RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16967
(282 letters)
>gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse
transcriptases. Ribonuclease H (RNase H) is classified
into two families, type 1 (prokaryotic RNase HI,
eukaryotic RNase H1 and viral RNase H) and type 2
(prokaryotic RNase HII and HIII, and eukaryotic RNase
H2). Ribonuclease HI (RNase HI) is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner. RNase H is widely present
in various organisms, including bacteria, archaea and
eukaryotes. RNase HI has also been observed as an
adjunct domain to the reverse transcriptase gene in
retroviruses, long-term repeat (LTR)-bearing
retrotransposons and non-LTR retrotransposons. RNase HI
in LTR retrotransposons perform degradation of the
original RNA template, generation of a polypurine tract
(the primer for plus-strand DNA synthesis), and final
removal of RNA primers from newly synthesized minus and
plus strands. The catalytic residues for RNase H
enzymatic activity, three aspartatic acids and one
glutamatic acid residue (DEDD), are unvaried across all
RNase H domains. The position of the RNase domain of
non-LTR and LTR transposons is at the carboxyl terminal
of the reverse transcriptase (RT) domain and their RNase
domains group together, indicating a common evolutionary
origin. Many non-LTR transposons have lost the RNase
domain because their activity is at the nucleus and
cellular RNase may suffice; however LTR retotransposons
always encode their own RNase domain because it requires
RNase activity in RNA-protein particles in the
cytoplasm. RNase H inhibitors have been explored as an
anti-HIV drug target because RNase H inactivation
inhibits reverse transcription.
Length = 128
Score = 115 bits (289), Expect = 3e-32
Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 5/123 (4%)
Query: 118 CFTDGSKTENSTSCAYTI---NKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPS--TK 172
+TDGSK E T + I S++L SVF AEL+AIL LQ K
Sbjct: 2 IYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGRRARK 61
Query: 173 FLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVDV 232
+ +DS ++L+A+ S ++ L+ +I +L G ++ W P H GI GNE D
Sbjct: 62 ITIFSDSQAALKALRSPRSSSPLVLRIRKAIRELANHGVKVRLHWVPGHSGIEGNERADR 121
Query: 233 AAK 235
AK
Sbjct: 122 LAK 124
>gnl|CDD|215695 pfam00075, RNase_H, RNase H. RNase H digests the RNA strand of an
RNA/DNA hybrid. Important enzyme in retroviral
replication cycle, and often found as a domain
associated with reverse transcriptases. Structure is a
mixed alpha+beta fold with three a/b/a layers.
Length = 126
Score = 80.0 bits (198), Expect = 8e-19
Identities = 34/124 (27%), Positives = 49/124 (39%), Gaps = 9/124 (7%)
Query: 116 ILCFTDGS--KTENSTSCAYTINKNVN-SFRLNVVNSVFSAELMAILLCLQNLKYLPSTK 172
+ +TDGS Y + S L + AEL+A++ L+ L K
Sbjct: 4 VTVYTDGSCNGNPGPGGAGYVTDGGKQRSKPLPG-TTNQRAELLALIEALEAL---SGQK 59
Query: 173 FLLVTDSMSSLQAITSKSCNNALLSK-IYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+ TDS + IT SK I + +L+ ++ W P H GI GNE D
Sbjct: 60 VNIYTDSQYVIGGIT-NGWPTKSESKPIKNEIWELLQKKHKVYIQWVPGHSGIPGNELAD 118
Query: 232 VAAK 235
AK
Sbjct: 119 KLAK 122
>gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA
strand of an RNA/DNA hybrid in a sequence non-specific
manner. Ribonuclease H (RNase H) enzymes are divided
into two major families, Type 1 and Type 2, based on
amino acid sequence similarities and biochemical
properties. RNase H is an endonuclease that cleaves the
RNA strand of an RNA/DNA hybrid in a sequence
non-specific manner in the presence of divalent cations.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes. Most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site residues and have the same catalytic
mechanism and functions in cells. RNase H is involved in
DNA replication, repair and transcription. One of the
important functions of RNase H is to remove Okazaki
fragments during DNA replication. RNase H inhibitors
have been explored as an anti-HIV drug target because
RNase H inactivation inhibits reverse transcription.
Length = 123
Score = 63.1 bits (154), Expect = 1e-12
Identities = 30/126 (23%), Positives = 42/126 (33%), Gaps = 11/126 (8%)
Query: 119 FTDGSKTENSTSCAY-----TINKNVNSFRL--NVVNSVFSAELMAILLCLQNLKYLPST 171
TDGS N + AEL+A+L L+ L
Sbjct: 1 NTDGSCKGNPGPAGAGGVLRDHEGAWLFAGSLSIPAATNNEAELLALLEALELALDLGLK 60
Query: 172 KFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
K ++ TDS + I S S + + L L++ +I F P GNE D
Sbjct: 61 KLIIETDSKYVVDLINSWSKGWKKNNLLLWDILLLLSKFIDIRFEHVPR----EGNEVAD 116
Query: 232 VAAKNP 237
AK
Sbjct: 117 RLAKEA 122
>gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term
repeat retroelements. Ribonuclease H (RNase H) enzymes
are divided into two major families, Type 1 and Type 2,
based on amino acid sequence similarities and
biochemical properties. RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner in the presence of divalent
cations. RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote. RNase HI has
also been observed as adjunct domains to the reverse
transcriptase gene in retroviruses, in long-term repeat
(LTR)-bearing retrotransposons and non-LTR
retrotransposons. RNase HI in LTR retrotransposons
perform degradation of the original RNA template,
generation of a polypurine tract (the primer for
plus-strand DNA synthesis), and final removal of RNA
primers from newly synthesized minus and plus strands.
The catalytic residues for RNase H enzymatic activity,
three aspartatic acids and one glutamatic acid residue
(DEDD), are unvaried across all RNase H domains.
Phylogenetic patterns of RNase HI of LTR retroelements
is classified into five major families, Ty3/Gypsy,
Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate
retroviruses. Bel/Pao family has been described only in
metazoan genomes. RNase H inhibitors have been explored
as an anti-HIV drug target because RNase H inactivation
inhibits reverse transcription.
Length = 135
Score = 49.2 bits (118), Expect = 2e-07
Identities = 32/139 (23%), Positives = 48/139 (34%), Gaps = 27/139 (19%)
Query: 117 LCFTDGSKTENSTSCA-YTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLL 175
FTDGS A T + L S AEL+A++ L+ K +
Sbjct: 1 TVFTDGSSFVRKAGYAVVTGPDVLEIATLPYGTSAQRAELIALIRALELAK---GKPVNI 57
Query: 176 VTDS---MSSLQA----------ITSKSCNNA-LLSKIYSTWLDLVACGKEISFMWCPSH 221
TDS L A +T K A L+ ++ + K ++ + +H
Sbjct: 58 YTDSAYAFGILHALETIWKERGFLTGKPIALASLILQL----QKAIQRPKPVAVIHIRAH 113
Query: 222 CG-----ISGNEAVDVAAK 235
G GN D AA+
Sbjct: 114 SGLPGPLALGNARADQAAR 132
>gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and
more complex than their prokaryotic counterparts and
unlike prokaryote, RNase H are essential in higher
eukaryote. Ribonuclease H (RNase H) is classified into
two families, type 1 (prokaryotic RNase HI, eukaryotic
RNase H1 and viral RNase H) and type 2 (prokaryotic
RNase HII and HIII, and eukaryotic RNase H2). RNase H is
an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner. RNase
H is involved in DNA replication, repair and
transcription. One of the important functions of RNase H
is to remove Okazaki fragments during DNA replication.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. Eukaryotic RNase H is
longer and more complex than in prokaryotes. Almost all
eukaryotic RNase HI have highly conserved regions at the
N-terminal called hybrid binding domain (HBD). It is
speculated that the HBD contributes to binding the
RNA/DNA hybrid. Prokaryotes and some single-cell
eukaryotes do not require RNase H for viability, but
RNase H is essential in higher eukaryotes. RNase H
knockout mice lack mitochondrial DNA replication and die
as embryos.
Length = 150
Score = 44.1 bits (105), Expect = 1e-05
Identities = 28/105 (26%), Positives = 40/105 (38%), Gaps = 26/105 (24%)
Query: 153 AELMAILLCLQNLKYL--PSTKFLLVTDSMSSLQAITS---------------KSCNNA- 194
AEL A++ L+ +K + TK ++ TDS + +T K N
Sbjct: 46 AELRAVIHALRLIKEVGEGLTKLVIATDSEYVVNGVTEWIPKWKKNGWKTSKGKPVANKD 105
Query: 195 ----LLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVDVAAK 235
L + +L G + F P H GI GNE D AK
Sbjct: 106 LIKELDKLLE----ELEERGIRVKFWHVPGHSGIYGNEEADRLAK 146
>gnl|CDD|223405 COG0328, RnhA, Ribonuclease HI [DNA replication, recombination, and
repair].
Length = 154
Score = 43.1 bits (102), Expect = 3e-05
Identities = 24/95 (25%), Positives = 36/95 (37%), Gaps = 12/95 (12%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYST---------W 203
AEL A++ L+ LK L + + L TDS ++ IT + W
Sbjct: 46 AELRALIEALEALKELGACEVTLYTDSKYVVEGITRWIVKWKKNGWKTADKKPVKNKDLW 105
Query: 204 LDLVACGK---EISFMWCPSHCGISGNEAVDVAAK 235
+L K + + W H G NE D A+
Sbjct: 106 EELDELLKRHELVFWEWVKGHAGHPENERADQLAR 140
>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in
prokaryotes. Ribonuclease H (RNase H) is classified
into two evolutionarily unrelated families, type 1
(prokaryotic RNase HI, eukaryotic RNase H1 and viral
RNase H) and type 2 (prokaryotic RNase HII and HIII, and
eukaryotic RNase H2). RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner. RNase H is involved in DNA
replication, repair and transcription. RNase H is widely
present in various organisms, including bacteria,
archaea and eukaryotes and most prokaryotic and
eukaryotic genomes contain multiple RNase H genes.
Despite the lack of amino acid sequence homology, Type 1
and type 2 RNase H share a main-chain fold and steric
configurations of the four acidic active-site (DEDD),
residues and have the same catalytic mechanism and
functions in cells. One of the important functions of
RNase H is to remove Okazaki fragments during DNA
replication. Prokaryotic RNase H varies greatly in
domain structures and substrate specificities.
Prokaryotes and some single-cell eukaryotes do not
require RNase H for viability.
Length = 139
Score = 35.9 bits (84), Expect = 0.006
Identities = 23/93 (24%), Positives = 35/93 (37%), Gaps = 13/93 (13%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYST 202
EL A++ L+ LK LL TDS + IT + + +
Sbjct: 45 ELTAVIEALEALK--EPCPVLLYTDSQYVINGITKWIHGWKKNGWKTADGKPVKNVDLWQ 102
Query: 203 WLDLVACGKEISFMWCPSHCGISGNEAVDVAAK 235
LD + ++++ W H G GNE D A
Sbjct: 103 ELDALLAKHQVTWHWVKGHAGHPGNERADELAN 135
>gnl|CDD|173502 PTZ00266, PTZ00266, NIMA-related protein kinase; Provisional.
Length = 1021
Score = 33.2 bits (75), Expect = 0.15
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 27 HNEFFNRNYDFANHPNTPKPLLMRAREITDFIANIDSSEFAPYDKHIPPWSSVVPS 82
H+ F+R D ++H ++ KP +R+ ++ D ++ Y K+ P S++VPS
Sbjct: 660 HDGNFSRGKDSSDHVSSYKPYAYDSRKAKNYQDTFDRNDMHGYMKN-SPISTIVPS 714
>gnl|CDD|187701 cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI containing a
hybrid binding domain (HBD) at the N-terminus.
Ribonuclease H (RNase H) enzymes are divided into two
major families, Type 1 and Type 2, based on amino acid
sequence similarities and biochemical properties. RNase
H is an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner in the
presence of divalent cations. RNase H is involved in
DNA replication, repair and transcription. RNase H is
widely present in various organisms, including bacteria,
archaea and eukaryotes and most prokaryotic and
eukaryotic genomes contain multiple RNase H genes.
Despite the lack of amino acid sequence homology, Type 1
and type 2 RNase H share a main-chain fold and steric
configurations of the four acidic active-site (DEDD)
residues and have the same catalytic mechanism and
functions in cells. One of the important functions of
RNase H is to remove Okazaki fragments during DNA
replication. Prokaryotic RNase H varies greatly in
domain structures and substrate specificities.
Prokaryotes and some single-cell eukaryotes do not
require RNase H for viability. Some bacteria
distinguished from other bacterial RNase HI in the
presence of a hybrid binding domain (HBD) at the
N-terminus which is commonly present at the N-termini of
eukaryotic RNase HI. It has been reported that this
domain is required for dimerization and processivity of
RNase HI upon binding to RNA-DNA hybrids.
Length = 133
Score = 30.5 bits (70), Expect = 0.45
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 212 EISFMWCPSHCGISGNEAVDVAAKN 236
+ISF+ +H G NE D AK
Sbjct: 107 KISFVKVKAHSGDKYNELADKLAKK 131
>gnl|CDD|178927 PRK00203, rnhA, ribonuclease H; Reviewed.
Length = 150
Score = 29.8 bits (68), Expect = 0.86
Identities = 28/100 (28%), Positives = 34/100 (34%), Gaps = 25/100 (25%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS---------------KSCNNALLSK 198
ELMA + L+ LK + L TDS Q IT K N L
Sbjct: 47 ELMAAIEALEALKE--PCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDL-- 102
Query: 199 IYSTW--LDLVACGKEISFMWCPSHCGISGNEAVDVAAKN 236
W LD +I + W H G NE D A+
Sbjct: 103 ----WQRLDAALKRHQIKWHWVKGHAGHPENERCDELARA 138
>gnl|CDD|238270 cd00484, PEPCK_ATP, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It catalyzes
the reversible decarboxylation and phosphorylation of
oxaloacetate to yield phosphoenolpyruvate and carbon
dioxide, using a nucleotide molecule (ATP) for the
phosphoryl transfer, and has a strict requirement for
divalent metal ions for activity. PEPCK's separate into
two phylogenetic groups based on their nucleotide
substrate specificity, this model describes the
ATP-dependent groups.
Length = 508
Score = 30.7 bits (70), Expect = 0.94
Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 113 HDRILCFTDGSKTENSTSCAYTIN 136
R + + D S TEN T AY I
Sbjct: 286 ETREVDYDDDSITEN-TRAAYPIE 308
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like. This domain is found
in plants and appears to be part of a retrotransposon.
Length = 88
Score = 28.3 bits (64), Expect = 1.2
Identities = 24/94 (25%), Positives = 35/94 (37%), Gaps = 18/94 (19%)
Query: 149 SVFSAELMAILLCLQ---NLKYLPSTKFLLVTDSMSSLQAITSKS-CNN---ALLSKIYS 201
S AE A+L LQ L + ++ +DS +Q I + + ALL +I
Sbjct: 1 SPLEAEAEALLEGLQLALELGI---RRLIVESDSQLVVQQIQGEYEARSRLAALLREI-- 55
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAK 235
L+ +S P C N D AK
Sbjct: 56 --RKLLKKFDSVSVSHVPREC----NRVADALAK 83
>gnl|CDD|224779 COG1866, PckA, Phosphoenolpyruvate carboxykinase (ATP) [Energy
production and conversion].
Length = 529
Score = 30.0 bits (68), Expect = 1.5
Identities = 12/23 (52%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 114 DRILCFTDGSKTENSTSCAYTIN 136
D F DGS TEN T AY I
Sbjct: 304 DGTPDFDDGSLTEN-TRAAYPIE 325
>gnl|CDD|216417 pfam01293, PEPCK_ATP, Phosphoenolpyruvate carboxykinase.
Length = 467
Score = 29.0 bits (66), Expect = 2.7
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 107 NINTKYHDRILCFTDGSKTENSTSCAYTIN 136
N+ R + F D S TEN T AY I
Sbjct: 282 NVVVDPETREVDFDDTSLTEN-TRVAYPIE 310
>gnl|CDD|151411 pfam10964, DUF2766, Protein of unknown function (DUF2766). This
family of proteins with unknown function appears to be
restricted to Enterobacteriaceae.
Length = 79
Score = 27.3 bits (60), Expect = 2.8
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 33 RNYDFANHPNTPKPLLMRAREITDFIANID 62
+N DF HP P+ RA I IA I+
Sbjct: 46 KNIDFGTHPAAADPVTRRA--IEKAIALIE 73
>gnl|CDD|236471 PRK09344, PRK09344, phosphoenolpyruvate carboxykinase; Provisional.
Length = 526
Score = 28.6 bits (65), Expect = 4.0
Identities = 12/23 (52%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 114 DRILCFTDGSKTENSTSCAYTIN 136
D + F DGS TEN T AY I
Sbjct: 302 DGTVDFDDGSLTEN-TRAAYPIE 323
>gnl|CDD|193542 cd05666, M20_Acy1_like1, M20 Peptidase Aminoacylase 1 subfamily.
Peptidase M20 family, Uncharacterized subfamily of
bacterial proteins predicted as putative amidohydrolases
or hippurate hydrolases. These are a class of zinc
binding homodimeric enzymes involved in hydrolysis of
N-acetylated proteins. N-terminal acetylation of
proteins is a widespread and highly conserved process
that is involved in protection and stability of
proteins. Several types of aminoacylases can be
distinguished on the basis of substrate specificity.
Aminoacylase 1 (ACY1) breaks down cytosolic aliphatic
N-acyl-alpha-amino acids (except L-aspartate),
especially N-acetyl-methionine and acetyl-glutamate into
L-amino acids and an acyl group. However, ACY1 can also
catalyze the reverse reaction, the synthesis of
acetylated amino acids. ACY1 may also play a role in
xenobiotic bioactivation as well as the inter-organ
processing of amino acid-conjugated xenobiotic
derivatives (S-substituted-N-acetyl-L-cysteine).
Length = 373
Score = 28.2 bits (64), Expect = 4.7
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 73 IPPWSSVVPSIDTSLHSGKKDNVSPS 98
+ P S V S+ T +H+G NV P
Sbjct: 214 VDPLDSAVVSV-TQIHAGDAYNVIPD 238
>gnl|CDD|213950 TIGR04337, AmmeMemoSam_rS, AmmeMemoRadiSam system radical SAM
enzyme. Members of this protein family are
uncharacterized radical SAM enzymes that occur in a
prokaryotic three-gene system along with homologs of
mammalian proteins Memo (Mediator of ErbB2-driven cell
MOtility) and AMMERCR1 (Alport syndrome, Mental
Retardation, Midface hypoplasia, and Elliptocytosis).
Among radical SAM enzymes that have been experimentally
characterized, the most closely related in sequence
include activases of pyruvate formate-lyase and of
benzylsuccinate synthase.
Length = 349
Score = 28.0 bits (63), Expect = 5.1
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 25 PIHNEFFNRNYDFANHPNTPKPLLMRAREI 54
P+H F+ ++ + P TP L RAREI
Sbjct: 243 PLHFTAFHPDFKMLDTPPTPPATLTRAREI 272
>gnl|CDD|187703 cd09279, RNase_HI_archaeal_like, RNAse HI family that includes
Archaeal RNase HI. Ribonuclease H (RNase H) is
classified into two evolutionarily unrelated families,
type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and
viral RNase H) and type 2 (prokaryotic RNase HII and
HIII, and eukaryotic RNase H2). RNase H is an
endonuclease that cleaves the RNA strand of an RNA/DNA
hybrid in a sequence non-specific manner. RNase H is
involved in DNA replication, repair and transcription.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. One of the important
functions of RNase H is to remove Okazaki fragments
during DNA replication. Most archaeal genomes contain
only type 2 RNase H (RNase HII); however, a few contain
RNase HI as well. Although archaeal RNase HI sequences
conserve the DEDD active-site motif, they lack other
common features important for catalytic function, such
as the basic protrusion region. Archaeal RNase HI
homologs are more closely related to retroviral RNase HI
than bacterial and eukaryotic type I RNase H in
enzymatic properties.
Length = 128
Score = 27.1 bits (61), Expect = 5.9
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSK-SCNNALLSKIYSTWLDLVACGK 211
AE A++ L+ L K + DS + I + N L+ +L+ +
Sbjct: 45 AEYEALIAGLELALELGIKKLEIYGDSQLVVNQIQGEYEVKNERLAPYLEEARELLKKFE 104
Query: 212 EISFMWCP 219
E+ W P
Sbjct: 105 EVEIKWIP 112
>gnl|CDD|161774 TIGR00224, pckA, phosphoenolpyruvate carboxykinase (ATP). Involved
in the gluconeogenesis pathway. It converts oxaloacetic
acid to phosphoenolpyruvate using ATP. Enzyme is a
monomer. The reaction is also catalysed by
phosphoenolpyruvate carboxykinase (GTP) (EC 4.1.1.32)
using GTP instead of ATP, described in PROSITE:PDOC00421
[Energy metabolism, Glycolysis/gluconeogenesis].
Length = 532
Score = 28.3 bits (63), Expect = 5.9
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 114 DRILCFTDGSKTENSTSCAYTI 135
D + F DGSKTEN T +Y I
Sbjct: 310 DGTVDFDDGSKTEN-TRVSYPI 330
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
0.318 0.131 0.403
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,724,259
Number of extensions: 1221292
Number of successful extensions: 933
Number of sequences better than 10.0: 1
Number of HSP's gapped: 927
Number of HSP's successfully gapped: 27
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
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 (21.8 bits)
S2: 58 (26.1 bits)