RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16399
(165 letters)
>gnl|CDD|238951 cd01993, Alpha_ANH_like_II, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily.Adeninosine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins is predicted to bind ATP.
This domainhas a strongly conserved motif SGGKD at the
N terminus.
Length = 185
Score = 62.6 bits (153), Expect = 8e-13
Identities = 22/38 (57%), Positives = 27/38 (71%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
RI +A SGGKDS VL HVLK L +Y YG +L L++D
Sbjct: 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVD 38
Score = 61.9 bits (151), Expect = 2e-12
Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 4 LSPP-PSFTTGADSIPRCKPLKYAYEKEIVMYAYYKKLVYFSTECIFAPNA 53
L P P + R +PL Y EKEIV+YA L + EC +A NA
Sbjct: 135 LMRPGPILYLDEGDVTRIRPLVYVREKEIVLYAELNGLPFVEEECPYAGNA 185
>gnl|CDD|129370 TIGR00269, TIGR00269, TIGR00269 family protein. [Hypothetical
proteins, Conserved].
Length = 104
Score = 51.3 bits (123), Expect = 3e-09
Identities = 24/68 (35%), Positives = 36/68 (52%)
Query: 17 IPRCKPLKYAYEKEIVMYAYYKKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDI 76
+PR KPL+Y EKE+V+YA+ +L EC ++ + R R FL LE +P +
Sbjct: 1 VPRIKPLRYIPEKEVVLYAFLNELKVHLDECPYSSLSVRARIRDFLYDLENKKPGVKFSV 60
Query: 77 IHSESKYI 84
+ K I
Sbjct: 61 LRGFEKLI 68
>gnl|CDD|223115 COG0037, MesJ, tRNA(Ile)-lysidine synthase MesJ [Cell cycle
control, cell division, chromosome partitioning].
Length = 298
Score = 52.2 bits (125), Expect = 1e-08
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 104 CFFHAFELEIHHTIVTNKLFEKHHRIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLS 163
C E ++ I L E +I +A SGGKDS L H+LK L + ++ +
Sbjct: 1 CLREKLERKVKRAIREFNLIEY--KILVAVSGGKDSLALLHLLKELGRRI----EVEAVH 54
Query: 164 ID 165
+D
Sbjct: 55 VD 56
Score = 47.9 bits (114), Expect = 4e-07
Identities = 20/56 (35%), Positives = 25/56 (44%)
Query: 15 DSIPRCKPLKYAYEKEIVMYAYYKKLVYFSTECIFAPNAYRGHARTFLKHLEKIRP 70
+ +PL Y EKEI +YA K L Y E + R R L LE+ RP
Sbjct: 161 GGLLIIRPLLYVREKEIELYAKEKGLPYIEDESNYDLRYTRNRIREELLPLEEERP 216
>gnl|CDD|238950 cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the
PP-loop faimly implicated in cell cycle control [Cell
division and chromosome partitioning]. This is a
subfamily of Adenine nucleotide alpha hydrolases
superfamily.Adeninosine nucleotide alpha hydrolases
superfamily includes N type ATP PPases and ATP
sulphurylases. It forms a apha/beta/apha fold which
binds to Adenosine group. This domain has a strongly
conserved motif SGGXD at the N terminus.
Length = 185
Score = 39.9 bits (94), Expect = 1e-04
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLV 160
+I +A SGG DS L H+L L + L V
Sbjct: 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAV 33
>gnl|CDD|233864 TIGR02432, lysidine_TilS_N, tRNA(Ile)-lysidine synthetase,
N-terminal domain. The only examples in which the
wobble position of a tRNA must discriminate between G
and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop)
vs. UGG (Trp). In all bacteria, the wobble position of
the tRNA(Ile) recognizing AUA is lysidine, a lysine
derivative of cytidine. This family describes a protein
domain found, apparently, in all bacteria in a single
copy. Eukaryotic sequences appear to be organellar. The
domain archictecture of this protein family is variable;
some, including characterized proteins of E. coli and B.
subtilis known to be tRNA(Ile)-lysidine synthetase,
include a conserved 50-residue domain that many other
members lack. This protein belongs to the ATP-binding
PP-loop family ( pfam01171). It appears in the
literature and protein databases as TilS, YacA, and
putative cell cycle protein MesJ (a misnomer) [Protein
synthesis, tRNA and rRNA base modification].
Length = 189
Score = 39.1 bits (92), Expect = 3e-04
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
RI +A SGG DS L H+L + + + L+ +D
Sbjct: 1 RILVAVSGGVDSMALLHLLL--KLQPKLKIRLIAAHVD 36
>gnl|CDD|216343 pfam01171, ATP_bind_3, PP-loop family. This family of proteins
belongs to the PP-loop superfamily.
Length = 182
Score = 37.2 bits (87), Expect = 0.001
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
+I +A SGG DS L ++LK L ++G+DL +D
Sbjct: 1 KILVAVSGGPDSMALLYLLKKLKP--KFGIDLTAAHVD 36
>gnl|CDD|238944 cd01986, Alpha_ANH_like, Adenine nucleotide alpha hydrolases
superfamily including N type ATP PPases and ATP
sulphurylases. The domain forms a apha/beta/apha fold
which binds to Adenosine group..
Length = 103
Score = 34.8 bits (80), Expect = 0.004
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 6/37 (16%)
Query: 129 IAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
+ +A SGGKDS+V A +LK + G ++ +++D
Sbjct: 1 VLVAFSGGKDSSVAAALLK------KLGYQVIAVTVD 31
>gnl|CDD|238942 cd01984, AANH_like, Adenine nucleotide alpha hydrolases superfamily
including N type ATP PPases, ATP sulphurylases
Universal Stress Response protein and electron transfer
flavoprotein (ETF). The domain forms a apha/beta/apha
fold which binds to Adenosine nucleotide.
Length = 86
Score = 33.6 bits (77), Expect = 0.008
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 129 IAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
I +A SGG DS+VL H+ K G ++V L +
Sbjct: 1 ILVALSGGLDSSVLLHLAK---RLKSGGPEVVALVVV 34
>gnl|CDD|238846 cd01713, PAPS_reductase, This domain is found in phosphoadenosine
phosphosulphate (PAPS) reductase enzymes or PAPS
sulphotransferase. PAPS reductase is part of the adenine
nucleotide alpha hydrolases superfamily also including N
type ATP PPases and ATP sulphurylases. A highly modified
version of the P loop, the fingerprint peptide of
mononucleotide-binding proteins, is present in the
active site of the protein, which appears to be a
positively charged cleft containing a number of
conserved arginine and lysine residues. Although PAPS
reductase has no ATPase activity, it shows a striking
similarity to the structure of the ATP pyrophosphatase
(ATP PPase) domain of GMP synthetase, indicating that
both enzyme families have evolved from a common
ancestral nucleotide-binding fold. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP) . It is also
found in NodP nodulation protein P from Rhizobium
meliloti which has ATP sulphurylase activity (sulphate
adenylate transferase) .
Length = 173
Score = 33.9 bits (78), Expect = 0.016
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 128 RIAIAASGGKDSTVLAHVL 146
+ ++ SGGKDSTVL H+
Sbjct: 1 NVVVSFSGGKDSTVLLHLA 19
>gnl|CDD|238954 cd01996, Alpha_ANH_like_III, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily.Adeninosine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins is predicted to bind ATP.
This domain has a strongly conserved motif SGGKD at the
N terminus.
Length = 154
Score = 33.8 bits (78), Expect = 0.017
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 131 IAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
I SGGKDS+ ++LK YGL+ + +++D
Sbjct: 6 IGVSGGKDSSYALYLLKEK-----YGLNPLAVTVD 35
>gnl|CDD|224522 COG1606, COG1606, ATP-utilizing enzymes of the PP-loop superfamily
[General function prediction only].
Length = 269
Score = 33.5 bits (77), Expect = 0.031
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 120 NKLFEKHHRIAIAASGGKDSTVLAHVLK 147
K ++ ++ +A SGG DS++LA + K
Sbjct: 11 KKAIKEKKKVVVAFSGGVDSSLLAKLAK 38
>gnl|CDD|234267 TIGR03573, WbuX, N-acetyl sugar amidotransferase. This enzyme has
been implicated in the formation of the acetamido moiety
(sugar-NC(=NH)CH3) which is found on some
exopolysaccharides and is positively charged at neutral
pH. The reaction involves ligation of ammonia with a
sugar N-acetyl group, displacing water. In E. coli (O145
strain) and Pseudomonas aeruginosa (O12 strain) this
gene is known as wbuX and ifnA respectively and likely
acts on sialic acid. In Campylobacter jejuni, the gene
is known as pseA and acts on pseudaminic acid in the
process of flagellin glycosylation. In other Pseudomonas
strains and various organisms it is unclear what the
identity of the sugar substrate is, and in fact, the
phylogenetic tree of this family sports a considerably
deep branching suggestive of possible major differences
in substrate structure. Nevertheless, the family is
characterized by a conserved tetracysteine motif
(CxxC.....[GN]xCxxC) possibly indicative of a metal
binding site, as well as an invariable contextual
association with homologs of the HisH and HisF proteins
known as WbuY and WbuZ, respectively. These two proteins
are believed to supply the enzyme with ammonium by
hydrolysis of glutamine and delivery through an ammonium
conduit.
Length = 343
Score = 32.7 bits (75), Expect = 0.074
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 124 EKHHRIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
+ I SGGKDST AHVL K + GL+ +L+++D
Sbjct: 57 GGRYDCIIGVSGGKDSTYQAHVL-----KKKLGLNPLLVTVD 93
>gnl|CDD|182626 PRK10660, tilS, tRNA(Ile)-lysidine synthetase; Provisional.
Length = 436
Score = 31.9 bits (73), Expect = 0.11
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 126 HHRIAIAASGGKDSTVLAHVL 146
+I +A SGG DSTVL H+L
Sbjct: 15 SRQILVAFSGGLDSTVLLHLL 35
>gnl|CDD|173669 cd05578, STKc_Yank1, Catalytic domain of the Protein
Serine/Threonine Kinase, Yank1. Serine/Threonine
Kinases (STKs), Yank1 or STK32A subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Yank1 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. This subfamily
contains uncharacterized STKs with similarity to the
human protein designated Yank1 or STK32A.
Length = 258
Score = 31.9 bits (73), Expect = 0.12
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 14/75 (18%)
Query: 30 EIVMYAYYKKLV-YFST-----ECIFAPNAYRGHART--------FLKHLEKIRPASIMD 75
E++ Y V ++S EC+ YRGH+RT +
Sbjct: 169 EVLCRQGYSVAVDWWSLGVTAYECLRGKRPYRGHSRTIRDQIRAKQETADVLYPATWSTE 228
Query: 76 IIHSESKYIEKNPAN 90
I + +K +E++P
Sbjct: 229 AIDAINKLLERDPQK 243
>gnl|CDD|236737 PRK10696, PRK10696, tRNA 2-thiocytidine biosynthesis protein TtcA;
Provisional.
Length = 258
Score = 31.4 bits (72), Expect = 0.17
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 121 KLFEKHHRIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
+ E+ R+ + SGGKDS L +L L ++ +LV +++D
Sbjct: 24 NMIEEGDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLD 68
>gnl|CDD|223253 COG0175, CysH, 3'-phosphoadenosine 5'-phosphosulfate
sulfotransferase (PAPS reductase)/FAD synthetase and
related enzymes [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 261
Score = 30.5 bits (69), Expect = 0.33
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 126 HHRIAIAASGGKDSTVLAH-VLKVL 149
+ + ++ SGGKDSTVL H K
Sbjct: 39 SNPVVVSFSGGKDSTVLLHLAAKAF 63
>gnl|CDD|238948 cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily. Adenine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins probably binds ATP. This
domain is about 200 amino acids long with a strongly
conserved motif SGGKD at the N terminus.
Length = 202
Score = 30.3 bits (69), Expect = 0.35
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 129 IAIAASGGKDSTVLAHV 145
+A+A SGG DST+L
Sbjct: 1 VAVAFSGGVDSTLLLKA 17
>gnl|CDD|226478 COG3969, COG3969, Predicted phosphoadenosine phosphosulfate
sulfotransferase [General function prediction only].
Length = 407
Score = 30.1 bits (68), Expect = 0.48
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 122 LFEKHHRIAIAASGGKDSTVLAHVLKVLNEKY 153
+F R+ ++ SGGKDS ++ H++ + +
Sbjct: 23 IFNTFPRVCVSFSGGKDSGLMLHLVAEVAREN 54
>gnl|CDD|129369 TIGR00268, TIGR00268, TIGR00268 family protein. The N-terminal
region of the model shows similarity to
Argininosuccinate synthase proteins using PSI-blast and
using the recognize protein identification server
[Hypothetical proteins, Conserved].
Length = 252
Score = 29.0 bits (65), Expect = 1.1
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 120 NKLFEKHHRIAIAASGGKDSTVLAHVLK 147
++ ++ IA SGG DS++LA V
Sbjct: 6 RNFLKEFKKVLIAYSGGVDSSLLAAVCS 33
>gnl|CDD|238956 cd01998, tRNA_Me_trans, tRNA methyl transferase. This family
represents
tRNA(5-methylaminomethyl-2-thiouridine)-
methyltransferase which is involved in the biosynthesis
of the modified nucleoside
5-methylaminomethyl-2-thiouridine present in the wobble
position of some tRNAs. This family of enzyme only
presents in bacteria and eukaryote. The archaeal
counterpart of this enzyme performs same function, but
is completely unrelated in sequence.
Length = 349
Score = 29.0 bits (66), Expect = 1.2
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 128 RIAIAASGGKDSTVLAHVLK 147
++ +A SGG DS+V A +LK
Sbjct: 1 KVVVAMSGGVDSSVAAALLK 20
>gnl|CDD|234664 PRK00143, mnmA, tRNA-specific 2-thiouridylase MnmA; Reviewed.
Length = 346
Score = 28.5 bits (65), Expect = 1.6
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 127 HRIAIAASGGKDSTVLAHVLK 147
R+ + SGG DS+V A +LK
Sbjct: 1 KRVVVGMSGGVDSSVAAALLK 21
>gnl|CDD|201832 pfam01507, PAPS_reduct, Phosphoadenosine phosphosulfate reductase
family. This domain is found in phosphoadenosine
phosphosulfate (PAPS) reductase enzymes or PAPS
sulfotransferase. PAPS reductase is part of the adenine
nucleotide alpha hydrolases superfamily also including N
type ATP PPases and ATP sulphurylases. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP). It is also
found in NodP nodulation protein P from Rhizobium which
has ATP sulfurylase activity (sulfate adenylate
transferase).
Length = 173
Score = 27.6 bits (62), Expect = 2.1
Identities = 10/25 (40%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 128 RIAIAASGGKDSTVLAH-VLKVLNE 151
+ ++ SGGKDS VL H K
Sbjct: 1 ELVVSFSGGKDSLVLLHLASKAFPP 25
>gnl|CDD|235375 PRK05253, PRK05253, sulfate adenylyltransferase subunit 2;
Provisional.
Length = 301
Score = 27.8 bits (63), Expect = 2.6
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 128 RIAIAASGGKDSTVLAH 144
+ S GKDS+V+ H
Sbjct: 29 NPVMLYSIGKDSSVMLH 45
>gnl|CDD|237509 PRK13794, PRK13794, hypothetical protein; Provisional.
Length = 479
Score = 27.7 bits (62), Expect = 2.8
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 6/42 (14%)
Query: 113 IHHTIVTNKLFEKHHRIAIAASGGKDS-TVLAHVLKVLNEKY 153
I +T + +A SGGKDS L LK L +
Sbjct: 239 IRNTAEKINK-----PVTVAYSGGKDSLATLLLALKALGINF 275
>gnl|CDD|223676 COG0603, COG0603, Predicted PP-loop superfamily ATPase [General
function prediction only].
Length = 222
Score = 27.2 bits (61), Expect = 3.5
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 6/41 (14%)
Query: 125 KHHRIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
+ + SGG DST K E Y ++ L+ D
Sbjct: 1 MMKKAVVLLSGGLDSTTCLAWAK--KEGY----EVHALTFD 35
>gnl|CDD|223558 COG0482, TrmU, Predicted tRNA(5-methylaminomethyl-2-thiouridylate)
methyltransferase, contains the PP-loop ATPase domain
[Translation, ribosomal structure and biogenesis].
Length = 356
Score = 27.6 bits (62), Expect = 3.7
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 128 RIAIAASGGKDSTVLAHVLK 147
++ + SGG DS+V A++LK
Sbjct: 5 KVLVGMSGGVDSSVAAYLLK 24
>gnl|CDD|217339 pfam03054, tRNA_Me_trans, tRNA methyl transferase. This family
represents
tRNA(5-methylaminomethyl-2-thiouridine)-
methyltransferase which is involved in the biosynthesis
of the modified nucleoside
5-methylaminomethyl-2-thiouridine present in the wobble
position of some tRNAs.
Length = 355
Score = 27.2 bits (61), Expect = 3.8
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 128 RIAIAASGGKDSTVLAHVLK 147
++ +A SGG DS+V A++LK
Sbjct: 2 KVVVAMSGGVDSSVAAYLLK 21
>gnl|CDD|237521 PRK13820, PRK13820, argininosuccinate synthase; Provisional.
Length = 394
Score = 27.2 bits (61), Expect = 3.9
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 3/28 (10%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQY 155
++ +A SGG D++V + +L EKY Y
Sbjct: 4 KVVLAYSGGLDTSV---CVPLLKEKYGY 28
>gnl|CDD|132565 TIGR03526, selenium_YgeY, putative selenium metabolism hydrolase.
SelD, selenophosphate synthase, is the selenium donor
protein for both selenocysteine and selenouridine
biosynthesis systems, but it occurs also in a few
prokaryotes that have neither of those pathways. The
method of partial phylogenetic profiling , starting from
such orphan-selD genomes, identifies this protein as one
of those most strongly correlated to SelD occurrence.
Its distribution is also well correlated with that of
family TIGR03309, a putative accessory protein of labile
selenium (non-selenocysteine) enzyme maturation. This
family includes the uncharacterized YgeY of Escherichia
coli, and belongs to a larger family of metalloenzymes
in which some are known peptidases, others enzymes of
different types.
Length = 395
Score = 27.5 bits (61), Expect = 4.2
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 90 NFNRPK-TGDTLCKECFFHAFELEIHHTIVTNKLFEKHHRI 129
++RP TG EC+F + L H ++T E + R+
Sbjct: 290 EYDRPSYTGLVYPTECYFPTWVLPEDH-LITKAALETYKRL 329
>gnl|CDD|235018 PRK02256, PRK02256, putative aminopeptidase 1; Provisional.
Length = 462
Score = 27.1 bits (61), Expect = 4.3
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 131 IAASGGKDSTVLAHVLKVLNEKY 153
I + V ++LK+LNEKY
Sbjct: 202 IPLEDEEKEKVKLNILKLLNEKY 224
>gnl|CDD|232874 TIGR00207, fliG, flagellar motor switch protein FliG. The fliG
protein along with fliM and fliN interact to form the
switch complex of the bacterial flagellar motor located
at the base of the basal body. This complex interacts
with chemotaxis proteins (eg CHEY). In addition the
complex interacts with other components of the motor
that determine the direction of flagellar rotation. The
model contains putative members of the fliG family at
scores of less than 100 from Agrobacterium radiobacter
and Sinorhizobium meliloti as well as fliG-like genes
from treponema pallidum and Borrelia burgdorferi. That
is why the suggested cutoff is set at 20 but was set at
100 to construct the family [Cellular processes,
Chemotaxis and motility].
Length = 338
Score = 27.1 bits (60), Expect = 4.5
Identities = 21/89 (23%), Positives = 30/89 (33%), Gaps = 17/89 (19%)
Query: 65 LEKIRPASIMDIIHSE-SKYIEKNPANFNRPKTGDTLCKECFFHAFELEIHHTIVTNKLF 123
L K P I D I E + I ++ + + D L F E+ +
Sbjct: 115 LRKAEPQQIADFIQQEHPQTIALILSHLDPAQAADILS------LFPEEVQAEVA----- 163
Query: 124 EKHHRIAIAASGGKDSTVLAHVLKVLNEK 152
IA G V+A V +VL K
Sbjct: 164 -----RRIATMGRTSPEVVAEVERVLEGK 187
>gnl|CDD|224284 COG1365, COG1365, Predicted ATPase (PP-loop superfamily) [General
function prediction only].
Length = 255
Score = 26.7 bits (59), Expect = 6.0
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 128 RIAIAASGGKDSTVLAHVLK 147
+IA+A SGG DS+ A +L+
Sbjct: 62 KIAVAYSGGVDSSASAIILR 81
>gnl|CDD|223444 COG0367, AsnB, Asparagine synthase (glutamine-hydrolyzing) [Amino
acid transport and metabolism].
Length = 542
Score = 26.6 bits (59), Expect = 6.9
Identities = 21/129 (16%), Positives = 50/129 (38%), Gaps = 23/129 (17%)
Query: 21 KPLKYAYEKEIVMYAYYKKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDIIHSE 80
KPL Y + E + +A K + + FL+ ++++ P +++ ++
Sbjct: 144 KPLYYTSKNENLAFASEIK-ALLAHPVV-----------RFLRDIKELPPGHLLEF--TD 189
Query: 81 SKYIEK--NPANFNRPKTGDTLCKECFFHAFELEIHHTIVTNKLFEKHHRIAIAASGGKD 138
I + + ++ D L + E + +V + + + SGG D
Sbjct: 190 GGLIRRYWRLSEKTSKESADELAEH-LRSLLEDAVKRRLVAD------VPVGVFLSGGLD 242
Query: 139 STVLAHVLK 147
S+++A +
Sbjct: 243 SSLIAAIAA 251
>gnl|CDD|185635 PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.
Length = 622
Score = 26.4 bits (58), Expect = 8.1
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 18 PRCKPLKYAYEKEIVMYAYYKKLVY 42
PR + +++ E+ MY +Y+KL
Sbjct: 28 PRIRDVQFLVEEVFNMYDHYEKLGK 52
>gnl|CDD|178693 PLN03148, PLN03148, Blue copper-like protein; Provisional.
Length = 167
Score = 26.0 bits (57), Expect = 8.1
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 2 HPLSPPPSFTTGADSIP 18
HPL PPPS T A+
Sbjct: 118 HPLPPPPSHTAAANGAK 134
>gnl|CDD|238955 cd01997, GMP_synthase_C, The C-terminal domain of GMP synthetase.
It contains two subdomains; the ATP pyrophosphatase
domain which closes to the N-termial and the
dimerization domain at C-terminal end. The ATP-PPase is
a twisted, five-stranded parallel beta-sheet sandwiched
between helical layers. It has a signature
nucleotide-binding motif, or P-loop, at the end of the
first-beta strand.The dimerization domain formed by the
C-terminal 115 amino acid for prokaryotic proteins. It
is adjacent to teh ATP-binding site of the ATP-PPase
subdomain. The largest difference between the primary
sequence of prokaryotic and eukaryotic GMP synthetase
map to the dimerization domain.Eukaryotic GMP synthetase
has several large insertions relative to prokaryotes.
Length = 295
Score = 25.9 bits (58), Expect = 9.8
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 128 RIAIAASGGKDSTVLA 143
++ +A SGG DSTV A
Sbjct: 1 KVILALSGGVDSTVAA 16
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
0.323 0.138 0.421
Gapped
Lambda K H
0.267 0.0693 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,479,268
Number of extensions: 751791
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 49
Length of query: 165
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 75
Effective length of database: 6,945,742
Effective search space: 520930650
Effective search space used: 520930650
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: 55 (25.0 bits)