RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16531
(104 letters)
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 42.4 bits (100), Expect = 7e-06
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 26 VFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEY-------KKIQEQSQSDLLNP 78
VFF+AGVL +E++RD +L I +Q +RG R+ Y KKIQ L
Sbjct: 726 VFFKAGVLAALEDMRDAKLDNIATRIQRAIRGRYLRRRYLQALKRIKKIQVIQHGFRLRR 785
Query: 79 RVELKPSFN 87
V+ + +
Sbjct: 786 LVDYELKWR 794
>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 = 36.4 bits (85), Expect = 0.001
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 26 VFFRAGVLGQMEELR 40
VFFRAGVL +EE+R
Sbjct: 679 VFFRAGVLAHLEEMR 693
>gnl|CDD|201341 pfam00612, IQ, IQ calmodulin-binding motif. Calmodulin-binding
motif.
Length = 21
Score = 30.8 bits (71), Expect = 0.009
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 51 MQSYMRGYLSRKEYK 65
+Q+ RGYL+RK YK
Sbjct: 7 IQAAWRGYLARKRYK 21
>gnl|CDD|197470 smart00015, IQ, Calmodulin-binding motif. Short
calmodulin-binding motif containing conserved Ile and
Gln residues.
Length = 23
Score = 30.8 bits (71), Expect = 0.011
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 43 RLGKIVGWMQSYMRGYLSRKEYK 65
RL + +Q+ RGYL+RK YK
Sbjct: 1 RLTRAAIIIQAAWRGYLARKRYK 23
>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 = 30.6 bits (69), Expect = 0.13
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 25 QVFFRAGVLGQMEELR 40
QVFFRAGVL ++E R
Sbjct: 752 QVFFRAGVLSRLEAQR 767
>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 = 29.6 bits (67), Expect = 0.23
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 25 QVFFRAGVLGQMEELR 40
++FFRAG + +E+LR
Sbjct: 676 KIFFRAGQVAFLEKLR 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 = 29.8 bits (68), Expect = 0.23
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 26 VFFRAGVLGQMEELRD 41
VF R G L ++EELR+
Sbjct: 662 VFLRPGQLAELEELRE 677
>gnl|CDD|221941 pfam13154, DUF3991, Protein of unknown function (DUF3991). This
family of proteins is often associated with family
Toprim, pfam01751.
Length = 76
Score = 27.9 bits (63), Expect = 0.36
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 42 DRLGKIVGWMQSYMRGYLSRKEYKKIQEQSQS 73
D GK+VG RG K +K I + S
Sbjct: 37 DEDGKVVGAE---KRGTGEGKPFKGIAKGSSG 65
>gnl|CDD|218088 pfam04437, RINT1_TIP1, RINT-1 / TIP-1 family. This family includes
RINT-1, a Rad50 interacting protein which participates
in radiation induced checkpoint control, as well as the
TIP-1 protein from yeast that seems to be involved in a
complex with Sec20p that is required for golgi
transport.
Length = 483
Score = 28.9 bits (65), Expect = 0.39
Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 11/80 (13%)
Query: 32 VLGQMEELRDDRLGKIVGWMQ----SYMRGYLSRKEYKKIQEQSQSDLLNPRVELKPSFN 87
+ +E LR D G IV + + +R Y + + S + L+P EL +
Sbjct: 294 TINSLERLRLDSEGSIVHRLVKGFKAALRNYFKISTWSSLSSTSALESLSPSAELVEALR 353
Query: 88 VTKD-------TLPIAISCD 100
+ LP+AI
Sbjct: 354 YLRRRISKLERLLPLAIFLR 373
>gnl|CDD|188652 cd09820, dual_peroxidase_like, Dual oxidase and related animal heme
peroxidases. Animal heme peroxidases of the
dual-oxidase like subfamily play vital roles in the
innate mucosal immunity of gut epithelia. They provide
reactive oxygen species which help control infection.
Length = 558
Score = 28.8 bits (65), Expect = 0.43
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
Query: 24 PQVFFRAGVLGQMEELRD-DRLGKIVGWMQSYMRGYLSRKEYKKIQEQSQSDLL 76
P FRA +L Q + LRD DR W ++ G + +E ++I+ + D++
Sbjct: 460 PGELFRAIILDQFQRLRDGDRF-----WFENVKNGLFTAEEIEEIRNTTLRDVI 508
>gnl|CDD|216421 pfam01299, Lamp, Lysosome-associated membrane glycoprotein (Lamp).
Length = 305
Score = 28.2 bits (63), Expect = 0.72
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 10/48 (20%)
Query: 64 YKKIQEQS-------QSDLLNPRVELKPSFNVTKDTLPIAISCDNNDD 104
YK EQS Q + N +V+ +F VT D A C +D
Sbjct: 224 YKCNAEQSLQVSPAFQLNTFNLQVQ---AFQVTGDKFSTAEECSLDDT 268
>gnl|CDD|222807 PHA00662, PHA00662, hypothetical protein.
Length = 215
Score = 27.6 bits (61), Expect = 0.93
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 10 LGEPPPDWSLLGRYPQVFFR 29
+G PP+W P R
Sbjct: 63 MGISPPEWRYAYAQPADAIR 82
>gnl|CDD|221007 pfam11158, DUF2938, Protein of unknown function (DUF2938). This
bacterial family of proteins has no known function.
Some members are thought to be membrane proteins
however this cannot be confirmed.
Length = 150
Score = 26.8 bits (60), Expect = 1.4
Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 9 FLGEPPPDWSLLGRY----PQVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRG 57
G P +++++GR+ P+ F + + +R +GW+ Y G
Sbjct: 21 LFGVPSLNYAMVGRWLGHLPRGRFFHDSIAAAPPVPGER---ALGWLAHYAIG 70
>gnl|CDD|215628 PLN03196, PLN03196, MOC1-like protein; Provisional.
Length = 487
Score = 27.4 bits (61), Expect = 1.5
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 8/76 (10%)
Query: 30 AGVLGQMEELRDDRLGKIVGWMQSYMRGY-LSRKEYKKIQEQ-------SQSDLLNPRVE 81
+L + E+ R+G + Y+ L R +I E+ + + P VE
Sbjct: 214 GPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVE 273
Query: 82 LKPSFNVTKDTLPIAI 97
F V K+ LP I
Sbjct: 274 CLLEFGVRKEALPSVI 289
>gnl|CDD|214972 smart01009, AlkA_N, AlkA N-terminal domain. This domain is found
at the N terminus of bacterial AlkA . AlkA
(3-methyladenine-DNA glycosylase II) is a base excision
repair glycosylase from Escherichia coli. It removes a
variety of alkylated bases from DNA, primarily by
removing alkylation damage from duplex and single
stranded DNA. AlkA flips a 1-azaribose abasic
nucleotide out of DNA. This produces a 66 degrees bend
in the DNA and a marked widening of the minor groove.
Length = 113
Score = 26.8 bits (60), Expect = 1.5
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 13 PPPDWS-LLGRYPQVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLS 60
PP DW+ LL F A + +E + D + + G+++
Sbjct: 3 PPYDWAALLA-----FLAARAVPGVERVDDGSYRRTLRL--GGGAGWVT 44
>gnl|CDD|107201 PHA02519, PHA02519, plasmid partition protein SopA; Reviewed.
Length = 387
Score = 26.1 bits (57), Expect = 3.4
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 13 PPPDWSLLGRYPQVFFRAG-VLGQMEELRD 41
PPPD+ GR + RAG + Q+ +RD
Sbjct: 66 PPPDFETRGRVER---RAGYTIDQISHMRD 92
>gnl|CDD|227586 COG5261, IQG1, Protein involved in regulation of cellular
morphogenesis/cytokinesis [Cell division and chromosome
partitioning / Signal transduction mechanisms].
Length = 1054
Score = 26.0 bits (57), Expect = 4.5
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 15 PDWSLLGRYPQVFFRAGVLGQMEELRDDRLGKIVGWMQSYMRGYLSRKEYKKIQEQSQSD 74
P + LL +F A +G+++ D L IV +Q GY RK Y + +
Sbjct: 377 PLFFLLQSSIPLFSIAICVGRVKRFSIDALLNIVK-LQILGNGYEIRKLYSLGKSNCEEH 435
Query: 75 LL 76
L
Sbjct: 436 LS 437
>gnl|CDD|224929 COG2018, COG2018, Uncharacterized distant relative of homeotic
protein bithoraxoid [General function prediction only].
Length = 119
Score = 25.3 bits (56), Expect = 4.5
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 73 SDLLNPRVELKPSFNVTKDTLPIAISCDNNDD 104
DL ++ + V+KD LPIA N D
Sbjct: 10 LDLNRNVPGVRGALVVSKDGLPIAAELPGNVD 41
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
0.319 0.139 0.427
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,514,328
Number of extensions: 472244
Number of successful extensions: 385
Number of sequences better than 10.0: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 23
Length of query: 104
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 35
Effective length of database: 7,877,176
Effective search space: 275701160
Effective search space used: 275701160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.1 bits)