RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10330
(109 letters)
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 64.3 bits (157), Expect = 2e-13
Identities = 25/67 (37%), Positives = 39/67 (58%)
Query: 43 KYKFGKTKIFFRSGQVAYLEKLRAEKLKRCCIVIQKNVRCFLVRKKYLSILKSVATLQRW 102
KY+ G TK+FF++G +A LE +R KL IQ+ +R +R++YL LK + +Q
Sbjct: 718 KYQIGNTKVFFKAGVLAALEDMRDAKLDNIATRIQRAIRGRYLRRRYLQALKRIKKIQVI 777
Query: 103 TRGYLAR 109
G+ R
Sbjct: 778 QHGFRLR 784
>gnl|CDD|238676 cd01380, MYSc_type_V, Myosin motor domain, type V myosins. Myosins
V transport a variety of intracellular cargo
processively along actin filaments, such as membraneous
organelles and mRNA. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 691
Score = 57.0 bits (138), Expect = 7e-11
Identities = 25/52 (48%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 16 QLIEKIQSIADEMETSKINIEKDH--DCDKYKFGKTKIFFRSGQVAYLEKLR 65
L+ + + + NI D DKY+FGKTKIFFR+GQVA+LEKLR
Sbjct: 640 VLVPSKELWKSDPKQLCENILTKVIEDEDKYQFGKTKIFFRAGQVAFLEKLR 691
>gnl|CDD|214580 smart00242, MYSc, Myosin. Large ATPases. ATPase; molecular motor.
Muscle contraction consists of a cyclical interaction
between myosin and actin. The core of the myosin
structure is similar in fold to that of kinesin.
Length = 677
Score = 46.0 bits (110), Expect = 5e-07
Identities = 15/24 (62%), Positives = 20/24 (83%)
Query: 42 DKYKFGKTKIFFRSGQVAYLEKLR 65
D+Y+ GKTK+F R GQ+A LE+LR
Sbjct: 653 DEYQLGKTKVFLRPGQLAELEELR 676
>gnl|CDD|238673 cd01377, MYSc_type_II, Myosin motor domain, type II myosins. Myosin
II mediates cortical contraction in cell motility, and
is the motor in smooth and skeletal muscle. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 693
Score = 41.4 bits (98), Expect = 2e-05
Identities = 14/26 (53%), Positives = 23/26 (88%)
Query: 40 DCDKYKFGKTKIFFRSGQVAYLEKLR 65
D ++Y+FG TK+FFR+G +A+LE++R
Sbjct: 668 DPEQYRFGHTKVFFRAGVLAHLEEMR 693
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 674
Score = 40.4 bits (95), Expect = 4e-05
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 42 DKYKFGKTKIFFRSGQVAYLEKLRAEKL 69
Y+ GKTK+F R+GQ+A L+ R E L
Sbjct: 647 KGYQIGKTKVFLRAGQMAELDARRTEVL 674
>gnl|CDD|238071 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 679
Score = 39.9 bits (94), Expect = 7e-05
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 26 DEMETSKINIEKDHDCDKYKFGKTKIFFRSGQVAYLEKLR 65
+ + + D+++ GKTK+F + GQ++ LEK+R
Sbjct: 640 TKKQVECLLELLGLPKDEWQVGKTKVFLKEGQLSELEKMR 679
>gnl|CDD|197470 smart00015, IQ, Calmodulin-binding motif. Short
calmodulin-binding motif containing conserved Ile and
Gln residues.
Length = 23
Score = 31.5 bits (73), Expect = 0.006
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 68 KLKRCCIVIQKNVRCFLVRKKY 89
+L R I+IQ R +L RK+Y
Sbjct: 1 RLTRAAIIIQAAWRGYLARKRY 22
Score = 24.2 bits (54), Expect = 3.7
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 94 KSVATLQRWTRGYLAR 109
++ +Q RGYLAR
Sbjct: 4 RAAIIIQAAWRGYLAR 19
>gnl|CDD|238679 cd01383, MYSc_type_VIII, Myosin motor domain, plant-specific type
VIII myosins, a subgroup which has been associated with
endocytosis, cytokinesis, cell-to-cell coupling and
gating at plasmodesmata. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 677
Score = 32.5 bits (74), Expect = 0.024
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 44 YKFGKTKIFFRSGQVAYLEKLR 65
Y+ G TK+FFR+GQ+ LE R
Sbjct: 656 YQVGYTKLFFRTGQIGALEDTR 677
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 31.9 bits (73), Expect = 0.041
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 36 EKDHDCDKYKFGKTKIFFR 54
D ++Y+ GKTKIFFR
Sbjct: 661 SLSLDKEEYRKGKTKIFFR 679
>gnl|CDD|201341 pfam00612, IQ, IQ calmodulin-binding motif. Calmodulin-binding
motif.
Length = 21
Score = 28.1 bits (64), Expect = 0.11
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 70 KRCCIVIQKNVRCFLVRKKY 89
++ I IQ R +L RK+Y
Sbjct: 1 RKAAIKIQAAWRGYLARKRY 20
Score = 24.2 bits (54), Expect = 2.9
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 94 KSVATLQRWTRGYLAR 109
K+ +Q RGYLAR
Sbjct: 2 KAAIKIQAAWRGYLAR 17
>gnl|CDD|104071 PRK09629, PRK09629, bifunctional thiosulfate
sulfurtransferase/phosphatidylserine decarboxylase;
Provisional.
Length = 610
Score = 30.1 bits (67), Expect = 0.19
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 26 DEMETSKINIEKDHDCDKYKFGKTKI-FFRSGQVAYLEKLRA 66
DE + I++EK + ++K G T I F QV + E+L A
Sbjct: 553 DEAARAPIHLEKGAEMGRFKLGSTAIVLFGPNQVKWAEQLTA 594
>gnl|CDD|238674 cd01378, MYSc_type_I, Myosin motor domain, type I myosins. Myosin I
generates movement at the leading edge in cell motility,
and class I myosins have been implicated in phagocytosis
and vesicle transport. Myosin I, an unconventional
myosin, does not form dimers. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Myosins are actin-dependent
molecular motors that play important roles in muscle
contraction, cell motility, and organelle transport. The
head domain is a molecular motor, which utilizes ATP
hydrolysis to generate directed movement toward the plus
end along actin filaments. A cyclical interaction
between myosin and actin provides the driving force.
Rates of ATP hydrolysis and consequently the speed of
movement along actin filaments vary widely, from about
0.04 micrometer per second for myosin I to 4.5
micrometer per second for myosin II in skeletal muscle.
Myosin II moves in discrete steps about 5-10 nm long and
generates 1-5 piconewtons of force. Upon ATP binding,
the myosin head dissociates from an actin filament. ATP
hydrolysis causes the head to pivot and associate with a
new actin subunit. The release of Pi causes the head to
pivot and move the filament (power stroke). Release of
ADP completes the cycle.
Length = 674
Score = 29.9 bits (68), Expect = 0.20
Identities = 11/25 (44%), Positives = 19/25 (76%), Gaps = 1/25 (4%)
Query: 42 DKYKFGKTKIFFRSGQ-VAYLEKLR 65
++Y+ GKTKIF R+ + + LE++R
Sbjct: 650 EEYQMGKTKIFIRNPETLFALEEMR 674
>gnl|CDD|238678 cd01382, MYSc_type_VI, Myosin motor domain, type VI myosins. Myosin
VI is a monomeric myosin, which moves towards the
minus-end of actin filaments, in contrast to most other
myosins. It has been implicated in endocytosis,
secretion, and cell migration. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Myosins are actin-dependent
molecular motors that play important roles in muscle
contraction, cell motility, and organelle transport. The
head domain is a molecular motor, which utilizes ATP
hydrolysis to generate directed movement toward the
minus end along actin filaments. A cyclical interaction
between myosin and actin provides the driving force.
Rates of ATP hydrolysis and consequently the speed of
movement along actin filaments vary widely, from about
0.04 micrometer per second for myosin I to 4.5
micrometer per second for myosin II in skeletal muscle.
Myosin II moves in discrete steps about 5-10 nm long and
generates 1-5 piconewtons of force. Upon ATP binding,
the myosin head dissociates from an actin filament. ATP
hydrolysis causes the head to pivot and associate with a
new actin subunit. The release of Pi causes the head to
pivot and move the filament (power stroke). Release of
ADP completes the cycle.
Length = 717
Score = 29.4 bits (66), Expect = 0.38
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 44 YKFGKTKIFFRSGQVA 59
YKFG TK+FFR G+ A
Sbjct: 695 YKFGLTKVFFRPGKFA 710
>gnl|CDD|238682 cd01386, MYSc_type_XVIII, Myosin motor domain, type XVIII myosins.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 767
Score = 28.7 bits (64), Expect = 0.61
Identities = 12/34 (35%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 34 NIEKDHDCDK--YKFGKTKIFFRSGQVAYLEKLR 65
I ++ + DK Y+ G +++FFR+G ++ LE R
Sbjct: 734 EILENLELDKSSYRIGHSQVFFRAGVLSRLEAQR 767
>gnl|CDD|173944 cd08185, Fe-ADH1, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenases-like (ADH).
Alcohol dehydrogenase catalyzes the reduction of
acetaldehyde to alcohol with NADP as cofactor. Its
activity requires iron ions. The protein structure
represents a dehydroquinate synthase fold and is a
member of the iron-containing alcohol
dehydrogenase-like family. They are distinct from other
alcohol dehydrogenases which contain different protein
domains. Proteins of this family have not been
characterized. Their specific function is unknown. They
are present in bacteria and archaea.
Length = 380
Score = 27.9 bits (63), Expect = 0.84
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 49 TKIFFRSGQVAYLEKLRAEKL---KRCCIVIQKN 79
TKI F +G+ L +L E L K+ IV
Sbjct: 5 TKIVFGAGK---LNELGEEALKPGKKALIVTGNG 35
>gnl|CDD|238677 cd01381, MYSc_type_VII, Myosin motor domain, type VII myosins.
Myosins in this group have been associated with
functions in sensory systems such as vision and hearing.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 671
Score = 27.8 bits (62), Expect = 1.2
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 42 DKYKFGKTKIFFRSGQVAYLEKLR 65
D ++ GKTK+F + LE+ R
Sbjct: 648 DDWQLGKTKVFLKDHHDLLLEQER 671
>gnl|CDD|227855 COG5568, COG5568, Uncharacterized small protein [Function
unknown].
Length = 85
Score = 26.7 bits (59), Expect = 1.3
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 56 GQVAYLEKLRAEKLKRC 72
G+VAY+ K+R+++L RC
Sbjct: 21 GEVAYVRKIRSDELLRC 37
>gnl|CDD|216171 pfam00883, Peptidase_M17, Cytosol aminopeptidase family,
catalytic domain. The two associated zinc ions and the
active site are entirely enclosed within the C-terminal
catalytic domain in leucine aminopeptidase.
Length = 311
Score = 26.9 bits (60), Expect = 2.3
Identities = 6/33 (18%), Positives = 14/33 (42%)
Query: 15 LQLIEKIQSIADEMETSKINIEKDHDCDKYKFG 47
L E+ + +A KI + + + ++ G
Sbjct: 18 AVLAEEAEKLASNYSDVKIEVLDEEELEELGMG 50
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 26.5 bits (59), Expect = 2.8
Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 3/69 (4%)
Query: 42 DKYKFGKTKIFFRSGQVAYLEKLRAEKLKR---CCIVIQKNVRCFLVRKKYLSILKSVAT 98
D Y GKT +F + L +++ EKL V++ + ++K +KS+
Sbjct: 746 DSYAIGKTMVFLKKDAAKELTQIQREKLAAWEPLVSVLEALILKIKKKRKVRKNIKSLVR 805
Query: 99 LQRWTRGYL 107
+Q R +L
Sbjct: 806 IQAHLRRHL 814
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 26.6 bits (59), Expect = 2.9
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 8 EKLEGENLQLIEKIQSIADEMETSKINIEK 37
E LE E + EK + +A E+ + +E+
Sbjct: 212 EALEAELKEQSEKYEDLAQEIAHLRNELEE 241
>gnl|CDD|238681 cd01385, MYSc_type_IX, Myosin motor domain, type IX myosins. Myosin
IX is a processive single-headed motor, which might play
a role in signalling. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 692
Score = 26.4 bits (58), Expect = 3.7
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 6/38 (15%)
Query: 22 QSIADEMET--SKINIEKDHDCDKYKFGKTKIFFRSGQ 57
QS +++ T SK+ I+K + Y+ GKTKIF R +
Sbjct: 647 QSCREDISTLLSKMKIDKRN----YQIGKTKIFMRETE 680
>gnl|CDD|220745 pfam10422, LRS4, Monopolin complex subunit LRS4. Monopolin is a
protein complex, originally identified in Saccharomyces
cerevisiae, that is required for the segregation of
homologous centromeres to opposite poles of a dividing
cell during meiosis I. The orthologous complex in
Schizosaccharomyces pombe is not required for meiosis I
chromosome segregation, but is proposed to play a
similar physiological role in clamping microtubule
binding sites. In S.cerevisiae this subunit is called
LRS4, and in S. pombe it is known as Mde4.
Length = 211
Score = 26.2 bits (57), Expect = 4.1
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 7 NEKLEGENLQLIEKIQSIADEMETSKINIEKDHDCDK 43
EKL E L L +I + +++ K EK +K
Sbjct: 41 GEKLTDETLSLQRQINQLNSDLQLQKQENEKLRKLNK 77
>gnl|CDD|173952 cd08193, HVD, 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the
oxidation of 5-hydroxyvalerate to 5-oxovalerate with
NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase
(HVD) is an iron-containing (type III) NAD-dependent
alcohol dehydrogenase. It plays a role in the
cyclopentanol metabolism biochemical pathway. It
catalyzes the oxidation of 5-hydroxyvalerate to
5-oxovalerate with NAD+ as cofactor. This cyclopentanol
(cpn) degradation pathway is present in some bacteria
which can use cyclopentanol as sole carbon source. In
Comamonas sp. strain NCIMB 9872, this enzyme is encoded
by the CpnD gene.
Length = 376
Score = 26.0 bits (58), Expect = 4.5
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 50 KIFFRSGQVAYL-EKLRAEKLKRCCIVIQKNVRC 82
+I F +G +A L E L A KR +V +
Sbjct: 6 RIVFGAGSLARLGELLAALGAKRVLVVTDPGILK 39
>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 193
Score = 25.8 bits (57), Expect = 5.6
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 7 NEKLEGENLQLIEKIQSIADEMETSKINIEKDHDCDKYKFGKTKIF 52
+LE + +L +K E E + E++ + + K+ K
Sbjct: 45 IAELEAQLEELKDKYLRAQAEFENLRKRTERERE-EAKKYAIEKFA 89
>gnl|CDD|112146 pfam03317, ELF, ELF protein. This is a family of hypothetical
proteins from cereal crops.
Length = 284
Score = 25.4 bits (55), Expect = 7.1
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 7/51 (13%)
Query: 51 IFFRSGQVAYLEKLRAEKLKRCCIVIQKNVRCFLVRKKYLSILKSVATLQR 101
FFR + L AE R CI +++N+ + I K+ A L+R
Sbjct: 221 FFFRDAVSHNRDFLEAESAARRCIEVEQNIL-------WEEIEKAKARLER 264
>gnl|CDD|233030 TIGR00575, dnlj, DNA ligase, NAD-dependent. All proteins in this
family with known functions are NAD-dependent DNA
ligases. Functions of these proteins include DNA repair,
DNA replication, and DNA recombination. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University). The member of this
family from Treponema pallidum differs in having three
rather than just one copy of the BRCT (BRCA1 C Terminus)
domain (pfam00533) at the C-terminus. It is included in
the seed [DNA metabolism, DNA replication,
recombination, and repair].
Length = 652
Score = 25.3 bits (56), Expect = 7.2
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 13 ENLQLIEKIQSIADEMETSKINIEKDHDCDKYKFGKT 49
N QLI+K++ + EME+ + + GKT
Sbjct: 554 NNRQLIKKLEELGVEMESLPEKVNAE-LAGSPLAGKT 589
>gnl|CDD|117527 pfam08961, DUF1875, Domain of unknown function (DUF1875). The MIT
domain, found in Nuclear receptor-binding factor 2, has
no known function.
Length = 243
Score = 25.1 bits (54), Expect = 9.1
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 3 LIAANEKLEGENLQLIEKIQSIADEMETSKINIEKDHDCD 42
L+A NE+L EN QL A++ K IEK+ D D
Sbjct: 141 LVAENERLRKENKQL------KAEKARLLKGPIEKELDVD 174
>gnl|CDD|173939 cd08180, PDD, 1,3-propanediol dehydrogenase (PPD) catalyzes the
reduction of 3-hydroxypropionaldehyde (3-HPA) to
1,3-propanediol in glycerol metabolism.
1,3-propanediol dehydrogenase (PPD) plays a role in
glycerol metabolism of some bacteria in anaerobic
conditions. In this degradation pathway, glycerol is
converted in a two-step process to 1,3-propanediol
(1,3-PD) which is then excreted into the extracellular
medium. The first reaction involves the transformation
of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a
coenzyme B-12-dependent dehydratase. The second
reaction involves the dismutation of the
3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by
the NADH-linked 1,3-propanediol dehydrogenase (PPD).
The enzyme require iron ion for its function. Because
many genes in this pathway are present in the pdu
(propanediol utilisation) operon, they are also named
pdu genes. PPD is a member of the iron-containing
alcohol dehydrogenase superfamily. The PPD structure
has a dehydroquinate synthase-like fold.
Length = 332
Score = 25.2 bits (56), Expect = 9.5
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 11/52 (21%)
Query: 48 KTKIFFRSGQVAYLEKLRAEKLKRCCIVIQKNVRCFLVRKKYL----SILKS 95
KTKI+F G+ A LE+L+ K KR IV F+V+ L L S
Sbjct: 4 KTKIYF--GEDA-LERLKELKNKRVLIVTDP----FMVKSGMLDKVTDHLDS 48
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 0.136 0.388
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,342,115
Number of extensions: 447385
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 512
Number of HSP's successfully gapped: 51
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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 (22.0 bits)
S2: 53 (24.1 bits)