RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3543
(250 letters)
>gnl|CDD|238192 cd00315, Cyt_C5_DNA_methylase, Cytosine-C5 specific DNA methylases;
Methyl transfer reactions play an important role in many
aspects of biology. Cytosine-specific DNA methylases are
found both in prokaryotes and eukaryotes. DNA
methylation, or the covalent addition of a methyl group
to cytosine within the context of the CpG dinucleotide,
has profound effects on the mammalian genome. These
effects include transcriptional repression via
inhibition of transcription factor binding or the
recruitment of methyl-binding proteins and their
associated chromatin remodeling factors, X chromosome
inactivation, imprinting and the suppression of
parasitic DNA sequences. DNA methylation is also
essential for proper embryonic development and is an
important player in both DNA repair and genome
stability.
Length = 275
Score = 128 bits (323), Expect = 8e-36
Identities = 44/155 (28%), Positives = 69/155 (44%), Gaps = 11/155 (7%)
Query: 7 HAFSL---EVVTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPC 63
E+V A +I+ SA Y+ NFP + G +I ++ D++ PC
Sbjct: 15 LGLEKAGFEIVAANEIDKSAAETYEANFPNKLIEG-DITKIDEKDFIP-DIDLLTGGFPC 72
Query: 64 QPFTRTGLQKDIADARCTALSYLIETIPAI-PSLQCLLLENVKGFEG---SRSRDLITSM 119
QPF+ G +K D R T +I + P + LLENVKG + +I +
Sbjct: 73 QPFSIAGKRKGFEDTRGTLFFEIIRILKEKKP--KYFLLENVKGLLTHDNGNTLKVILNT 130
Query: 120 LTRAGFRFQEFLLSPTQFGVPNSRTRYYLIAKRSP 154
L G+ LL+ + +GVP +R R ++I R
Sbjct: 131 LEELGYNVYWKLLNASDYGVPQNRERVFIIGIRKD 165
>gnl|CDD|223348 COG0270, Dcm, Site-specific DNA methylase [DNA replication,
recombination, and repair].
Length = 328
Score = 107 bits (268), Expect = 2e-27
Identities = 45/145 (31%), Positives = 72/145 (49%), Gaps = 7/145 (4%)
Query: 12 EVVTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPCQPFTRTGL 71
E+V A +I+ A + YK NFP ++ +I+ E + DV++ PPCQ F+ G
Sbjct: 26 EIVFANEIDPPAVATYKANFPHGDIILGDIKELDGEALRKSDVDVLIGGPPCQDFSIAGK 85
Query: 72 QKDIADARCTALSYLIETIPAIPSLQ--CLLLENVKGF--EGSRSRDLITSMLTRAGFRF 127
++ D R S +E I I L+ +LENVKG ++ D I L G+
Sbjct: 86 RRGYDDPRG---SLFLEFIRLIEQLRPKFFVLENVKGLLSSKGQTFDEIKKELEELGYGV 142
Query: 128 QEFLLSPTQFGVPNSRTRYYLIAKR 152
+ +L+ +GVP SR R +++ R
Sbjct: 143 EFNILNAADYGVPQSRERVFIVGFR 167
>gnl|CDD|215747 pfam00145, DNA_methylase, C-5 cytosine-specific DNA methylase.
Length = 320
Score = 74.6 bits (184), Expect = 1e-15
Identities = 44/150 (29%), Positives = 69/150 (46%), Gaps = 16/150 (10%)
Query: 12 EVVTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPCQPFTRTGL 71
E V A +I+ SA Y+ NFP+ + +I I++I D++ PCQ F+ G
Sbjct: 23 ECVAANEIDKSAAKTYEANFPKVPIG--DITLIDIKDIPD--IDILTGGFPCQDFSIAGK 78
Query: 72 QKDIADARCTALSYLIETI----PAIPSLQCLLLENVKGFEGSRSR---DLITSMLTRAG 124
QK D R T +I I P LLENVKG + ++I L G
Sbjct: 79 QKGFEDTRGTLFFEIIRIIKEKKPKA-----FLLENVKGLLSHDNGNTLNVILETLEELG 133
Query: 125 FRFQEFLLSPTQFGVPNSRTRYYLIAKRSP 154
+ +L+ + +GVP +R R +++ R+
Sbjct: 134 YSVSWKVLNASDYGVPQNRERVFIVGIRND 163
>gnl|CDD|233085 TIGR00675, dcm, DNA-methyltransferase (dcm). All proteins in this
family for which functions are known are DNA-cytosine
methyltransferases. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 315
Score = 68.5 bits (168), Expect = 1e-13
Identities = 45/156 (28%), Positives = 67/156 (42%), Gaps = 13/156 (8%)
Query: 3 RLSNHAFSLEVVTAIDINTSANSVYKHNFPRTNLRG--RNIQSFSIEEINAMSPDVILMS 60
RL + V A +I+ A Y+ NF G I I + D++L
Sbjct: 12 RLGFEQAGFKCVFASEIDKYAQKTYEANFGNKVPFGDITKISPSDIPDF-----DILLGG 66
Query: 61 PPCQPFTRTGLQKDIADARCTALSYLIETIPAI-PSLQCLLLENVKGFEGS---RSRDLI 116
PCQPF+ G +K D R T ++ + P + LLENVKG R+ +I
Sbjct: 67 FPCQPFSIAGKRKGFEDTRGTLFFEIVRILKEKKP--KFFLLENVKGLVSHDKGRTFKVI 124
Query: 117 TSMLTRAGFRFQEFLLSPTQFGVPNSRTRYYLIAKR 152
L G++ +L+ FGVP +R R Y++ R
Sbjct: 125 IETLEELGYKVYYKVLNAKDFGVPQNRERIYIVGFR 160
>gnl|CDD|181066 PRK07649, PRK07649, para-aminobenzoate/anthranilate synthase
glutamine amidotransferase component II; Validated.
Length = 195
Score = 31.7 bits (72), Expect = 0.23
Identities = 10/22 (45%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 45 SIEEINAMSPDVILMSP-PCQP 65
+I +I M PD +++SP PC P
Sbjct: 35 TISDIENMKPDFLMISPGPCSP 56
>gnl|CDD|216532 pfam01497, Peripla_BP_2, Periplasmic binding protein. This family
includes bacterial periplasmic binding proteins. Several
of which are involved in iron transport.
Length = 236
Score = 31.2 bits (71), Expect = 0.38
Identities = 10/31 (32%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 31 FPRTNLRGRNIQSFSIEEINAMSPDVILMSP 61
T S E I A PDVI++S
Sbjct: 174 AAETKGSES--APISFENILAADPDVIIVSG 202
Score = 28.1 bits (63), Expect = 3.7
Identities = 8/53 (15%), Positives = 19/53 (35%)
Query: 14 VTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPCQPF 66
+ + TS + + + +E++ A+ PD+I+ S
Sbjct: 21 LVGVSAKTSDPLDARKKPAASIPLVGAYREIDVEKLAALKPDLIIGSAGIGLT 73
>gnl|CDD|237645 PRK14235, PRK14235, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 30.9 bits (70), Expect = 0.46
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 32 PRTNLRGRNIQSFSIEEINAMSPDVILMSPPC 63
P T L G Q I A+SP+VILM PC
Sbjct: 160 PGTGLSGGQQQRLCIARAIAVSPEVILMDEPC 191
>gnl|CDD|235552 PRK05670, PRK05670, anthranilate synthase component II;
Provisional.
Length = 189
Score = 30.5 bits (70), Expect = 0.50
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 39 RNIQSFSIEEINAMSPDVILMSP-PCQP 65
RN ++EEI A++PD I++SP P P
Sbjct: 30 RN-DEITLEEIEALNPDAIVLSPGPGTP 56
>gnl|CDD|223586 COG0512, PabA, Anthranilate/para-aminobenzoate synthases
component II [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 191
Score = 29.8 bits (68), Expect = 0.81
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 39 RNIQSFSIEEINAMSPDVILMSP-PCQP 65
RN S+E I A+ PD I++SP P P
Sbjct: 32 RN-DDISLELIEALKPDAIVISPGPGTP 58
>gnl|CDD|237650 PRK14265, PRK14265, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 274
Score = 30.0 bits (67), Expect = 0.92
Identities = 14/30 (46%), Positives = 15/30 (50%)
Query: 34 TNLRGRNIQSFSIEEINAMSPDVILMSPPC 63
T L G Q I AM PDV+LM PC
Sbjct: 160 TALSGGQQQRLCIARAIAMKPDVLLMDEPC 189
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This
family contains methyltransferase domains.
Length = 117
Score = 28.9 bits (65), Expect = 1.1
Identities = 10/53 (18%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 14 VTAIDINTSANSVYKHNFPRTNLRGR-NIQSFSIEEINAM---SPDVILMSPP 62
V ++++ A ++ + L R + E+ + S D++L +PP
Sbjct: 27 VVGVELDPEAAALARRRLALAGLAPRVRVVVGDARELLELPDGSFDLVLGNPP 79
>gnl|CDD|238347 cd00636, TroA-like, Helical backbone metal receptor (TroA-like
domain). These proteins have been shown to function in
the ABC transport of ferric siderophores and metal ions
such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand
binding site is formed in the interface between two
globular domains linked by a single helix. Many of
these proteins also possess a low complexity region
containing a metal-binding histidine-rich motif
(repetitive HDH sequence). The TroA-like proteins
differ in their fold and ligand-binding mechanism from
the PBPI and PBPII proteins, but are structurally
similar, however, to the beta-subunit of the
nitrogenase molybdenum-iron protein MoFe. Most
TroA-like proteins are encoded by ABC-type operons and
appear to function as periplasmic components of ABC
transporters in metal ion uptake.
Length = 148
Score = 29.4 bits (66), Expect = 1.1
Identities = 10/61 (16%), Positives = 20/61 (32%), Gaps = 2/61 (3%)
Query: 13 VVTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPCQPFTRTGLQ 72
V D + ++ ++E+I A+ PD+I+ + L
Sbjct: 23 PVGVADPSGYPPEAKALLEKVPDVGHGY--EPNLEKIAALKPDLIIANGSGLEAWLDKLS 80
Query: 73 K 73
K
Sbjct: 81 K 81
>gnl|CDD|224050 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 309
Score = 30.0 bits (68), Expect = 1.1
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 27 YKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMSPP---CQPFTRTGLQKDIAD 77
Y +P L G Q + A P ++LM P P TR LQ++I +
Sbjct: 128 YADRYPH-ELSGGQQQRVGVARALAADPPILLMDEPFGALDPITRKQLQEEIKE 180
>gnl|CDD|237764 PRK14607, PRK14607, bifunctional glutamine
amidotransferase/anthranilate
phosphoribosyltransferase; Provisional.
Length = 534
Score = 30.1 bits (68), Expect = 1.3
Identities = 11/22 (50%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 45 SIEEINAMSPDVILMSP-PCQP 65
+IEEI A++P I++SP P +P
Sbjct: 36 TIEEIEALNPSHIVISPGPGRP 57
>gnl|CDD|213561 TIGR00809, secB, protein-export chaperone SecB. This protein acts
as an export-specific cytosolic chaperone. It binds the
mature region of pre-proteins destined for secretion,
prevents aggregation, and delivers them to SecA. This
protein is tetrameric in E. coli. The archaeal
Methanococcus jannaschii homolog MJ0357 has been shown
(PMID:14985117) to share many properties, including
chaperone-like activity, and scores between trusted and
noise [Protein fate, Protein and peptide secretion and
trafficking].
Length = 140
Score = 29.0 bits (65), Expect = 1.4
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 112 SRDLITSMLTRAGFRFQEFLLSPTQFG 138
+R++I+S + R F L+P F
Sbjct: 106 AREIISSCVQRGT--FPPLNLAPVNFD 130
>gnl|CDD|236696 PRK10458, PRK10458, DNA cytosine methylase; Provisional.
Length = 467
Score = 29.6 bits (67), Expect = 1.5
Identities = 25/75 (33%), Positives = 32/75 (42%), Gaps = 20/75 (26%)
Query: 46 IEEINAMSP--DVILMSPPCQPFTRTGLQKDIADAR-----CTA---LSYLIETI----- 90
E I P DV+L PCQPF+ G+ K + R C L + + I
Sbjct: 160 AEHIRQHIPDHDVLLAGFPCQPFSLAGVSKKNSLGRAHGFECETQGTLFFDVARIIDAKR 219
Query: 91 PAIPSLQCLLLENVK 105
PAI +LENVK
Sbjct: 220 PAI-----FVLENVK 229
>gnl|CDD|238564 cd01144, BtuF, Cobalamin binding protein BtuF. These proteins
have been shown to function as initial receptors in ABC
transport of vitamin B12 (cobalamin) in eubacterial and
some archaeal species. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding
mechanism. A typical TroA protein is comprised of two
globular subdomains connected by a single helix and can
bind the metal ion in the cleft between these domains.
In addition, these proteins sometimes have a low
complexity region containing a metal-binding
histidine-rich motif (repetitive HDH sequence).
Length = 245
Score = 29.2 bits (66), Expect = 1.7
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 37 RGRNIQSFSIEEINAMSPDVILMSPPCQP 65
R +E + A+ PD+++ C
Sbjct: 41 RVGGFYQLDLERVLALKPDLVIAWDDCNV 69
>gnl|CDD|238897 cd01916, ACS_1, Acetyl-CoA synthase (ACS), also known as acetyl-CoA
decarbonylase, is found in acetogenic and methanogenic
organisms and is responsible for the synthesis and
breakdown of acetyl-CoA. ACS forms a heterotetramer
with carbon monoxide dehydrogenase (CODH) consisting of
two ACS and two CODH subunits. CODH reduces carbon
dioxide to carbon monoxide and ACS then synthesizes
acetyl-CoA from carbon monoxide, CoA, and a methyl group
donated by another protein (CoFeSP). ACS has three
structural domains, an N-terminal rossman fold domain
with a helical region at its N-terminus which interacts
with CODH, and two alpha + beta fold domains. A Ni-Fe-S
center referred to as the A-cluster is located in the
C-terminal domain. A large cavity exists between the
three domains which may bind CoA.
Length = 731
Score = 29.3 bits (66), Expect = 2.5
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 201 PSGDLYRRYLVSDKDLLRRFHVFDIVNGK 229
P G YRR + D + V+D G+
Sbjct: 606 PHGSKYRRAYIGRPDKEEDWKVYDARTGE 634
>gnl|CDD|172741 PRK14253, PRK14253, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 249
Score = 28.7 bits (64), Expect = 2.6
Identities = 13/33 (39%), Positives = 13/33 (39%)
Query: 30 NFPRTNLRGRNIQSFSIEEINAMSPDVILMSPP 62
L G Q I AM PDVILM P
Sbjct: 140 KSHAFGLSGGQQQRLCIARTIAMEPDVILMDEP 172
>gnl|CDD|181194 PRK08007, PRK08007, para-aminobenzoate synthase component II;
Provisional.
Length = 187
Score = 28.3 bits (63), Expect = 2.7
Identities = 11/28 (39%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 39 RNIQSFSIEEINAMSPDVILMSP-PCQP 65
RN + ++ +I+A+ P I++SP PC P
Sbjct: 30 RN-DALTLADIDALKPQKIVISPGPCTP 56
>gnl|CDD|184593 PRK14258, PRK14258, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 261
Score = 28.5 bits (63), Expect = 2.9
Identities = 31/126 (24%), Positives = 54/126 (42%), Gaps = 21/126 (16%)
Query: 35 NLRGRNIQSFSIEEINAMSPDVILMSPPC---QPFTRTGLQKDIADARC-TALSYLIET- 89
+L G Q I A+ P V+LM PC P ++ I R + L+ +I +
Sbjct: 150 DLSGGQQQRLCIARALAVKPKVLLMDEPCFGLDPIASMKVESLIQSLRLRSELTMVIVSH 209
Query: 90 -IPAIPSLQCLLLENVKGFEGSRSRDLITSMLTRAGFRFQEFLLSPTQFGVP-NSRTRYY 147
+ + L + F+G+ +R I ++ EF L+ F P +SRTR Y
Sbjct: 210 NLHQVSRLS----DFTAFFKGNENR--IGQLV--------EFGLTKKIFNSPHDSRTREY 255
Query: 148 LIAKRS 153
++++
Sbjct: 256 VLSRLG 261
>gnl|CDD|233027 TIGR00566, trpG_papA, glutamine amidotransferase of anthranilate
synthase or aminodeoxychorismate synthase. This model
describes the glutamine amidotransferase domain or
peptide of the tryptophan-biosynthetic pathway enzyme
anthranilate synthase or of the folate biosynthetic
pathway enzyme para-aminobenzoate synthase. In at least
one case, a single polypeptide from Bacillus subtilis
was shown to have both functions. This model covers a
subset of the sequences described by the PFAM model
GATase.
Length = 188
Score = 28.2 bits (63), Expect = 3.3
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 43 SFSIEEINAMSPDVILMSP-PCQP 65
S +++EI A+ P +I++SP PC P
Sbjct: 33 SLTLQEIEALLPLLIVISPGPCTP 56
>gnl|CDD|214863 smart00859, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD
binding domain. The semialdehyde dehydrogenase family
is found in N-acetyl-glutamine semialdehyde
dehydrogenase (AgrC), which is involved in arginine
biosynthesis, and aspartate-semialdehyde dehydrogenase,
an enzyme involved in the biosynthesis of various amino
acids from aspartate. This family is also found in
yeast and fungal Arg5,6 protein, which is cleaved into
the enzymes N-acety-gamma-glutamyl-phosphate reductase
and acetylglutamate kinase. These are also involved in
arginine biosynthesis. All proteins in this entry
contain a NAD binding region of semialdehyde
dehydrogenase.
Length = 123
Score = 27.5 bits (62), Expect = 3.4
Identities = 12/62 (19%), Positives = 24/62 (38%), Gaps = 5/62 (8%)
Query: 2 ERLSNH-AFSLEVVTAIDINTSANSVYKHNFPRTNLRGRNIQSFSIEEINAMSPDVILMS 60
L+ H F L + A SA P +L+G + + ++ D++ ++
Sbjct: 17 RLLAEHPDFELTALAASS--RSAGKKVSEAGP--HLKGEVVLELDPPDFEELAVDIVFLA 72
Query: 61 PP 62
P
Sbjct: 73 LP 74
>gnl|CDD|213262 cd03295, ABC_OpuCA_Osmoprotection, ATP-binding cassette domain of
the osmoprotectant transporter. OpuCA is a the ATP
binding component of a bacterial solute transporter that
serves a protective role to cells growing in a
hyperosmolar environment. ABC (ATP-binding cassette)
transporter nucleotide-binding domain; ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds, like sugars,
ions, peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition, to the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 242
Score = 28.4 bits (64), Expect = 3.5
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 51 AMSPDVILMSPP---CQPFTRTGLQKDIAD 77
A P ++LM P P TR LQ++
Sbjct: 151 AADPPLLLMDEPFGALDPITRDQLQEEFKR 180
>gnl|CDD|184596 PRK14267, PRK14267, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 28.3 bits (63), Expect = 3.8
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 34 TNLRGRNIQSFSIEEINAMSPDVILMSPP 62
+NL G Q I AM P ++LM P
Sbjct: 148 SNLSGGQRQRLVIARALAMKPKILLMDEP 176
>gnl|CDD|237651 PRK14266, PRK14266, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 250
Score = 28.0 bits (62), Expect = 3.9
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I A+SP+VILM PC
Sbjct: 147 LSGGQQQRLCIARTIAVSPEVILMDEPC 174
>gnl|CDD|184587 PRK14241, PRK14241, phosphate transporter ATP-binding protein;
Provisional.
Length = 258
Score = 28.1 bits (63), Expect = 4.1
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 30 NFPRTNLRGRNIQSFSIEEINAMSPDVILMSPPC 63
+ P L G Q I A+ PDV+LM PC
Sbjct: 143 DKPGGGLSGGQQQRLCIARAIAVEPDVLLMDEPC 176
>gnl|CDD|220262 pfam09485, CRISPR_Cse2, CRISPR-associated protein Cse2
(CRISPR_cse2). Clusters of short DNA repeats with
non-homologous spacers, which are found at regular
intervals in the genomes of phylogenetically distinct
prokaryotic species, comprise a family with recognisable
features. This family is known as CRISPR (short for
Clustered, Regularly Interspaced Short Palindromic
Repeats). A number of protein families appear only in
association with these repeats and are designated Cas
(CRISPR-Associated) proteins. This family of proteins,
represented by CT1973 from Chlorobaculum tepidum, is
encoded by genes found in the CRISPR/Cas subtype Ecoli
regions of many bacteria (most of which are mesophiles),
and not in Archaea. It is designated Cse2.
Length = 143
Score = 27.3 bits (61), Expect = 4.3
Identities = 24/116 (20%), Positives = 37/116 (31%), Gaps = 19/116 (16%)
Query: 111 RSRDLITSMLTRAGFRFQEFLLSPTQFGVPNSRTRYYLIA------KRSPAAHSSEASFC 164
R +L A F + + + L+A K+ P H+ S
Sbjct: 7 RRALGPDPVLPEAAFLYVA-PPALKEDAREAEEEALALVAALLAHHKQDPPGHTFARS-- 63
Query: 165 FETSSELMTELPKLKANTCNPLLSRMTLHGILDSTHPSGDLYR-RYLVSDKDLLRR 219
L L +L+ + +S +L + P L R R LV LLR
Sbjct: 64 ------LGRALARLRQDGDKSDVSERRFRQLLRADTPDELLRRLRRLVR---LLRG 110
>gnl|CDD|172747 PRK14259, PRK14259, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 269
Score = 27.8 bits (62), Expect = 5.4
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I A+ P+VILM PC
Sbjct: 155 LSGGQQQRLCIARTIAIEPEVILMDEPC 182
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 27.9 bits (62), Expect = 5.8
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 181 NTCNPLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRFH 221
N P L+R LH + +T D YR+Y+ D L RRF
Sbjct: 297 NMLKPALARGELHCVGATTL---DEYRQYIEKDAALERRFQ 334
>gnl|CDD|238560 cd01140, FatB, Siderophore binding protein FatB. These proteins
have been shown to function as ABC-type initial
receptors in the siderophore-mediated iron uptake in
some eubacterial species. They belong to the TroA
superfamily of periplasmic metal binding proteins that
share a distinct fold and ligand binding mechanism. A
typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind
their ligands in the cleft between these domains.
Length = 270
Score = 27.6 bits (62), Expect = 6.0
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 46 IEEINAMSPDVILMSPPCQPF 66
+E I A+ PD+I++
Sbjct: 65 LEAIAALKPDLIIIGGRLAEK 85
>gnl|CDD|172749 PRK14261, PRK14261, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 27.5 bits (61), Expect = 6.1
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I A++P+VILM PC
Sbjct: 150 LSGGQQQRLCIARTLAVNPEVILMDEPC 177
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 28.0 bits (63), Expect = 6.3
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 180 ANTCNPLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRF 220
N P L+R LH I +T D YR+Y+ D L RRF
Sbjct: 291 GNMLKPALARGELHCIGATTL---DEYRKYIEKDAALERRF 328
>gnl|CDD|238559 cd01139, TroA_f, Periplasmic binding protein TroA_f. These
proteins are predicted to function as initial receptors
in the ABC metal ion uptake in eubacteria and archaea.
They belong to the TroA superfamily of helical backbone
metal receptor proteins that share a distinct fold and
ligand binding mechanism. A typical TroA protein is
comprised of two globular subdomains connected by a
single helix and can bind their ligands in the cleft
between these domains.
Length = 342
Score = 27.7 bits (62), Expect = 6.3
Identities = 5/19 (26%), Positives = 14/19 (73%)
Query: 42 QSFSIEEINAMSPDVILMS 60
FS+E++ + PD+++++
Sbjct: 80 GDFSVEKVLTLKPDLVILN 98
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 27.2 bits (61), Expect = 7.0
Identities = 18/52 (34%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 14 VTAIDINTSANSVYKHNFPRTNLRGRN---IQSFSIEEINAMSPDVILMSPP 62
V +DIN A K N N+R I+S E DVIL +PP
Sbjct: 48 VVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPP 99
>gnl|CDD|184590 PRK14249, PRK14249, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 27.3 bits (60), Expect = 7.4
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I + A+ P+VILM PC
Sbjct: 148 LSGGQQQRLCIARVLAIEPEVILMDEPC 175
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 27.6 bits (62), Expect = 7.7
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 185 PLLSRMTLHGILDSTHPSGDLYRRYLVSDKDLLRRFHVFDI 225
P L+R L I +T D YR+Y+ D L RRF +
Sbjct: 293 PALARGELRCIGATTL---DEYRKYIEKDAALERRFQKVLV 330
>gnl|CDD|184588 PRK14243, PRK14243, phosphate transporter ATP-binding protein;
Provisional.
Length = 264
Score = 27.1 bits (60), Expect = 7.9
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I A+ P+VILM PC
Sbjct: 152 LSGGQQQRLCIARAIAVQPEVILMDEPC 179
>gnl|CDD|219498 pfam07651, ANTH, ANTH domain. AP180 is an endocytotic accessory
proteins that has been implicated in the formation of
clathrin-coated pits. The domain is involved in
phosphatidylinositol 4,5-bisphosphate binding and is a
universal adaptor for nucleation of clathrin coats.
Length = 278
Score = 27.3 bits (61), Expect = 8.3
Identities = 14/61 (22%), Positives = 22/61 (36%)
Query: 190 MTLHGILDSTHPSGDLYRRYLVSDKDLLRRFHVFDIVNGKASSTNCFTKAYTHYAEGKID 249
+ +H +L HPS L R FD F +AY Y + ++D
Sbjct: 62 ILVHKLLREGHPSVLQELLRARRRISSLLRISSFDDSMSLTWDYGAFIRAYAKYLDERLD 121
Query: 250 Y 250
+
Sbjct: 122 F 122
>gnl|CDD|184597 PRK14270, PRK14270, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 251
Score = 26.8 bits (59), Expect = 9.2
Identities = 12/28 (42%), Positives = 13/28 (46%)
Query: 36 LRGRNIQSFSIEEINAMSPDVILMSPPC 63
L G Q I A+ PDVILM P
Sbjct: 148 LSGGQQQRLCIARTIAVKPDVILMDEPT 175
>gnl|CDD|163628 cd07385, MPP_YkuE_C, Bacillus subtilis YkuE and related proteins,
C-terminal metallophosphatase domain. YkuE is an
uncharacterized Bacillus subtilis protein with a
C-terminal metallophosphatase domain and an N-terminal
twin-arginine (RR) motif. An RR-signal peptide derived
from the Bacillus subtilis YkuE protein can direct
Tat-dependent secretion of agarase in Streptomyces
lividans. This is an indication that YkuE is
transported by the Bacillus subtilis Tat (Twin-arginine
translocation) pathway machinery. YkuE belongs to the
metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 223
Score = 26.9 bits (60), Expect = 9.9
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 12/43 (27%)
Query: 46 IEEINAMSPDVILMSPPCQPFTRTGLQKDIADARCTALSYLIE 88
+E+INA+ PD++++ TG D+ D L L+E
Sbjct: 25 VEKINALKPDLVVL---------TG---DLVDGSVDVLELLLE 55
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
0.321 0.133 0.389
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,385,919
Number of extensions: 1134113
Number of successful extensions: 990
Number of sequences better than 10.0: 1
Number of HSP's gapped: 976
Number of HSP's successfully gapped: 54
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
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: 58 (26.0 bits)