RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12116
(114 letters)
>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 = 123 bits (310), Expect = 5e-34
Identities = 44/72 (61%), Positives = 54/72 (75%)
Query: 20 VRSQPSFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGK 79
SFEQLCINYANE LQYYFNQH+F+ EQEEY EGI W +IE++DN C+QL K
Sbjct: 389 FGRCNSFEQLCINYANEQLQYYFNQHIFKLEQEEYQGEGITWTNIEYTDNVGCIQLFSKK 448
Query: 80 PNGLLCVLDDQA 91
P GLL +LD+++
Sbjct: 449 PTGLLYLLDEES 460
>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 = 121 bits (307), Expect = 1e-33
Identities = 42/68 (61%), Positives = 53/68 (77%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQLCINYANE LQ +FNQHVF+ EQEEY +EGI W I+F DN C+ L+E KP G+L
Sbjct: 386 SFEQLCINYANEKLQQFFNQHVFKLEQEEYEREGIDWTFIDFFDNQDCIDLIEKKPPGIL 445
Query: 85 CVLDDQAK 92
+LD++ +
Sbjct: 446 SLLDEECR 453
>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 = 116 bits (294), Expect = 8e-32
Identities = 47/97 (48%), Positives = 58/97 (59%), Gaps = 7/97 (7%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQLCINYANE LQ +FNQHVF+ EQEEY +EGI W I+F+DN + L+E KP GLL
Sbjct: 379 SFEQLCINYANEKLQQFFNQHVFKLEQEEYQEEGIDWESIDFTDNQEVIDLIEKKPGGLL 438
Query: 85 CVLDDQAKKNK-------NVVKKKKKKKKKKKKKKKG 114
+LD++ K + K K KK
Sbjct: 439 SLLDEECLFPKGTDETFLEKLNNKLKSNNAFYPAKKN 475
>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 = 108 bits (272), Expect = 7e-29
Identities = 39/65 (60%), Positives = 47/65 (72%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQ CIN NE LQ +FNQHVF+ EQEEY KE I W +IEF DN L L+E KP G++
Sbjct: 384 SFEQFCINLTNEKLQQHFNQHVFKMEQEEYTKEEIDWSYIEFVDNQDVLDLIEKKPGGII 443
Query: 85 CVLDD 89
+LD+
Sbjct: 444 ALLDE 448
>gnl|CDD|215687 pfam00063, Myosin_head, Myosin head (motor domain).
Length = 679
Score = 107 bits (270), Expect = 2e-28
Identities = 39/69 (56%), Positives = 52/69 (75%), Gaps = 1/69 (1%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGKPNGL 83
SFEQLCINYANE LQ +FN H+F+ EQEEY +EGI W I++ DN C+ L+E KP G+
Sbjct: 380 SFEQLCINYANEKLQQFFNHHMFKLEQEEYVREGIAWTFIDYGLDNQACIDLIEKKPPGI 439
Query: 84 LCVLDDQAK 92
L +LD++ +
Sbjct: 440 LSLLDEECR 448
>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 = 107 bits (268), Expect = 2e-28
Identities = 38/68 (55%), Positives = 52/68 (76%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQLCIN+ANE+LQ +F QH+F+ EQEEYN E I W+HIEF DN L L+ KP ++
Sbjct: 379 SFEQLCINFANENLQQFFVQHIFKLEQEEYNLEHINWQHIEFVDNQDALDLIAIKPLNIM 438
Query: 85 CVLDDQAK 92
++D+++K
Sbjct: 439 SLIDEESK 446
>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 = 105 bits (264), Expect = 8e-28
Identities = 41/68 (60%), Positives = 50/68 (73%), Gaps = 1/68 (1%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQ CINYANE LQ FNQHVF+ EQEEY KEGI W I+F DN C+ L+E K G+L
Sbjct: 385 SFEQFCINYANEKLQQQFNQHVFKLEQEEYLKEGIEWTFIDFYDNQPCIDLIESKL-GIL 443
Query: 85 CVLDDQAK 92
+LD++ +
Sbjct: 444 SLLDEECR 451
>gnl|CDD|238683 cd01387, MYSc_type_XV, Myosin motor domain, type XV myosins. In
vertebrates, myosin XV appears to be expressed in
sensory tissue and play a role in 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 = 677
Score = 101 bits (252), Expect = 3e-26
Identities = 41/69 (59%), Positives = 50/69 (72%)
Query: 22 SQPSFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPN 81
S SFEQLCINYANE+LQY FN+ VFQ EQEEY +E + W I F+DN + L+ KP
Sbjct: 375 SFNSFEQLCINYANENLQYLFNKIVFQEEQEEYIREQLDWTEIAFADNQPVINLISLKPY 434
Query: 82 GLLCVLDDQ 90
G+L +LDDQ
Sbjct: 435 GILRILDDQ 443
>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 = 98.0 bits (244), Expect = 4e-25
Identities = 40/67 (59%), Positives = 51/67 (76%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQ CINYANE LQ +FN+H+F+ EQEEY ++GI W +EF DN CL L E KP GLL
Sbjct: 382 SFEQFCINYANERLQQHFNRHLFKLEQEEYEEDGIDWTKVEFEDNQECLDLFEKKPLGLL 441
Query: 85 CVLDDQA 91
+LD+++
Sbjct: 442 SLLDEES 448
>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 = 95.7 bits (239), Expect = 2e-24
Identities = 46/103 (44%), Positives = 57/103 (55%), Gaps = 13/103 (12%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGKPNGL 83
SFEQLCINY NE LQ +FN H+F EQEEY +EGI W I+F D + L+E P G+
Sbjct: 391 SFEQLCINYTNEKLQQFFNHHMFVLEQEEYQREGIEWTFIDFGLDLQPTIDLIEKNPMGI 450
Query: 84 LCVLDDQ------------AKKNKNVVKKKKKKKKKKKKKKKG 114
L +LD++ K N + K K KK KK K K
Sbjct: 451 LSLLDEECVFPKATDKTFVEKLYDNHLGKSKFKKPKKGKAKAH 493
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 94.4 bits (235), Expect = 7e-24
Identities = 45/103 (43%), Positives = 60/103 (58%), Gaps = 13/103 (12%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGK-PNGL 83
SFEQLCINY NE LQ +FNQH+F+ EQEEY KEGI W I++ DN C+ L+E K P G+
Sbjct: 445 SFEQLCINYTNEKLQQFFNQHMFKLEQEEYVKEGIEWSFIDYFDNQPCIDLIEKKNPLGI 504
Query: 84 LCVLDDQA------------KKNKNVVKKKKKKKKKKKKKKKG 114
L +LD++ K + + K K KK + +
Sbjct: 505 LSLLDEECVMPHATDESFTSKLAQRLNKNSNPKFKKSRFRDNK 547
>gnl|CDD|238675 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
Myosin III has been shown to play a role in the vision
process in insects and in hearing in mammals. Myosin
III, 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 = 653
Score = 90.7 bits (225), Expect = 1e-22
Identities = 37/71 (52%), Positives = 51/71 (71%)
Query: 22 SQPSFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPN 81
+ SFEQLCIN ANE +QYYFNQH+F +EQ+EY EG+ R +E+ DN L + KP
Sbjct: 387 KKNSFEQLCINIANEQIQYYFNQHIFAWEQQEYLNEGVDARLVEYEDNRPLLDMFLQKPL 446
Query: 82 GLLCVLDDQAK 92
GLL +LD++++
Sbjct: 447 GLLALLDEESR 457
>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 = 88.0 bits (219), Expect = 1e-21
Identities = 34/66 (51%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGK-PNGL 83
SFEQ CINY NE LQ F + + EQEEY +EGI+W IE+ +N + L+EGK P G+
Sbjct: 383 SFEQFCINYVNEKLQQIFIELTLKAEQEEYVREGIKWTPIEYFNNKIVCDLIEGKRPPGI 442
Query: 84 LCVLDD 89
+LDD
Sbjct: 443 FSILDD 448
>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 = 85.2 bits (211), Expect = 1e-20
Identities = 31/68 (45%), Positives = 46/68 (67%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
SFEQ CINY NE LQ +FN+ + + EQE Y +EG+ + + DN C+ L+E K NG+L
Sbjct: 414 SFEQFCINYCNEKLQQFFNERILKEEQELYQREGLGVNEVHYVDNQDCIDLIEAKLNGIL 473
Query: 85 CVLDDQAK 92
+LD++ +
Sbjct: 474 DILDEENR 481
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 58.1 bits (141), Expect = 4e-11
Identities = 27/66 (40%), Positives = 37/66 (56%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
S EQL IN NE LQ F VF+ E + Y EGI +E++ N + L+ GK +L
Sbjct: 479 SLEQLFINITNEMLQKNFVDIVFERESKLYKDEGISTEELEYTSNESVIDLLCGKGKSVL 538
Query: 85 CVLDDQ 90
+L+DQ
Sbjct: 539 SILEDQ 544
>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 = 41.0 bits (96), Expect = 3e-05
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 10/64 (15%)
Query: 25 SFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLL 84
+FE+LC NY E LQ F+ F E Y +EG+ +EF L E P +
Sbjct: 396 TFEELCHNYLQERLQLLFHHRTFVQPLERYAEEGVE---VEFD-------LAEPSPGTTV 445
Query: 85 CVLD 88
++D
Sbjct: 446 ALVD 449
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 33.0 bits (76), Expect = 0.020
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K +K V+ K+ +KK+K+K+K K
Sbjct: 390 KPSKKVLAKRAEKKEKEKEKPK 411
Score = 32.6 bits (75), Expect = 0.030
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
+KK +KK+K+K+K K KK
Sbjct: 392 SKKVLAKRAEKKEKEKEKPKVKK 414
Score = 31.8 bits (73), Expect = 0.044
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 93 KNKNVVKKKKKKKKKKKKKKK 113
K KK+K+K+K K KK+
Sbjct: 396 LAKRAEKKEKEKEKPKVKKRH 416
Score = 31.8 bits (73), Expect = 0.057
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
AK+ + K+K+K K KK+ +
Sbjct: 397 AKRAEKKEKEKEKPKVKKRHRDT 419
Score = 31.5 bits (72), Expect = 0.078
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
+ K +K+K K KK+ + K
Sbjct: 399 RAEKKEKEKEKPKVKKRHRDTK 420
Score = 31.1 bits (71), Expect = 0.088
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKKG 114
VL +A+K + +K K KK+ + K G
Sbjct: 395 VLAKRAEKKEKEKEKPKVKKRHRDTKNIG 423
Score = 30.3 bits (69), Expect = 0.18
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
KK KK K+ +KK+K+K
Sbjct: 385 EKKTGKPSKKVLAKRAEKKEKEK 407
Score = 29.9 bits (68), Expect = 0.24
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K + K+ +KK+K+K+K K
Sbjct: 391 PSKKVLAKRAEKKEKEKEKPKV 412
Score = 29.9 bits (68), Expect = 0.26
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
+ +K K VKK+ + K K++K
Sbjct: 404 EKEKEKPKVKKRHRDTKNIGKRRK 427
Score = 29.1 bits (66), Expect = 0.37
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
K+ V K+ + K K++K
Sbjct: 406 EKEKPKVKKRHRDTKNIGKRRKP 428
Score = 29.1 bits (66), Expect = 0.42
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
K +KK+K+K+K K KK+
Sbjct: 393 KKVLAKRAEKKEKEKEKPKVKKR 415
Score = 27.6 bits (62), Expect = 1.3
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKKG 114
+ +K K + + K K++K G
Sbjct: 406 EKEKPKVKKRHRDTKNIGKRRKPSG 430
Score = 27.6 bits (62), Expect = 1.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
++K KK K+ +KK+K+
Sbjct: 384 SEKKTGKPSKKVLAKRAEKKEKE 406
Score = 27.2 bits (61), Expect = 2.3
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 78 GKPNGLLCVLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
GKP+ + + K+ + K KK+ + K K
Sbjct: 389 GKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGK 424
Score = 26.4 bits (59), Expect = 4.0
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
A K K KK K+ +KK+
Sbjct: 382 APSEKKTGKPSKKVLAKRAEKKE 404
Score = 25.7 bits (57), Expect = 6.9
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
V+D+ K K +KK K KK K+
Sbjct: 372 VIDELRPKTKAPSEKKTGKPSKKVLAKR 399
>gnl|CDD|241486 cd13332, FERM_C_JAK1, Janus kinase 1 FERM domain C-lobe. JAK1 is a
tyrosine kinase protein essential in signaling type I
and type II cytokines. It interacts with the gamma chain
of type I cytokine receptors to elicit signals from the
IL-2 receptor family, the IL-4 receptor family, the
gp130 receptor family, ciliary neurotrophic factor
receptor (CNTF-R), neurotrophin-1 receptor (NNT-1R) and
Leptin-R). It also is involved in transducing a signal
by type I (IFN-alpha/beta) and type II (IFN-gamma)
interferons, and members of the IL-10 family via type II
cytokine receptors. JAK (also called Just Another
Kinase) is a family of intracellular, non-receptor
tyrosine kinases that transduce cytokine-mediated
signals via the JAK-STAT pathway. The JAK family in
mammals consists of 4 members: JAK1, JAK2, JAK3 and
TYK2. JAKs are composed of seven JAK homology (JH)
domains (JH1-JH7) . The C-terminal JH1 domain is the
main catalytic domain, followed by JH2, which is often
referred to as a pseudokinase domain, followed by
JH3-JH4 which is homologous to the SH2 domain, and
lastly JH5-JH7 which is a FERM domain. Named after
Janus, the two-faced Roman god of doorways, JAKs possess
two near-identical phosphate-transferring domains; one
which displays the kinase activity (JH1), while the
other negatively regulates the kinase activity of the
first (JH2). The FERM domain has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe,A-lobe, B-lobe, C-lobe/F1, F2, F3). The
C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 198
Score = 32.5 bits (74), Expect = 0.025
Identities = 18/72 (25%), Positives = 23/72 (31%), Gaps = 15/72 (20%)
Query: 39 QYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLCVLDDQAKKNKNVV 98
Y + YE GI WR KP + K KN +
Sbjct: 58 NYGDGDNSHDYEVLVTGNTGISWRR---------------KPATTAVEKKKKGKSKKNKL 102
Query: 99 KKKKKKKKKKKK 110
K KK + KKK +
Sbjct: 103 KGKKDEDKKKAR 114
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 30.8 bits (70), Expect = 0.082
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
VL ++AK+ K KKKKKKKKK KK
Sbjct: 104 VLKEKAKQKKQKKKKKKKKKKKTSKKAA 131
Score = 28.5 bits (64), Expect = 0.49
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
Q K+ K KKKKKK KK KKK
Sbjct: 111 QKKQKKKKKKKKKKKTSKKAAKKK 134
Score = 27.3 bits (61), Expect = 1.2
Identities = 16/24 (66%), Positives = 17/24 (70%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
Q K K KK+KKKKKKKKKKK
Sbjct: 103 QVLKEKAKQKKQKKKKKKKKKKKT 126
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 30.1 bits (68), Expect = 0.17
Identities = 15/21 (71%), Positives = 15/21 (71%)
Query: 92 KKNKNVVKKKKKKKKKKKKKK 112
KK K V K KKKKKKKKKK
Sbjct: 173 KKEKMVEPKGSKKKKKKKKKK 193
Score = 26.2 bits (58), Expect = 3.4
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
KK K VKK+KK+KK KK+K
Sbjct: 156 EKKKKKEVKKEKKEKKDKKEKMV 178
Score = 26.2 bits (58), Expect = 3.4
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
V +++ K+ K + KK+KK+KK KK+K
Sbjct: 149 VEEEEKKEKKKKKEVKKEKKEKKDKKEK 176
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 29.9 bits (68), Expect = 0.23
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKKG 114
+ K K KK +K+KKKKK+KKKG
Sbjct: 381 KPPKKKREEKKPQKRKKKKKRKKKG 405
Score = 29.9 bits (68), Expect = 0.25
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
KK + K +K+KKKKK+KKK
Sbjct: 384 KKKREEKKPQKRKKKKKRKKKGK 406
Score = 29.2 bits (66), Expect = 0.36
Identities = 15/25 (60%), Positives = 19/25 (76%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKKG 114
+ KK + KKKK+KKK KK+KKKG
Sbjct: 388 EEKKPQKRKKKKKRKKKGKKRKKKG 412
Score = 28.8 bits (65), Expect = 0.56
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
K+ + +K+KKKKK+KKK KK
Sbjct: 386 KREEKKPQKRKKKKKRKKKGKKR 408
Score = 27.6 bits (62), Expect = 1.6
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKKG 114
+ K K KKK+KKK KK+KKK
Sbjct: 389 EKKPQKRKKKKKRKKKGKKRKKKGR 413
Score = 27.2 bits (61), Expect = 2.2
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
+K KKK+++KK +K+KKK
Sbjct: 377 EKYPKPPKKKREEKKPQKRKKKK 399
Score = 26.5 bits (59), Expect = 3.7
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 99 KKKKKKKKKKKKKKK 113
K+KKK KK+KKK +K
Sbjct: 400 KRKKKGKKRKKKGRK 414
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 29.4 bits (67), Expect = 0.23
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
+LD + K +KK +K K K +KKK
Sbjct: 62 LLDKKELKAWEKAEKKAEKAKAKAEKKK 89
Score = 26.3 bits (59), Expect = 2.6
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKKK 113
+ K + KK +K K K +KKK
Sbjct: 65 KKELKAWEKAEKKAEKAKAKAEKKKA 90
>gnl|CDD|178645 PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional.
Length = 846
Score = 30.0 bits (67), Expect = 0.27
Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 14/70 (20%)
Query: 51 QEEYNKEGIRWRHIE------FSDNTLCLQLVE---GKPNGLLCVLDDQAKKNKNVVKKK 101
QE YN I +R +E S N LVE +GLLC+ DD +++++ K
Sbjct: 659 QESYN---IAFRALEEAFGNCISMNNSNKSLVEAGTSPTHGLLCIEDDN--QSRSMTKTN 713
Query: 102 KKKKKKKKKK 111
KKK KK+K
Sbjct: 714 KKKNPTKKRK 723
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 28.7 bits (64), Expect = 0.43
Identities = 14/26 (53%), Positives = 15/26 (57%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKKK 113
DD + KKKKKK KK KK KK
Sbjct: 90 DDHPPEPTEKPKKKKKKSKKTKKPKK 115
Score = 28.3 bits (63), Expect = 0.49
Identities = 12/21 (57%), Positives = 12/21 (57%)
Query: 93 KNKNVVKKKKKKKKKKKKKKK 113
K K KK KK KK KK KK
Sbjct: 99 KPKKKKKKSKKTKKPKKSSKK 119
Score = 26.8 bits (59), Expect = 1.7
Identities = 11/20 (55%), Positives = 11/20 (55%)
Query: 94 NKNVVKKKKKKKKKKKKKKK 113
K KKKK KK KK KK
Sbjct: 98 EKPKKKKKKSKKTKKPKKSS 117
Score = 24.8 bits (54), Expect = 8.1
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKK 111
++ KK K KK KK KK KK
Sbjct: 98 EKPKKKKKKSKKTKKPKKSSKKD 120
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 28.1 bits (63), Expect = 0.43
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
K ++VKKKKKKKKKK +
Sbjct: 17 KTEADLVKKKKKKKKKKAEDTAA 39
Score = 24.6 bits (54), Expect = 8.4
Identities = 10/25 (40%), Positives = 11/25 (44%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKKKK 113
D KK K KKK + K KK
Sbjct: 21 DLVKKKKKKKKKKAEDTAATAKAKK 45
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 28.2 bits (63), Expect = 0.47
Identities = 15/22 (68%), Positives = 16/22 (72%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K K VKKKKKKKKKK K K+
Sbjct: 13 KGKKIDVKKKKKKKKKKNKSKE 34
Score = 25.8 bits (57), Expect = 2.9
Identities = 13/21 (61%), Positives = 13/21 (61%)
Query: 93 KNKNVVKKKKKKKKKKKKKKK 113
K K KKKKKKKKKK K
Sbjct: 11 KLKGKKIDVKKKKKKKKKKNK 31
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 29.0 bits (66), Expect = 0.47
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKKG 114
+LD + K + +KKK+K++ K K K
Sbjct: 60 LLDKKELKAWHKAQKKKEKQEAKAAKAKS 88
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 29.0 bits (66), Expect = 0.49
Identities = 17/94 (18%), Positives = 32/94 (34%), Gaps = 6/94 (6%)
Query: 22 SQPSFE--QLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGK 79
+ E +L I NE + + + ++Y K G + E
Sbjct: 117 QKVEVEGNKLIIKVNNEIERDHLKKKHLPKLIKQYEKFGF----GILKIDFEIDDSKEEL 172
Query: 80 PNGLLCVLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
++ K K ++ KK + +KKK+ K
Sbjct: 173 EKFEAQKEEEDEKLAKEALEAMKKLEAEKKKQSK 206
>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19). Rab19 subfamily.
Rab19 proteins are associated with Golgi stacks.
Similarity analysis indicated that Rab41 is closely
related to Rab19. However, the function of these Rabs is
not yet characterized. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 165
Score = 28.6 bits (64), Expect = 0.54
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 7/37 (18%)
Query: 62 RHIEFSD-NTLCLQLVEGKPNGLLCVLDDQAKKNKNV 97
R + F + TL + G+L VL+ AK++ NV
Sbjct: 124 REVLFEEACTLA------EHYGILAVLETSAKESSNV 154
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 29.0 bits (66), Expect = 0.54
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKK 113
K VK +K K++ +K
Sbjct: 832 PAGKKAAVKFSRKTKQQYVASEK 854
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 28.6 bits (64), Expect = 0.67
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKKKK 113
D ++ V KK KKKKKKKKK++
Sbjct: 265 DYYDVSEMVKFKKPKKKKKKKKKRR 289
Score = 28.6 bits (64), Expect = 0.77
Identities = 12/16 (75%), Positives = 14/16 (87%)
Query: 98 VKKKKKKKKKKKKKKK 113
KK KKKKKKKKK++K
Sbjct: 275 FKKPKKKKKKKKKRRK 290
Score = 26.6 bits (59), Expect = 3.4
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
+ K KKKKKKKKK++K
Sbjct: 268 DVSEMVKFKKPKKKKKKKKKRRKD 291
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 28.5 bits (64), Expect = 0.69
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKKK 113
+++ K+ K K+K KKK KK KK
Sbjct: 7 ENEVKQQKQQNKQKGTKKKNKKSKKD 32
Score = 28.5 bits (64), Expect = 0.82
Identities = 17/29 (58%), Positives = 21/29 (72%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKKG 114
+ ++Q +NK KKKKKKKKKKKKK G
Sbjct: 44 ISENQEAENKQNNKKKKKKKKKKKKKNLG 72
Score = 25.4 bits (56), Expect = 7.2
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 87 LDDQAKKNKNVVKKKKKKKKKKKKKKK 113
+ + K+ KKKKKKKKK
Sbjct: 39 FLAELISENQEAENKQNNKKKKKKKKK 65
Score = 25.4 bits (56), Expect = 8.4
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 87 LDDQAKKNKNVVKKKKKKKKKKKKKKKG 114
L + +N+ K+ KKKKKKKKKK
Sbjct: 40 LAELISENQEAENKQNNKKKKKKKKKKK 67
>gnl|CDD|216213 pfam00956, NAP, Nucleosome assembly protein (NAP). NAP proteins
are involved in moving histones into the nucleus,
nucleosome assembly and chromatin fluidity. They affect
the transcription of many genes.
Length = 236
Score = 28.5 bits (64), Expect = 0.70
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 92 KKNKNVVKKKKKKKKKKKKKK 112
K+ KN+ K KKK++ KK
Sbjct: 152 KEGKNLTVKTVKKKQRNKKTG 172
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 28.3 bits (63), Expect = 0.81
Identities = 14/26 (53%), Positives = 20/26 (76%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKKK 113
+ + KK K+ K++KKKKK+KKKKK
Sbjct: 141 EKKHKKKKHEDDKERKKKKKEKKKKK 166
Score = 27.5 bits (61), Expect = 1.2
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
KK K++KKKKK+KKKKKK
Sbjct: 146 KKKHEDDKERKKKKKEKKKKKK 167
Score = 26.7 bits (59), Expect = 2.9
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K + +KKKKK+KKKKKK+
Sbjct: 148 KHEDDKERKKKKKEKKKKKKRH 169
Score = 25.9 bits (57), Expect = 4.9
Identities = 13/22 (59%), Positives = 20/22 (90%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
KK+++ ++KKKKK+KKKKKK+
Sbjct: 147 KKHEDDKERKKKKKEKKKKKKR 168
>gnl|CDD|221185 pfam11719, Drc1-Sld2, DNA replication and checkpoint protein.
Genome duplication is precisely regulated by
cyclin-dependent kinases CDKs, which bring about the
onset of S phase by activating replication origins and
then prevent relicensing of origins until mitosis is
completed. The optimum sequence motif for CDK
phosphorylation is S/T-P-K/R-K/R, and Drc1-Sld2 is found
to have at least 11 potential phosphorylation sites.
Drc1 is required for DNA synthesis and S-M replication
checkpoint control. Drc1 associates with Cdc2 and is
phosphorylated at the onset of S phase when Cdc2 is
activated. Thus Cdc2 promotes DNA replication by
phosphorylating Drc1 and regulating its association with
Cut5. Sld2 and Sld3 represent the minimal set of S-CDK
substrates required for DNA replication.
Length = 397
Score = 27.8 bits (62), Expect = 1.4
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKK 112
DD+ K + K+K KKK +K+K
Sbjct: 346 DDEESKEEVEKKQKVKKKPRKRKVN 370
Score = 26.3 bits (58), Expect = 4.3
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKK 112
D+ +++K V+KK+K KKK +K+K
Sbjct: 344 DEDDEESKEEVEKKQKVKKKPRKRK 368
>gnl|CDD|224403 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 27.6 bits (62), Expect = 1.4
Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 34 ANEHLQYYFNQHVFQYEQEEYNKEGIR---WRHIEFSDNTLCLQ-LVEGKPNGLL 84
++ H YY+ + + + +E K G R E L + ++ KP L
Sbjct: 255 SSYHRYYYYPYDMKEKKPDEIEKFGTRANEVMKREKELFELYKKPELKEKPEELE 309
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 27.9 bits (62), Expect = 1.5
Identities = 9/22 (40%), Positives = 10/22 (45%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K +KKK K KKKK
Sbjct: 119 KPKTEKLKKKITVNKSTNKKKK 140
>gnl|CDD|215299 PLN02543, PLN02543, pfkB-type carbohydrate kinase family protein.
Length = 496
Score = 27.6 bits (61), Expect = 1.7
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 2 LPRWRSGQDARLVIRRAW 19
LP WRS + R +I++AW
Sbjct: 308 LPLWRSRDETRELIKKAW 325
>gnl|CDD|234389 TIGR03903, TOMM_kin_cyc, TOMM system kinase/cyclase fusion protein.
This model represents proteins of 1350 in length, in
multiple species of Burkholderia, in Acidovorax avenae
subsp. citrulli AAC00-1 and Delftia acidovorans SPH-1,
and in multiple copies in Sorangium cellulosum, in
genomic neighborhoods that include a
cyclodehydratase/docking scaffold fusion protein
(TIGR03882) and a member of the thiazole/oxazole
modified metabolite (TOMM) precursor family TIGR03795.
It has a kinase domain in the N-terminal 300 amino
acids, followed by a cyclase homology domain, followed
by regions without named domain definitions. It is a
probable bacteriocin-like metabolite biosynthesis
protein [Cellular processes, Toxin production and
resistance].
Length = 1266
Score = 27.1 bits (60), Expect = 2.1
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 2 LPRWRSGQDARLVIRR 17
LPRWR G R+ +RR
Sbjct: 676 LPRWRMGAALRVQLRR 691
>gnl|CDD|219947 pfam08639, SLD3, DNA replication regulator SLD3. The SLD3 DNA
replication regulator is required for loading and
maintenance of Cdc45 on chromatin during DNA
replication.
Length = 437
Score = 27.1 bits (60), Expect = 2.1
Identities = 9/22 (40%), Positives = 19/22 (86%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K+++N+ + K++K++K+KK KK
Sbjct: 136 KRSQNLDRSKRRKRRKRKKNKK 157
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 26.8 bits (60), Expect = 2.1
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
QAKK + +K+K ++++K K K
Sbjct: 118 QAKKREAAGEKEKAPRRERKPKPK 141
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 26.9 bits (60), Expect = 2.2
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
+ +K K K K KK K K ++K
Sbjct: 46 EEEKAKVAAKAKAKKALKAKIEEK 69
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 27.0 bits (59), Expect = 2.4
Identities = 8/26 (30%), Positives = 22/26 (84%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKKKKG 114
++ ++++ ++K K++KKK++K+K+G
Sbjct: 85 EEERRHRQRLEKDKREKKKREKEKRG 110
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 26.7 bits (59), Expect = 2.4
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 99 KKKKKKKKKKKKKKK 113
K+KKKKK KKKK K
Sbjct: 90 KQKKKKKDKKKKSPK 104
Score = 25.2 bits (55), Expect = 8.0
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 91 AKKNKNVVKKKKKKKKKKKKK 111
+ +N KKKKK KKKK K
Sbjct: 84 SPNQENKQKKKKKDKKKKSPK 104
>gnl|CDD|221303 pfam11902, DUF3422, Protein of unknown function (DUF3422). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria, archaea and
eukaryotes. Proteins in this family are typically
between 426 to 444 amino acids in length.
Length = 419
Score = 26.7 bits (60), Expect = 2.9
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 58 GIRW-RHIEFSDNTLCLQLVEGKP 80
+RW RH EFS T +P
Sbjct: 74 RLRWERHTEFSTYTFFRPGPGDEP 97
>gnl|CDD|218941 pfam06217, GAGA_bind, GAGA binding protein-like family. This
family includes gbp a protein from Soybean that binds to
GAGA element dinucleotide repeat DNA. It seems likely
that the this domain mediates DNA binding. This putative
domain contains several conserved cysteines and a
histidine suggesting this may be a zinc-binding DNA
interaction domain.
Length = 301
Score = 26.8 bits (59), Expect = 3.0
Identities = 16/70 (22%), Positives = 19/70 (27%), Gaps = 10/70 (14%)
Query: 45 HVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLCVLDDQAKKNKNVVKKKKKK 104
+ + Q N G R H + K K K K
Sbjct: 112 QMLHHPQLGDNPYGTREMHHLEVPPISTAPPEAKEV----------KKPKKGQSPKVPKA 161
Query: 105 KKKKKKKKKG 114
K KK KKKG
Sbjct: 162 PKPKKPKKKG 171
>gnl|CDD|217431 pfam03219, TLC, TLC ATP/ADP transporter.
Length = 491
Score = 26.8 bits (60), Expect = 3.1
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 94 NKNVVKKKK---KKKKKKKKKKK 113
NKNV+ + KKKKKKK K
Sbjct: 244 NKNVLTDPRLYASAKKKKKKKPK 266
>gnl|CDD|221856 pfam12922, Cnd1_N, non-SMC mitotic condensation complex subunit 1,
N-term. The three non-SMC (structural maintenance of
chromosomes) subunits of the mitotic condensation
complex are Cnd1-3. The whole complex is essential for
viability and the condensing of chromosomes in mitosis.
This is the conserved N-terminus of the subunit 1.
Length = 169
Score = 26.5 bits (59), Expect = 3.3
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 83 LLCVLDDQAKKNKNVVKKKKKKKKKKKKKKKG 114
LL L+ K + K KKK+KK KK
Sbjct: 54 LLEALEKAEKSAAAAPARAGKGKKKRKKAKKA 85
>gnl|CDD|236768 PRK10819, PRK10819, transport protein TonB; Provisional.
Length = 246
Score = 26.6 bits (59), Expect = 3.4
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K K K K K KK +++ K
Sbjct: 97 PKPKPKPKPKPKPVKKVEEQPK 118
>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2
complex component). RNases H are enzymes that
specifically hydrolyse RNA when annealed to a
complementary DNA and are present in all living
organisms. In yeast RNase H2 is composed of a complex of
three proteins (Rnh2Ap, Ydr279p and Ylr154p), this
family represents the homologues of Ydr279p. It is not
known whether non yeast proteins in this family fulfil
the same function.
Length = 287
Score = 26.5 bits (59), Expect = 3.4
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K + KK K+ K K KK
Sbjct: 254 SKEEIKKKKPKESKGVKALKKV 275
Score = 26.1 bits (58), Expect = 4.2
Identities = 8/22 (36%), Positives = 8/22 (36%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
KK K K KK K K
Sbjct: 260 KKKPKESKGVKALKKVVAKGMK 281
Score = 25.8 bits (57), Expect = 5.3
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K + + KKK K+ K K KK
Sbjct: 253 KSKEEIKKKKPKESKGVKALKK 274
>gnl|CDD|225789 COG3250, LacZ, Beta-galactosidase/beta-glucuronidase [Carbohydrate
transport and metabolism].
Length = 808
Score = 26.6 bits (59), Expect = 3.6
Identities = 12/69 (17%), Positives = 19/69 (27%), Gaps = 2/69 (2%)
Query: 22 SQPSFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPN 81
P ++ A Y + Q E + E S+ + LVE
Sbjct: 604 VPPGASWSSLDEALRPKALYLTRRFTQPELTAW-SEAAADGQFTLSEVSAAPLLVED-ER 661
Query: 82 GLLCVLDDQ 90
L D +
Sbjct: 662 LLQVEGDGK 670
>gnl|CDD|237091 PRK12405, PRK12405, electron transport complex RsxE subunit;
Provisional.
Length = 231
Score = 26.4 bits (59), Expect = 3.6
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 95 KNVVKKKKKKKKKKKKKKKG 114
KN++ K+KKK+K K +
Sbjct: 203 KNLIDKRKKKRKAKAAAEPA 222
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 26.6 bits (59), Expect = 3.7
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKKK 112
D A + + K K KK +K KK
Sbjct: 766 DSAFRGEKKAKPKAAKKDARKAKK 789
>gnl|CDD|225112 COG2202, AtoS, FOG: PAS/PAC domain [Signal transduction
mechanisms].
Length = 232
Score = 26.4 bits (56), Expect = 3.8
Identities = 11/82 (13%), Positives = 22/82 (26%), Gaps = 3/82 (3%)
Query: 8 GQDARLVIRRAWVRSQPSFEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS 67
G + R ++ + E K+G R R I
Sbjct: 146 GYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLEIEYRVRRKDGERVRWILSR 205
Query: 68 DNTLCLQLVEGKPNGLLCVLDD 89
+ + G+ G++ + D
Sbjct: 206 ISPVRDD---GEIVGVVGIARD 224
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 26.3 bits (58), Expect = 3.8
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
K +K+ KK KK KKKKKKK+
Sbjct: 196 KGDKSSAKKDKKSKKKKKKKRS 217
>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer
membranes [Cell envelope biogenesis, outer membrane].
Length = 244
Score = 26.3 bits (58), Expect = 4.0
Identities = 10/24 (41%), Positives = 11/24 (45%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
+ K K K K K K K K K K
Sbjct: 87 KPKPEKKPKKPKPKPKPKPKPKPK 110
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 25.9 bits (58), Expect = 4.1
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 99 KKKKKKKKKKKKK 111
KKKK KKK KK
Sbjct: 1 AKKKKTVKKKVKK 13
Score = 25.9 bits (58), Expect = 4.1
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 100 KKKKKKKKKKKKK 112
KKKK KKK KK
Sbjct: 1 AKKKKTVKKKVKK 13
Score = 25.9 bits (58), Expect = 4.1
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 101 KKKKKKKKKKKKK 113
KKKK KKK KK
Sbjct: 1 AKKKKTVKKKVKK 13
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 25.8 bits (57), Expect = 4.3
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 93 KNKNVVKKKKKKKKKKKKKKKG 114
K + +KKK+KKKKKKK KKG
Sbjct: 85 KKRAKRQKKKQKKKKKKKAKKG 106
Score = 25.4 bits (56), Expect = 6.6
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
K+ K KK+KKKKKKK KK
Sbjct: 86 KRAKRQKKKQKKKKKKKAKKGNK 108
>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein;
Validated.
Length = 860
Score = 26.3 bits (58), Expect = 4.3
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKKG 114
+ K K V KK K K KK KK+ G
Sbjct: 761 KGKAAKTVKKKSKAKSKKTTKKRAG 785
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 26.4 bits (58), Expect = 4.5
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 99 KKKKKKKKKKKKKKK 113
KKKKKKK K+KKKKK
Sbjct: 685 KKKKKKKSKEKKKKK 699
Score = 26.0 bits (57), Expect = 6.4
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 85 CVLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
C L ++K K K K+KKKKK ++ K
Sbjct: 677 CCLCCGSRKKKKKKKSKEKKKKKNREASK 705
>gnl|CDD|200594 cd10972, CE4_DAC_u3_5s, Putative catalytic NodB homology domain
of uncharacterized bacterial polysaccharide
deacetylases which consist of a 5-stranded beta/alpha
barrel. This family contains uncharacterized bacterial
polysaccharide deacetylases. Although their biological
functions remain unknown, all members of the family are
predicted to contain a conserved domain with a
5-stranded beta/alpha barrel, which is similar to the
catalytic NodB homology domain of rhizobial NodB-like
proteins, belonging to the larger carbohydrate esterase
4 (CE4) superfamily.
Length = 216
Score = 26.1 bits (58), Expect = 4.7
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 40 YYFNQHVFQYEQEEYNKEGIRW 61
+Y N F + Q EY ++ +RW
Sbjct: 55 FYVNPGPFGFGQPEYAEQKLRW 76
>gnl|CDD|234368 TIGR03835, termin_org_DnaJ, terminal organelle assembly protein
TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ
homolog and probable assembly protein of the Mycoplasma
terminal organelle. The terminal organelle is involved
in both cytadherence and gliding motility [Cellular
processes, Chemotaxis and motility].
Length = 871
Score = 26.3 bits (57), Expect = 4.8
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 96 NVVKKKKKKKKKKKKKKKG 114
N+ KKKKKKKKKG
Sbjct: 99 NITDDDTPSKKKKKKKKKG 117
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific transcription-initiation
factor. RNA polymerase I-specific
transcription-initiation factor Rrn6 and Rrn7 represent
components of a multisubunit transcription factor
essential for the initiation of rDNA transcription by
Pol I. These proteins are found in fungi.
Length = 753
Score = 25.9 bits (57), Expect = 5.4
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 100 KKKKKKKKKKKKKKG 114
+ KKKKKKK+KG
Sbjct: 737 GRSASKKKKKKKRKG 751
Score = 25.5 bits (56), Expect = 7.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 99 KKKKKKKKKKKKKKKG 114
+ KKKKKKK+K G
Sbjct: 737 GRSASKKKKKKKRKGG 752
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 26.2 bits (57), Expect = 5.7
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 2 LPRWRSGQDARLVIRRAW 19
LP W S ++ + I+ AW
Sbjct: 377 LPLWSSSEETKSFIQEAW 394
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 25.8 bits (57), Expect = 5.7
Identities = 12/15 (80%), Positives = 12/15 (80%)
Query: 100 KKKKKKKKKKKKKKG 114
KKKKKKKKKK KK
Sbjct: 182 KKKKKKKKKKTKKNN 196
Score = 25.8 bits (57), Expect = 6.6
Identities = 12/13 (92%), Positives = 12/13 (92%)
Query: 99 KKKKKKKKKKKKK 111
KKKKKKKKKK KK
Sbjct: 182 KKKKKKKKKKTKK 194
>gnl|CDD|188606 TIGR04091, LTA_dltB, D-alanyl-lipoteichoic acid biosynthesis
protein DltB. Members of this protein family are DltB,
part of a four-gene operon for D-alanyl-lipoteichoic
acid biosynthesis that is present in the vast majority
of low-GC Gram-positive organisms. This protein may be
involved in transport of D-alanine across the plasma
membrane [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 380
Score = 26.0 bits (58), Expect = 5.8
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 99 KKKKKKKKKKKKK 111
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 26.0 bits (58), Expect = 5.8
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 100 KKKKKKKKKKKKK 112
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 26.0 bits (58), Expect = 5.8
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 101 KKKKKKKKKKKKK 113
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNK 355
>gnl|CDD|220149 pfam09234, DUF1963, Domain of unknown function (DUF1963). This
domain is found in a set of hypothetical bacterial
proteins. Its exact function has not, as yet, been
described.
Length = 221
Score = 25.8 bits (57), Expect = 5.9
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 37 HLQYYFNQHVFQYEQEEYNKEGIRWRHIE-FSDNTLCLQLVE 77
LQ++ + + ++ G R + E ++ L L+E
Sbjct: 47 ILQFFIDLDDDDWGDSPEDQTGFRVIYFEDIIEDLLPKDLIE 88
>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the
eukaryotic RNase H complex which cleaves RNA-DNA
hybrids. Ribonuclease H2B is one of the three proteins
of eukaryotic RNase H2 complex that is required for
nucleic acid binding and hydrolysis. RNase H is
classified into two families, type I (prokaryotic RNase
HI, eukaryotic RNase H1 and viral RNase H) and type II
(prokaryotic RNase HII and HIII, and eukaryotic RNase
H2/HII). RNase H endonucleolytically hydrolyzes an RNA
strand when it is annealed to a complementary DNA strand
in the presence of divalent cations, in DNA replication
and repair. The enzyme can be found in bacteria,
archaea, and eukaryotes. Most prokaryotic and eukaryotic
genomes contain multiple RNase H genes. Despite a lack
of evidence for homology from sequence comparisons, type
I and type II RNase H share a common fold and similar
steric configurations of the four acidic active-site
residues, suggesting identical or very similar catalytic
mechanisms. Eukaryotic RNase HII is active during
replication and is believed to play a role in removal of
Okazaki fragment primers and single ribonucleotides in
DNA-DNA duplexes. Eukaryotic RNase HII is functional
when it forms a complex with RNase H2B and RNase H2C
proteins. It is speculated that the two accessory
subunits are required for correct folding of the
catalytic subunit of RNase HII. Mutations in the three
subunits of human RNase HII cause neurological disorder.
Length = 211
Score = 25.7 bits (57), Expect = 6.4
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
KK+ N ++KKKKKKK KKKK
Sbjct: 171 DKKKSNNAEEEKKKKKKKSAKKKK 194
Score = 25.0 bits (55), Expect = 9.7
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 89 DQAKKNKNVVKKKKKKKKK-KKKKKKG 114
+ A++ K KKK KKKK KK G
Sbjct: 176 NNAEEEKKKKKKKSAKKKKLKKVAAVG 202
>gnl|CDD|236283 PRK08540, PRK08540, adenylosuccinate lyase; Reviewed.
Length = 449
Score = 25.7 bits (57), Expect = 6.4
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 73 LQLVEGKPNGLLCVLDDQAKKNKNVV 98
L+++E K L VL +A+++KN V
Sbjct: 119 LEILEEKLKKLRGVLLKKAEEHKNTV 144
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 25.4 bits (56), Expect = 6.7
Identities = 12/27 (44%), Positives = 13/27 (48%)
Query: 88 DDQAKKNKNVVKKKKKKKKKKKKKKKG 114
+ K K KKKK K K KK KK
Sbjct: 81 KQKWKWKKKKSKKKKDKDKDKKDDKKD 107
>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional.
Length = 413
Score = 25.8 bits (57), Expect = 6.7
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 89 DQAKKNKNVVKKKKKKKKKKKKKKK 113
+ K K+ KKKKKK+KK+ K +
Sbjct: 63 NNESKKKSEKKKKKKKEKKEPKSEG 87
>gnl|CDD|220207 pfam09368, Sas10_Utp3_C, Sas10 C-terminal domain. This family
contains a C-terminal presumed domain in Sas10 which
hash been identified as a regulator of chromatin
silencing.
Length = 76
Score = 24.5 bits (54), Expect = 6.8
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
K +N KK+KK +K K+ K
Sbjct: 25 KDRRNPRVKKRKKYEKAVKRLKS 47
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 25.7 bits (57), Expect = 7.0
Identities = 11/24 (45%), Positives = 19/24 (79%)
Query: 91 AKKNKNVVKKKKKKKKKKKKKKKG 114
KK K +V+K +KK++++KK+KK
Sbjct: 409 TKKIKKIVEKAEKKREEEKKEKKK 432
Score = 25.3 bits (56), Expect = 9.1
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKKG 114
K K V K +KK++++KK+KKK
Sbjct: 411 KIKKIVEKAEKKREEEKKEKKKK 433
Score = 25.3 bits (56), Expect = 9.5
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 86 VLDDQAKKNKNVVKKKKKKKKKKKKKKK 113
V + K+ + +KKKK KKK+++
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEE 443
Score = 25.3 bits (56), Expect = 9.6
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 92 KKNKNVVKKKKKKKKKKKKKKK 113
KK +KK +K +KK++++K
Sbjct: 406 KKATKKIKKIVEKAEKKREEEK 427
>gnl|CDD|185064 PRK15109, PRK15109, antimicrobial peptide ABC transporter
periplasmic binding protein SapA; Provisional.
Length = 547
Score = 25.0 bits (55), Expect = 9.9
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 1 MLPRWRSGQDARLVIRRAWVRSQPSFEQLCIN 32
L +R+GQ RL + R +P Q+ ++
Sbjct: 219 QLSEYRAGQFIRLQRHDDYWRGKPLMPQVVVD 250
>gnl|CDD|218550 pfam05311, Baculo_PP31, Baculovirus 33KDa late protein (PP31).
Autographa californica nuclear polyhedrosis virus
(AcMNPV) pp31 is a nuclear phosphoprotein that
accumulates in the virogenic stroma, which is the viral
replication centre in the infected-cell nucleus, binds
to DNA, and serves as a late expression factor.
Length = 267
Score = 25.0 bits (55), Expect = 9.9
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 90 QAKKNKNVVKKKKKKKKKKKKKKK 113
++K K K KK KK+K+K
Sbjct: 223 PSRKRKAPKKVAKKVAAAKKRKQK 246
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 0.134 0.412
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,847,221
Number of extensions: 503834
Number of successful extensions: 4506
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3586
Number of HSP's successfully gapped: 507
Length of query: 114
Length of database: 10,937,602
Length adjustment: 78
Effective length of query: 36
Effective length of database: 7,477,990
Effective search space: 269207640
Effective search space used: 269207640
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 (21.7 bits)
S2: 53 (24.1 bits)