein of unknown function (DUF1129). This
family consists of several hypothetical bacterial
proteins of unknown function.
Length = 206
Score = 26.8 bits (60), Expect = 4.8
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 3/26 (11%)
Query: 91 KTNQQNYIFRFRKSLAQ--MIEEDKA 114
K NQ+ YIF K L Q +E+
Sbjct: 4 KKNQE-YIFILTKQLIQTGKSDEEIE 28
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 27.0 bits (60), Expect = 6.2
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 139 AVCGFPSNYTCVPCGARYCCVRCLGTHQDT 168
A PS+Y C C A + + L HQ T
Sbjct: 66 ATPINPSSYVCNVCMAEFSSMDQLAEHQRT 95
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 26.7 bits (59), Expect = 6.5
Identities = 17/80 (21%), Positives = 28/80 (35%), Gaps = 10/80 (12%)
Query: 54 KKAPKFQETLDAKSGSRKKKSKSAEYYKLKTMEGLFHKTNQQNYIFRFRKSLAQMIEEDK 113
K+ + E+ K+ K + + ++ F+ AQM E K
Sbjct: 10 KRVVRALESEKYKANKDKGNPEIYNKINSQ---------DKAIEKFKLLI-KAQMAERVK 59
Query: 114 ALNSQGSAYENAEAKPSKFP 133
L+SQ E + K K P
Sbjct: 60 KLHSQEKKEEKKKPKKKKVP 79
>gnl|CDD|215034 PLN00032, PLN00032, DNA-directed RNA polymerase; Provisional.
Length = 71
Score = 25.1 bits (55), Expect = 6.8
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 155 RYCCVRCLGTHQD 167
RYCC R L TH D
Sbjct: 42 RYCCRRMLMTHVD 54
>gnl|CDD|220600 pfam10147, CR6_interact, Growth arrest and DNA-damage-inducible
proteins-interacting protein 1. Members of this family
of proteins act as negative regulators of G1 to S cell
cycle phase progression by inhibiting cyclin-dependent
kinases. Inhibitory effects are additive with GADD45
proteins but occur also in the absence of GADD45
proteins. Furthermore, they act as a repressor of the
orphan nuclear receptor NR4A1 by inhibiting AB
domain-mediated transcriptional activity.
Length = 217
Score = 26.3 bits (58), Expect = 7.7
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 17 KQRVLDEATRQRRARKALESLESDNFHDDPHADLVMNKKAPKFQETLDAKSGSRKKKSKS 76
K+ A ++R+ R E+ E + DP + P+FQE L K KKK K
Sbjct: 146 KREQKARAAKERKERLVAEAREHFGYWVDP--------RDPRFQEMLQQKEKEEKKKVKE 197
Query: 77 A 77
A
Sbjct: 198 A 198
>gnl|CDD|237068 PRK12344, PRK12344, putative alpha-isopropylmalate/homocitrate
synthase family transferase; Provisional.
Length = 524
Score = 26.6 bits (60), Expect = 8.0
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 105 LAQMIEEDKALNSQGSAYENAEA 127
L +++E K L ++G +E AEA
Sbjct: 358 LKRLLERIKELEAEGYQFEAAEA 380
>gnl|CDD|224558 COG1644, RPB10, DNA-directed RNA polymerase, subunit N (RpoN/RPB10)
[Transcription].
Length = 63
Score = 25.0 bits (55), Expect = 8.0
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 155 RYCCVRCLGTHQDT 168
RYCC R L +H D
Sbjct: 42 RYCCRRMLLSHVDL 55
>gnl|CDD|182353 PRK10280, PRK10280, dipeptidyl carboxypeptidase II; Provisional.
Length = 681
Score = 26.7 bits (59), Expect = 8.1
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 17/60 (28%)
Query: 11 RIKDANKQRVLDEATRQRRARKALESLESDNFHDDPHADLVMNKKAPKFQETLDA--KSG 68
+I D + + DE RQ+RA A + +N +AP F T+ A +SG
Sbjct: 22 QIADHHYRPAFDEGVRQKRAEIAA---------------IALNPQAPDFNNTILALEQSG 66
>gnl|CDD|214601 smart00289, WR1, Worm-specific repeat type 1. Worm-specific repeat
type 1. Cysteine-rich domain apparently unique (so far)
to C. elegans. Often appears with KU domains. About 3
dozen worm proteins contain this domain.
Length = 38
Score = 24.1 bits (52), Expect = 8.7
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 144 PSNYTCVPCGARYCC 158
PS Y+C CC
Sbjct: 23 PSGYSCQNSKQGICC 37
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
0.318 0.129 0.391
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,200,881
Number of extensions: 695243
Number of successful extensions: 828
Number of sequences better than 10.0: 1
Number of HSP's gapped: 827
Number of HSP's successfully gapped: 37
Length of query: 175
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 85
Effective length of database: 6,945,742
Effective search space: 590388070
Effective search space used: 590388070
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: 56 (25.4 bits)