RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6031
(209 letters)
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab) or
POZ (for Pox virus and Zinc finger) domain is present
near the N-terminus of a fraction of zinc finger
(pfam00096) proteins and in proteins that contain the
pfam01344 motif such as Kelch and a family of pox virus
proteins. The BTB/POZ domain mediates homomeric
dimerisation and in some instances heteromeric
dimerisation. The structure of the dimerised PLZF
BTB/POZ domain has been solved and consists of a tightly
intertwined homodimer. The central scaffolding of the
protein is made up of a cluster of alpha-helices flanked
by short beta-sheets at both the top and bottom of the
molecule. POZ domains from several zinc finger proteins
have been shown to mediate transcriptional repression
and to interact with components of histone deacetylase
co-repressor complexes including N-CoR and SMRT. The POZ
or BTB domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 84.6 bits (210), Expect = 1e-21
Identities = 32/98 (32%), Positives = 56/98 (57%), Gaps = 3/98 (3%)
Query: 112 LYQLLKMESMVDVTLKAEGEAFQAHRIILSASSPFFQEILSPIENDCHPIVILADVPAND 171
L +L + + DVTL + F AH+ +L+A SP+F+ + + + + L DV D
Sbjct: 1 LNELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFT---GNKEVEITLEDVSPED 57
Query: 172 VKAILEFIYYGEIKVEGANIFSVLKTAQNLKISALLEA 209
+A+LEFIY G++++ N+ +L A L+I AL++
Sbjct: 58 FEALLEFIYTGKLEITEENVDDLLALADKLQIPALIDK 95
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac. Domain
in Broad-Complex, Tramtrack and Bric a brac. Also known
as POZ (poxvirus and zinc finger) domain. Known to be a
protein-protein interaction motif found at the N-termini
of several C2H2-type transcription factors as well as
Shaw-type potassium channels. Known structure reveals a
tightly intertwined dimer formed via interactions
between N-terminal strand and helix structures. However
in a subset of BTB/POZ domains, these two secondary
structures appear to be missing. Be aware SMART predicts
BTB/POZ domains without the beta1- and alpha1-secondary
structures.
Length = 97
Score = 78.5 bits (194), Expect = 3e-19
Identities = 30/88 (34%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 123 DVTLKAEGEAFQAHRIILSASSPFFQEIL-SPIENDCHPIVILADVPANDVKAILEFIYY 181
DVTL G+ F AH+ +L+A SP+F+ + S + + L DV D +A+L F+Y
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYT 60
Query: 182 GEIKVEGANIFSVLKTAQNLKISALLEA 209
G++ + N+ +L+ A L+I L+E
Sbjct: 61 GKLDLPEENVEELLELADYLQIPGLVEL 88
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 38.6 bits (90), Expect = 0.001
Identities = 23/89 (25%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 121 MVDVTLKAEGEAFQAHRIILSASSPFFQEILS--PIENDCHPIVILADVPANDVKAILEF 178
+ + G + H+IILS+SS +F+++ EN+ I + D + ++++
Sbjct: 11 DESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENE---INLNIDYDS--FNEVIKY 65
Query: 179 IYYGEIKVEGANIFSVLKTAQNLKISALL 207
IY G+I + N+ +L A L I L+
Sbjct: 66 IYTGKINITSNNVKDILSIANYLIIDFLI 94
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 37.7 bits (87), Expect = 0.003
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 5/96 (5%)
Query: 115 LLKMESMVDVTLK-AEGEAFQAHRIILSASSPFFQEILSP--IENDCHPIVILADVPAND 171
LL + + DV + +GE +AH+ IL+A S +F+ + + I D V L +
Sbjct: 19 LLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVNLQMFDKDA 78
Query: 172 VKAILEFIYYGEIKVEGANIFSVLKTAQNLKISALL 207
VK I++++Y I N+ VLK A L I L+
Sbjct: 79 VKNIVQYLYNRHI--SSMNVIDVLKCADYLLIDDLV 112
>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules.
Length = 372
Score = 30.3 bits (69), Expect = 0.77
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 118 MESMVDVTLKAEGEAFQAHRIILS 141
+E MVD L EG+ +RI+ S
Sbjct: 221 LEHMVDTVLYFEGDRHSEYRILRS 244
>gnl|CDD|223962 COG1031, COG1031, Uncharacterized Fe-S oxidoreductase [Energy
production and conversion].
Length = 560
Score = 29.3 bits (66), Expect = 1.7
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 64 FMSVDDGGSVPVPQPE--EKTILSIRMAA 90
+ + D+GG VP P PE EK IR A
Sbjct: 246 YGADDNGGEVPRPNPEALEKLFRGIRNVA 274
>gnl|CDD|237407 PRK13516, PRK13516, gamma-glutamyl:cysteine ligase; Provisional.
Length = 373
Score = 28.4 bits (64), Expect = 2.6
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 136 HRIILSASSPFFQ 148
H I LSASSP+ Q
Sbjct: 160 HFIALSASSPYVQ 172
>gnl|CDD|236994 PRK11823, PRK11823, DNA repair protein RadA; Provisional.
Length = 446
Score = 28.5 bits (65), Expect = 2.7
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 118 MESMVDVTLKAEGEAFQAHRII 139
+E MVD L EG+ +RI+
Sbjct: 219 LEHMVDTVLYFEGDRHSRYRIL 240
>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 28.0 bits (63), Expect = 4.5
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 118 MESMVDVTLKAEGEAFQAHRII 139
+E MVD L EG+ +RI+
Sbjct: 231 LEHMVDTVLYFEGDRHSRYRIL 252
>gnl|CDD|240408 PTZ00413, PTZ00413, lipoate synthase; Provisional.
Length = 398
Score = 27.5 bits (61), Expect = 5.0
Identities = 21/96 (21%), Positives = 29/96 (30%), Gaps = 22/96 (22%)
Query: 7 INEEENPLAPWLTLKPPI---------EPKDSSKESQLTTT-------------NTSETN 44
I E PL PW +K P + S +E +L T +
Sbjct: 86 IKRGEEPLPPWFKVKVPKGASRRPRFNRIRRSMREKKLHTVCEEAKCPNIGECWGGGDEE 145
Query: 45 DQQFFIVGLDGSHCSVDEFFMSVDDGGSVPVPQPEE 80
+ + G HC+ F SV P P E
Sbjct: 146 GTATATIMVMGDHCTRGCRFCSVKTSRKPPPLDPNE 181
>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes
for a probable ATP-dependent protease involved in both
DNA repair and degradation of proteins, peptides,
glycopeptides. Also known as sms. Residues 11-28 of the
SEED alignment contain a putative Zn binding domain.
Residues 110-117 of the seed contain a putative ATP
binding site both documented in Haemophilus and in
Listeria monocytogenes. for E.coli see ( J. BACTERIOL.
178:5045-5048(1996)) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 454
Score = 27.5 bits (61), Expect = 5.2
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 118 MESMVDVTLKAEGEAFQAHRIILSASSPF 146
+E MVD L EG+ RI+ S + F
Sbjct: 233 LEHMVDTVLYFEGDRDSRFRILRSVKNRF 261
>gnl|CDD|227038 COG4694, COG4694, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 758
Score = 26.8 bits (59), Expect = 9.1
Identities = 14/73 (19%), Positives = 20/73 (27%), Gaps = 2/73 (2%)
Query: 17 WLTLKPPIEPKDSSKESQLTTTNTSETNDQQFFIVGLDGSHCSVDEFFMSVDDGGSVPVP 76
+ P + DSS + N E F D SH D+ F+ D
Sbjct: 677 FFRFLGPFKRNDSSLSECIE--NIEEARVNSFISWANDYSHGISDDLFVQSQDTSIETSL 734
Query: 77 QPEEKTILSIRMA 89
+ K
Sbjct: 735 KVFGKIFQYAETG 747
>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed.
Length = 158
Score = 26.3 bits (58), Expect = 9.6
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 172 VKAILEFIYYGEIKVEGANIFSVLKTAQNL 201
+K +EFI+ ++KV NIF+V K + L
Sbjct: 38 IKKAVEFIF--KVKVLKVNIFNVDKKPKRL 65
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
0.317 0.133 0.384
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,410,415
Number of extensions: 944021
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 716
Number of HSP's successfully gapped: 19
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.7 bits)