RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14281
(171 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 = 105 bits (263), Expect = 5e-30
Identities = 35/97 (36%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 66 FKHLRNDNSFTDVTLACEGQTCKAHKMVLSACSPYFKTLLEENPSKHPIIILKDVPFKHL 125
LR + DVTL + AHK VL+ACSPYFK L N I L+DV +
Sbjct: 1 LNELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFTGNKEVE--ITLEDVSPEDF 58
Query: 126 TDILEFMYAGEVNVSQDQLPSFLKTADRLKIKGLAEA 162
+LEF+Y G++ ++++ + L AD+L+I L +
Sbjct: 59 EALLEFIYTGKLEITEENVDDLLALADKLQIPALIDK 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 = 97.0 bits (242), Expect = 7e-27
Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 2/88 (2%)
Query: 77 DVTLACEGQTCKAHKMVLSACSPYFKTLLEENP--SKHPIIILKDVPFKHLTDILEFMYA 134
DVTL G+ AHK VL+A SPYFK L + S I L DV + +L F+Y
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYT 60
Query: 135 GEVNVSQDQLPSFLKTADRLKIKGLAEA 162
G++++ ++ + L+ AD L+I GL E
Sbjct: 61 GKLDLPEENVEELLELADYLQIPGLVEL 88
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 50.5 bits (121), Expect = 8e-08
Identities = 22/94 (23%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 64 TSFKHLRNDNSFTDVTLACEGQTCKAHKMVLSACSPYFKTLLEENPSKHPIIILKDVPFK 123
SF+ + + + + G K HK++LS+ S YFK + + N ++ I + D
Sbjct: 2 YSFELQKFCD--ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNIDY--D 57
Query: 124 HLTDILEFMYAGEVNVSQDQLPSFLKTADRLKIK 157
++++++Y G++N++ + + L A+ L I
Sbjct: 58 SFNEVIKYIYTGKINITSNNVKDILSIANYLIID 91
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 38.8 bits (90), Expect = 7e-04
Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 16/116 (13%)
Query: 62 MVTSFKHLRNDNSFTDVTLAC-EGQTCKAHKMVLSACSPYFKTLLEENPSKHPIIILKDV 120
+V++ +L +D+ DV + +G+ KAHK +L+A S YF+TL P+II V
Sbjct: 12 VVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTT-----PMIIRDLV 66
Query: 121 PFKHL--------TDILEFMYAGEVNVSQDQLPSFLKTADRLKIKGLAEAPQSSVK 168
+L +I++++Y ++S + LK AD L I L +S +K
Sbjct: 67 TRVNLQMFDKDAVKNIVQYLY--NRHISSMNVIDVLKCADYLLIDDLVTDCESYIK 120
>gnl|CDD|143468 cd07150, ALDH_VaniDH_like, Pseudomonas putida vanillin
dehydrogenase-like. Vanillin dehydrogenase (Vdh,
VaniDH) involved in the metabolism of ferulic acid and
other related sequences are included in this CD. The
E. coli vanillin dehydrogenase (LigV) preferred NAD+ to
NADP+ and exhibited a broad substrate preference,
including vanillin, benzaldehyde, protocatechualdehyde,
m-anisaldehyde, and p-hydroxybenzaldehyde.
Length = 451
Score = 32.3 bits (74), Expect = 0.11
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 91 KMVLSACSPYFKTLLEENPSKHPIIILKDVPFKHLTDIL---EFMYAGEV 137
+ + + K + E K+P+I+L D + FM+ G++
Sbjct: 212 REIAEKAGRHLKKITLELGGKNPLIVLADADLDYAVRAAAFGAFMHQGQI 261
>gnl|CDD|165153 PHA02790, PHA02790, Kelch-like protein; Provisional.
Length = 480
Score = 30.4 bits (68), Expect = 0.47
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 93 VLSACSPYFKTLLEENPSKH--PII-ILKDVPFKHLTDILEFMYAGEVNVSQDQLPSFLK 149
+L SPYF+T L + +K+ P+ + D+ LT I+ + Y G+V + + + L+
Sbjct: 39 ILKKLSPYFRTHLRQKYTKNKDPVTRVCLDLDIHSLTSIVIYSYTGKVYIDSHNVVNLLR 98
Query: 150 TA 151
+
Sbjct: 99 AS 100
>gnl|CDD|236270 PRK08471, flgK, flagellar hook-associated protein FlgK; Validated.
Length = 613
Score = 29.6 bits (67), Expect = 0.73
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 14 SYYKQFSDPLENFRDSQRKLPEL----PEISKTKMNGEQQQYYLKWNDFQSN 61
S YK+ S LE L E P++ T + + Q Y+ WNDF SN
Sbjct: 76 SRYKKASTELEYTDYEFSTLQEASQYFPDLDDTGILKDLQDYFNAWNDFASN 127
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 29.4 bits (67), Expect = 0.99
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 4 KSPEDVRQILSYYKQFSDPLENFRDSQRKLPEL 36
+ EDVR++L YYK ++ + + K+ +L
Sbjct: 399 TTVEDVRELLKYYKMMKKAMKQLKKGKGKMGKL 431
>gnl|CDD|236966 PRK11747, dinG, ATP-dependent DNA helicase DinG; Provisional.
Length = 697
Score = 29.0 bits (66), Expect = 1.4
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 11 QILSYYKQFSDPLENF--RDSQRKLPELPEISKTKMNGEQ 48
QI YK + L F R QR++ + E++KT + GE
Sbjct: 9 QIRQAYKALQEQLPGFIPRAGQRQM--IAEVAKT-LAGEY 45
>gnl|CDD|215253 PLN02459, PLN02459, probable adenylate kinase.
Length = 261
Score = 28.3 bits (63), Expect = 1.9
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 2 AEKSPEDVRQILSYYKQFSDPLENFRDSQRKLPELP 37
A+ + E V+ L YK+ S P+E+F + KL E
Sbjct: 198 ADDTEEVVKARLRVYKEESQPVEDFYRKRGKLLEFE 233
>gnl|CDD|182415 PRK10370, PRK10370, formate-dependent nitrite reductase complex
subunit NrfG; Provisional.
Length = 198
Score = 27.9 bits (62), Expect = 2.1
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 12/70 (17%)
Query: 16 YKQFSDPLENFRDSQRKLPEL----PEISKTKMNGEQ----QQYYLKWNDFQSNMVTSFK 67
Y++ +DPL F Q +L +I N EQ +YYL ND+ N + +++
Sbjct: 39 YQRLADPLHQFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY-DNALLAYR 97
Query: 68 H---LRNDNS 74
LR +N+
Sbjct: 98 QALQLRGENA 107
>gnl|CDD|235542 PRK05644, gyrB, DNA gyrase subunit B; Validated.
Length = 638
Score = 27.0 bits (61), Expect = 5.3
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 83 EGQTCK-------AHKMVLSACSPYFKTLLEENPSKHPIIILK 118
EGQT K +V S S LEENP+ I+ K
Sbjct: 336 EGQT-KTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEK 377
>gnl|CDD|239311 cd03013, PRX5_like, Peroxiredoxin (PRX) family, PRX5-like
subfamily; members are similar to the human protein,
PRX5, a homodimeric TRX peroxidase, widely expressed in
tissues and found cellularly in mitochondria,
peroxisomes and the cytosol. The cellular location of
PRX5 suggests that it may have an important antioxidant
role in organelles that are major sources of reactive
oxygen species (ROS), as well as a role in the control
of signal transduction. PRX5 has been shown to reduce
hydrogen peroxide, alkyl hydroperoxides and
peroxynitrite. As with all other PRXs, the N-terminal
peroxidatic cysteine of PRX5 is oxidized into a sulfenic
acid intermediate upon reaction with peroxides. Human
PRX5 is able to resolve this intermediate by forming an
intramolecular disulfide bond with its C-terminal
cysteine (the resolving cysteine), which can then be
reduced by TRX, just like an atypical 2-cys PRX. This
resolving cysteine, however, is not conserved in other
members of the subfamily. In such cases, it is assumed
that the oxidized cysteine is directly resolved by an
external small-molecule or protein reductant, typical of
a 1-cys PRX. In the case of the H. influenza PRX5
hybrid, the resolving glutaredoxin domain is on the same
protein chain as PRX. PRX5 homodimers show an A-type
interface, similar to atypical 2-cys PRXs.
Length = 155
Score = 26.4 bits (59), Expect = 6.2
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 140 SQDQLPSFLKTADRLKIKG 158
S LP +++ AD LK KG
Sbjct: 46 SAQHLPGYVENADELKAKG 64
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 26.9 bits (60), Expect = 7.1
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 1/62 (1%)
Query: 16 YKQFSDPLENFRDSQRKL-PELPEISKTKMNGEQQQYYLKWNDFQSNMVTSFKHLRNDNS 74
Y QF + + S + + ++ +G + YL N+V+ S
Sbjct: 27 YSQFIQLVSGGKVSSVSIKGDSKTVNLKLKDGSKNTVYLPKGVNDPNLVSFLDSNNITES 86
Query: 75 FT 76
Sbjct: 87 GF 88
>gnl|CDD|225588 COG3046, COG3046, Uncharacterized protein related to
deoxyribodipyrimidine photolyase [General function
prediction only].
Length = 505
Score = 26.6 bits (59), Expect = 7.2
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 9/46 (19%)
Query: 9 VRQILSYYK------QFSDPLE---NFRDSQRKLPELPEISKTKMN 45
VRQI+ + + P NF ++ RKLP +TKM
Sbjct: 300 VRQIIGWREFMRGIYWLKMPDYATRNFFNADRKLPPFYWTGQTKMA 345
>gnl|CDD|225324 COG2604, COG2604, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 594
Score = 26.6 bits (59), Expect = 7.3
Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 5/60 (8%)
Query: 17 KQFSDPLENFRDSQRKLPELPEISKTKMNGEQQQYYL-----KWNDFQSNMVTSFKHLRN 71
F + E D + P + I + + E+ L K NDF T L+
Sbjct: 442 LPFKEVCEKLLDKDKNKPFIKLILLSNNSQEKAVLKLLQKIKKNNDFIKEFETDALKLQE 501
>gnl|CDD|203609 pfam07308, DUF1456, Protein of unknown function (DUF1456). This
family consists of several hypothetical bacterial
proteins of around 150 residues in length. The function
of this family is unknown.
Length = 68
Score = 24.7 bits (55), Expect = 8.9
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 126 TDILEFMYAGEVNVSQDQLPSFLK 149
D++E VS+ +L + L+
Sbjct: 17 DDMIEIFALAGFEVSKSELSALLR 40
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
0.316 0.131 0.379
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,435,040
Number of extensions: 736664
Number of successful extensions: 746
Number of sequences better than 10.0: 1
Number of HSP's gapped: 743
Number of HSP's successfully gapped: 30
Length of query: 171
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 81
Effective length of database: 6,945,742
Effective search space: 562605102
Effective search space used: 562605102
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 (21.6 bits)
S2: 55 (25.0 bits)