RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4310
(203 letters)
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
This model represents examples from the eukaryotic
cytosol of the signal recognition particle protein
component, SRP54. This GTP-binding protein is a
component of the eukaryotic signal recognition particle,
along with several other protein subunits and a 7S RNA.
Some species, including Arabidopsis, have several
closely related forms. The extreme C-terminal region is
glycine-rich and lower in complexity, poorly conserved
between species, and excluded from this model.
Length = 429
Score = 185 bits (470), Expect = 6e-57
Identities = 90/133 (67%), Positives = 111/133 (83%), Gaps = 2/133 (1%)
Query: 24 MGDIEGLIDKVNELKLDDNE-ELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGF 82
MGDIEGLIDKV +LKLDDNE LIEK+K G FTLRDMYEQFQN++KMGP QI+ MIPGF
Sbjct: 296 MGDIEGLIDKVQDLKLDDNEKALIEKLKEGTFTLRDMYEQFQNLLKMGPLGQILSMIPGF 355
Query: 83 SQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEK 142
S DF+SKG+E+ESMA++K+LMTIMDSM D ELD+ K+FSKQ RI RVA+G+G + +
Sbjct: 356 STDFMSKGNEEESMAKIKKLMTIMDSMTDQELDS-TDGKVFSKQPSRIQRVARGSGRSIR 414
Query: 143 EVKDLISQYTKFA 155
+V++L+ QY KFA
Sbjct: 415 DVQELLEQYKKFA 427
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 128 bits (323), Expect = 4e-35
Identities = 53/147 (36%), Positives = 87/147 (59%), Gaps = 7/147 (4%)
Query: 24 MGDIEGLIDKVNE-LKLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGF 82
MGD+E L++KV E L ++ E+ +EK+ G+FTL+DMY+Q + + KMGP QI+ M+PG
Sbjct: 289 MGDLESLLEKVEEALDEEEEEKDVEKMMKGKFTLKDMYKQLEAMNKMGPLKQILQMLPGL 348
Query: 83 SQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEK 142
L + + + +LK+ IMDSM + EL+N + RI R+A+G+G T +
Sbjct: 349 GGK-LPDEALEVTEEKLKKYKAIMDSMTEEELENPEIIN-----ASRIRRIARGSGTTVE 402
Query: 143 EVKDLISQYTKFAAVVKKMGGIKGLFK 169
+V++L+ Y +K++ KG
Sbjct: 403 DVRELLKYYKMMKKAMKQLKKGKGKMG 429
>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 127 bits (321), Expect = 9e-35
Identities = 57/174 (32%), Positives = 90/174 (51%), Gaps = 19/174 (10%)
Query: 24 MGDIEGLIDKVNEL-KLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGF 82
MGD+ LI+K E+ ++ E+L EK+K G+FTL D EQ + + KMGP S+++ MIPG
Sbjct: 296 MGDVLSLIEKAEEVVDEEEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGM 355
Query: 83 SQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEK 142
S + +LKR+ I+DSM E +N D + + R R+A+G+G + +
Sbjct: 356 GM-KDSDKDIELDEKKLKRIEAIIDSMTPEERENPD--IINAS---RKRRIARGSGTSVQ 409
Query: 143 EVKDLISQYTKFAAVVKKMGGIKGLFKGGDITKNVNQTQMMKLNQQMAKMMDPR 196
+V L+ Q+ + ++KKM G G K MM+ + M P
Sbjct: 410 DVNKLLKQFKQMKKMMKKMSGGGGKGK------------MMRGMKGMMGGKFPG 451
>gnl|CDD|202493 pfam02978, SRP_SPB, Signal peptide binding domain.
Length = 101
Score = 96.8 bits (242), Expect = 2e-26
Identities = 37/106 (34%), Positives = 61/106 (57%), Gaps = 5/106 (4%)
Query: 53 QFTLRDMYEQFQNIMKMGPFSQIMGMIPGFSQDFLSKGSEQESMARLKRLMTIMDSMNDG 112
+FTLRD EQ Q I KMGP S+++ MIPG + + + + +LKR+ I+DSM
Sbjct: 1 KFTLRDFLEQLQQIKKMGPLSKLLSMIPGMGKLMPKEKNVELDEKKLKRIEAIIDSMTPK 60
Query: 113 ELDNRDGAKLFSKQTGRITRVAQGAGVTEKEVKDLISQYTKFAAVV 158
E DN + + + R R+A+G+G + +EV L+ Q+ + ++
Sbjct: 61 ERDNPE---IINGS--RKRRIAKGSGTSVQEVNKLLKQFKQMKKMM 101
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein;
Provisional.
Length = 433
Score = 102 bits (256), Expect = 1e-25
Identities = 50/147 (34%), Positives = 78/147 (53%), Gaps = 11/147 (7%)
Query: 24 MGDIEGLIDKVNE-LKLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGF 82
MGD+ LI+K E + + E+L +K+K G+F L D EQ Q + KMG ++GM+PG
Sbjct: 297 MGDVLSLIEKAQEVVDEEKAEKLAKKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGM 356
Query: 83 SQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEK 142
K + LKR+ I++SM E R + + R R+A+G+G T +
Sbjct: 357 GN---MKAQLDDKE--LKRIEAIINSMTPKE---RANPDILNGS--RKRRIAKGSGTTVQ 406
Query: 143 EVKDLISQYTKFAAVVKKMGGIKGLFK 169
EV L+ Q+ + ++KKM G G+ K
Sbjct: 407 EVNRLLKQFEQMKKMMKKMKGKGGMKK 433
>gnl|CDD|233210 TIGR00959, ffh, signal recognition particle protein. This model
represents Ffh (Fifty-Four Homolog), the protein
component that forms the bacterial (and organellar)
signal recognition particle together with a 4.5S RNA.
Ffh is a GTPase homologous to eukaryotic SRP54 and also
to the GTPase FtsY (TIGR00064) that is the receptor for
the signal recognition particle [Protein fate, Protein
and peptide secretion and trafficking].
Length = 428
Score = 97.7 bits (244), Expect = 4e-24
Identities = 48/138 (34%), Positives = 74/138 (53%), Gaps = 6/138 (4%)
Query: 24 MGDIEGLIDKVNE-LKLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGF 82
MGDI L++K E + ++ ++L EK+K GQF L D EQ + I KMGP S ++ MIPG
Sbjct: 296 MGDILSLVEKAQEVVDEEEAKKLAEKMKKGQFDLEDFLEQLRQIKKMGPLSSLLKMIPGM 355
Query: 83 SQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEK 142
S + + KR+ I+ SM E R K+ + R R+A G+G T +
Sbjct: 356 GGVKPSLSDLELDEKQFKRIEAIISSMTPEE---RRNPKILNPS--RRKRIAAGSGTTVQ 410
Query: 143 EVKDLISQYTKFAAVVKK 160
+V LI ++ + ++KK
Sbjct: 411 DVNKLIKRFEQMKKMMKK 428
>gnl|CDD|147716 pfam05714, Borrelia_lipo_1, Borrelia burgdorferi virulent strain
associated lipoprotein. This family consists of several
virulent strain associated lipoproteins from the Lyme
disease spirochete Borrelia burgdorferi.
Length = 207
Score = 32.7 bits (75), Expect = 0.073
Identities = 29/110 (26%), Positives = 43/110 (39%), Gaps = 15/110 (13%)
Query: 27 IEGLIDKVNELKLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGFSQDF 86
E K+ LDD + LIE R+ Y + ++ P Q I F + F
Sbjct: 1 EEDHNQKIKNTLLDDLKNLIEIAN----KDREKYVK---KLEEEPSDQY--GILAFKELF 51
Query: 87 LSKGSEQ------ESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRI 130
S G+E S KR T+++++N EL + S QT I
Sbjct: 52 WSAGTETISDNTERSKRYRKRTYTVLNAINTNELKEFSEIIILSSQTQGI 101
>gnl|CDD|240342 PTZ00278, PTZ00278, ARP2/3 complex subunit; Provisional.
Length = 174
Score = 30.1 bits (68), Expect = 0.55
Identities = 34/113 (30%), Positives = 49/113 (43%), Gaps = 17/113 (15%)
Query: 23 CMGDIEGLIDKV----NELKLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGM 78
C+ IE I+ V + K D+ + +I + K F L EQF I++ P
Sbjct: 65 CL--IEPSINSVRISFSFKKSDELDVIIAR-KFVSF-LAQRAEQFV-ILRRKP------- 112
Query: 79 IPGFSQDFLSKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRIT 131
IPG+ FL E+M + K + I+D M D + D D KL RI
Sbjct: 113 IPGYDISFLITNFHTENMFKHKLIDFIIDFMEDIDKDISD-MKLNVNTRARIA 164
>gnl|CDD|180543 PRK06361, PRK06361, hypothetical protein; Provisional.
Length = 212
Score = 29.9 bits (68), Expect = 0.61
Identities = 12/31 (38%), Positives = 22/31 (70%), Gaps = 2/31 (6%)
Query: 132 RVAQGAGVTEKEVKDLISQYTKFAAVVKKMG 162
+VA GAG+TEKE+++ + K ++K++G
Sbjct: 184 KVALGAGLTEKELEEALENNPKL--LLKRLG 212
>gnl|CDD|218762 pfam05816, TelA, Toxic anion resistance protein (TelA). This
family consists of several prokaryotic TelA like
proteins. TelA and KlA are associated with tellurite
resistance and plasmid fertility inhibition.
Length = 333
Score = 29.5 bits (67), Expect = 1.0
Identities = 16/103 (15%), Positives = 33/103 (32%), Gaps = 15/103 (14%)
Query: 61 EQFQNIMKMGPFSQIMGMIPGFSQDFLSKGSEQESM---ARLKRLMTIMDSMNDGELDNR 117
Q+I+ G ++ I FS L + ++ L L I+ ++ EL
Sbjct: 12 TDQQSILSFG--AEAQREIAQFSDRMLEQVKAKDVGEVGKLLTELRKIVKELDPSELSEE 69
Query: 118 DGAKLFSKQTGRITRVAQGAGVTEKEVKDLISQYTKFAAVVKK 160
K G+ + ++ ++Y + K
Sbjct: 70 KKRGFLGKLFGK----------AKNSIERYFAKYQSVGGQIDK 102
>gnl|CDD|217177 pfam02673, BacA, Bacitracin resistance protein BacA. Bacitracin
resistance protein (BacA) is a putative undecaprenol
kinase. BacA confers resistance to bacitracin, probably
by phosphorylation of undecaprenol.
Length = 255
Score = 28.9 bits (66), Expect = 1.4
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 45 LIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGFS 83
L E++ + TL D+ ++ + +G +Q + +IPG S
Sbjct: 125 LAERLGKKRRTLDDI--SLKDALLIG-LAQALALIPGVS 160
>gnl|CDD|184447 PRK14003, PRK14003, potassium-transporting ATPase subunit C;
Provisional.
Length = 194
Score = 28.5 bits (64), Expect = 2.0
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 129 RITRVAQGAGVTEKEVKDLISQYT 152
+I RVA+ G+ +++ LI++ T
Sbjct: 144 QIERVAKARGLPPDQLEILITKNT 167
>gnl|CDD|232914 TIGR00310, ZPR1_znf, ZPR1 zinc finger domain. An orthologous
protein found once in each of the completed archaeal
genomes corresponds to a zinc finger-containing domain
repeated as the N-terminal and C-terminal halves of the
mouse protein ZPR1. ZPR1 is an experimentally proven
zinc-binding protein that binds the tyrosine kinase
domain of the epidermal growth factor receptor (EGFR);
binding is inhibited by EGF stimulation and tyrosine
phosphorylation, and activation by EGF is followed by
some redistribution of ZPR1 to the nucleus. By analogy,
other proteins with the ZPR1 zinc finger domain may be
regulatory proteins that sense protein phosphorylation
state and/or participate in signal transduction.
Length = 192
Score = 28.2 bits (63), Expect = 2.0
Identities = 19/103 (18%), Positives = 42/103 (40%), Gaps = 22/103 (21%)
Query: 26 DIEGLIDKVNE-------LKLDDNE------ELIEKIKHGQFTLRDMYEQFQNIMKMGPF 72
++EG++ +V E + +D E E++E++K + E+F I++ P
Sbjct: 97 NLEGVLRRVEEELETAIRWQSEDEETKKRAEEILERLKE----AIEGKEKFTVILE-DPL 151
Query: 73 SQIMGMIPGFSQDFLSKGSEQESMARLKRLMTIMDSMNDGELD 115
++ LS+ E + LK I + + + +
Sbjct: 152 GGSYIQNVYAPKEILSE----EEIEDLKTGKEINEDLGLSDEE 190
>gnl|CDD|139237 PRK12802, PRK12802, flagellin; Provisional.
Length = 282
Score = 28.7 bits (64), Expect = 2.2
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 88 SKGSEQESMARLKRLMTIMDSMNDGELDNRDGAKL---FSKQTGRITRVAQGAGVTEKEV 144
++G+ QES L+R+ + + D+ D A L F+ ITR+A + K +
Sbjct: 78 AEGALQESTNILQRMRELAVQSRNDSNDSTDRAALNKEFTTMLDEITRIATSTTLNGKNL 137
Query: 145 KD 146
D
Sbjct: 138 LD 139
>gnl|CDD|163664 cd07421, MPP_Rhilphs, Rhilph phosphatases, metallophosphatase
domain. Rhilphs (Rhizobiales/ Rhodobacterales/
Rhodospirillaceae-like phosphatases) are a
phylogenetically distinct group of PPP (phosphoprotein
phosphatases), found only in land plants. They are
named for their close relationship to to PPP
phosphatases from alpha-Proteobacteria, including
Rhizobiales, Rhodobacterales and Rhodospirillaceae.
The PPP (phosphoprotein phosphatase) family, to which
the Rhilphs belong, is one of two known protein
phosphatase families specific for serine and threonine.
The PPP family also includes: PP1, PP2A, PP2B
(calcineurin), PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE,
PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain
is defined by three conserved motifs (-GDXHG-,
-GDXVDRG- and -GNHE-). The PPP enzyme family is
ancient with members found in all eukaryotes, and in
most bacterial and archeal genomes. Dephosphorylation
of phosphoserines and phosphothreonines on target
proteins plays a central role in the regulation of many
cellular processes. PPPs belong 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 = 304
Score = 28.6 bits (64), Expect = 2.5
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 21 ICCMGDIEGLIDKVNEL 37
+ C+GDI G I K+N L
Sbjct: 4 VICVGDIHGYISKLNNL 20
>gnl|CDD|151284 pfam10835, DUF2573, Protein of unknown function (DUF2573). Some
members in this bacterial family of proteins are
annotated as YusU however no function is currently
known. This family of proteins appears to be restricted
to Bacillus spp.
Length = 82
Score = 26.7 bits (59), Expect = 2.9
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 1/25 (4%)
Query: 27 IEGLIDKVNELKL-DDNEELIEKIK 50
++GL++K EL L + NEEL EK+K
Sbjct: 8 LDGLLEKYTELLLGETNEELKEKVK 32
>gnl|CDD|225067 COG2156, KdpC, K+-transporting ATPase, c chain [Inorganic ion
transport and metabolism].
Length = 190
Score = 28.0 bits (63), Expect = 2.9
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 130 ITRVAQGAGVTEKEVKDLISQYTK 153
+ RVA+ G++E++VK LI ++T+
Sbjct: 143 VPRVAKARGISEEQVKQLIDEHTQ 166
>gnl|CDD|236408 PRK09200, PRK09200, preprotein translocase subunit SecA; Reviewed.
Length = 790
Score = 28.0 bits (63), Expect = 4.0
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 80 PGFSQDFLS------KGSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRV 133
PG SQ F+S K E + +LK+ + G L NR K+ K R+
Sbjct: 531 PGSSQFFISLEDDLLKRFAPEELEKLKKKLKTDAQRLTGLLFNRKVHKIVVK----AQRI 586
Query: 134 AQGAGVTEKE 143
++GAG + +E
Sbjct: 587 SEGAGYSARE 596
>gnl|CDD|200459 cd11320, AmyAc_AmyMalt_CGTase_like, Alpha amylase catalytic
domain found in maltogenic amylases, cyclodextrin
glycosyltransferase, and related proteins. Enzymes
such as amylases, cyclomaltodextrinase (CDase), and
cyclodextrin glycosyltransferase (CGTase) degrade
starch to smaller oligosaccharides by hydrolyzing the
alpha-D-(1,4) linkages between glucose residues. In the
case of CGTases, an additional cyclization reaction is
catalyzed yielding mixtures of cyclic oligosaccharides
which are referred to as alpha-, beta-, or
gamma-cyclodextrins (CDs), consisting of six, seven, or
eight glucose residues, respectively. CGTases are
characterized depending on the major product of the
cyclization reaction. Besides having similar catalytic
site residues, amylases and CGTases contain
carbohydrate binding domains that are distant from the
active site and are implicated in attaching the enzyme
to raw starch granules and in guiding the amylose chain
into the active site. The maltogenic alpha-amylase from
Bacillus is a five-domain structure, unlike most
alpha-amylases, but similar to that of cyclodextrin
glycosyltransferase. In addition to the A, B, and C
domains, they have a domain D and a starch-binding
domain E. Maltogenic amylase is an endo-acting amylase
that has activity on cyclodextrins, terminally modified
linear maltodextrins, and amylose. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 389
Score = 27.6 bits (62), Expect = 4.4
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 14 NFPLYCGICCMGDIEGLIDKVNELK 38
N Y G GD +G+IDK+ LK
Sbjct: 37 NLKKYWG----GDWQGIIDKLPYLK 57
>gnl|CDD|234712 PRK00281, PRK00281, undecaprenyl pyrophosphate phosphatase;
Reviewed.
Length = 268
Score = 27.4 bits (62), Expect = 4.8
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 14/45 (31%)
Query: 45 LIEKIKHG------QFTLRDMYEQFQNIMKMGPFSQIMGMIPGFS 83
EK K T +D + +G +Q + +IPG S
Sbjct: 131 WAEKRKGPRVRSLDDLTYKDA-------LLIG-LAQCLALIPGTS 167
>gnl|CDD|222080 pfam13369, Transglut_core2, Transglutaminase-like superfamily.
Length = 154
Score = 26.9 bits (60), Expect = 6.1
Identities = 18/66 (27%), Positives = 23/66 (34%), Gaps = 11/66 (16%)
Query: 6 YLMLCHYLNFPLY---------CGICCMGDIEGLIDKVNELKLDDNEELIEKIK--HGQF 54
YL L L PL + C + E ID N ++ EL E +K G
Sbjct: 74 YLELARRLGLPLEGVNFPGHFLLRVECPDEGEVFIDPFNGGEVLSEHELEEWLKGELGPS 133
Query: 55 TLRDMY 60
L Y
Sbjct: 134 ELTPEY 139
>gnl|CDD|147936 pfam06044, DRP, Dam-replacing family. Dam-replacing protein (DRP)
is an restriction endonuclease that is flanked by
pseudo-transposable small repeat elements. The
replacement of Dam-methylase by DRP allows phase
variation through slippage-like mechanisms in several
pathogenic isolates of Neisseria meningitidis.
Length = 254
Score = 27.0 bits (60), Expect = 6.3
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 46 IEKIKHGQFTLRDMYEQFQNIMK 68
I+KI+ +FTL MY F+N +K
Sbjct: 196 IDKIETEEFTLNQMY-AFENELK 217
>gnl|CDD|215069 PLN00134, PLN00134, fumarate hydratase; Provisional.
Length = 458
Score = 27.3 bits (61), Expect = 6.3
Identities = 14/73 (19%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 42 NEELIEKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIP-GFSQDFLSKGSEQE-SMARL 99
+ LI +K +LR +F++I+K+G + + +P Q+F ++ + + R+
Sbjct: 149 HSRLIPALKELHESLRAKSFEFKDIVKIGR-THLQDAVPLTLGQEFSGYATQVKYGLNRV 207
Query: 100 KRLMTIMDSMNDG 112
+ + + + G
Sbjct: 208 QCTLPRLYELAQG 220
>gnl|CDD|235779 PRK06327, PRK06327, dihydrolipoamide dehydrogenase; Validated.
Length = 475
Score = 27.2 bits (61), Expect = 7.4
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 143 EVKDLISQYTKFAA----VVKKM-GGIKGLFKGGDIT 174
V + K A VVKKM GGI+GLFK IT
Sbjct: 80 HVDGVKIDVAKMIARKDKVVKKMTGGIEGLFKKNKIT 116
>gnl|CDD|145868 pfam02938, GAD, GAD domain. This domain is found in some members
of the GatB and aspartyl tRNA synthetases.
Length = 94
Score = 25.7 bits (57), Expect = 8.3
Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 125 KQTGRIT--RVAQGAGVTEKEVKDLISQYTKFAAVVKKMGGIKGLFKGGDITKNVNQTQM 182
K+ G + V GAG++ K++ +L +F A ++G G I K + + ++
Sbjct: 6 KKGGSVKALCVPGGAGLSRKQIDELERFAKEFGAKGLAWIKVEGGGHTGPIAKFLTEEEV 65
Query: 183 MKL 185
+L
Sbjct: 66 EEL 68
>gnl|CDD|216545 pfam01515, PTA_PTB, Phosphate acetyl/butaryl transferase. This
family contains both phosphate acetyltransferase and
phosphate butaryltransferase. These enzymes catalyze the
transfer of an acetyl or butaryl group to
orthophosphate.
Length = 319
Score = 26.9 bits (60), Expect = 8.3
Identities = 18/81 (22%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 90 GSEQESMARLKRLMTIMDSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVTEKEVKDLIS 149
G+E E A+ L +D E+ + + + + + + G+T + ++++
Sbjct: 46 GNEIEIKAKALGLGLDLD---GIEIVDPETSPRDEEYADEYYELRKHKGMTPEIAREIVR 102
Query: 150 QYTKFAAVVKKMGGIKGLFKG 170
T FAA++ K+G GL G
Sbjct: 103 DPTYFAAMLVKLGEADGLVSG 123
>gnl|CDD|219154 pfam06738, DUF1212, Protein of unknown function (DUF1212). This
family represents a conserved region within a number of
hypothetical membrane proteins of unknown function
found in eukaryotes, bacteria and archaea.
Length = 193
Score = 26.3 bits (59), Expect = 8.5
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 38 KLDDNEELIEKIKHGQFTLRDMYEQFQNIMKMGP 71
KL + EL +++ G+ +L + +E+ I + P
Sbjct: 66 KLSEVNELSREVEAGEISLEEAHERLDEIDRAPP 99
>gnl|CDD|179300 PRK01528, truB, tRNA pseudouridine synthase B; Provisional.
Length = 292
Score = 26.5 bits (58), Expect = 9.8
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 27 IEGLIDKVNELKLDDNEELIEKIKHGQFTLRDMYEQFQNIM 67
IE ++D + L LD +E +KIK+GQ L D YE+ N +
Sbjct: 227 IEAILDDI--LVLDATDEQAQKIKYGQKCLFD-YEKDVNFL 264
>gnl|CDD|131211 TIGR02156, PA_CoA_Oxy1, phenylacetate-CoA oxygenase, PaaG subunit.
Phenylacetate-CoA oxygenase is comprised of a five gene
complex responsible for the hydroxylation of
phenylacetate-CoA (PA-CoA) as the second catabolic step
in phenylacetic acid (PA) degradation. Although the
exact function of this enzyme has not been determined,
it has been shown to be required for phenylacetic acid
degradation and has been proposed to function in a
multicomponent oxygenase acting on phenylacetate-CoA
[Energy metabolism, Other].
Length = 289
Score = 26.7 bits (59), Expect = 9.9
Identities = 30/153 (19%), Positives = 55/153 (35%), Gaps = 44/153 (28%)
Query: 47 EKIKHGQFTLRDMYEQFQNIMKMGPFSQIMGMIPGFSQDFLSKGSEQESMAR---LKRLM 103
EKI+ + + + S+I+GM+P E + R LKR +
Sbjct: 9 EKIEAKDWMPAAYRKTLIRQISQHAHSEIVGMLP-----------EGNWITRAPTLKRKL 57
Query: 104 TIM----DSMNDGELDNRDGAKLFSKQTGRITRVAQGAGVT-EKEVKDLISQYTKFAAVV 158
+M D G + A+ GV+ E+ + L++ K++++
Sbjct: 58 ILMAKVQDEAGHGLY---------------LYAAAETLGVSREELLDALLTGKAKYSSIF 102
Query: 159 K-------KMGGIKGLFKGGDITKNVNQTQMMK 184
+G I L G I +NQT + +
Sbjct: 103 NYPTLTWADIGVIGWLVDGAAI---MNQTPLCR 132
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 0.138 0.395
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,153,329
Number of extensions: 943955
Number of successful extensions: 1306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1288
Number of HSP's successfully gapped: 41
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
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: 57 (25.7 bits)