RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12537
(140 letters)
>gnl|CDD|217325 pfam03028, Dynein_heavy, Dynein heavy chain and region D6 of dynein
motor. This family represents the C-terminal region of
dynein heavy chain. The chain also contains ATPase
activity and microtubule binding ability and acts as a
motor for the movement of organelles and vesicles along
microtubules. Dynein is also involved in cilia and
flagella movement. The dynein subunit consists of at
least two heavy chains and a number of intermediate and
light chains. The 380 kDa motor unit of dynein belongs
to the AAA class of chaperone-like ATPases. The core of
the 380 kDa motor unit contains a concatenated chain of
six AAA modules, of which four correspond to the ATP
binding sites with P-loop signatures described
previously, and two are modules in which the P loop has
been lost in evolution. This C-terminal domain carries
the D6 region of the dynein motor where the P-loop has
been lost in evolution but the general structure of a
potential ATP binding site appears to be retained.
Length = 706
Score = 123 bits (310), Expect = 1e-33
Identities = 45/119 (37%), Positives = 70/119 (58%), Gaps = 4/119 (3%)
Query: 2 RGIKRNLQRTYASWSQTKLNSTDQGRA----LFTLAWFHALIQERRTYIPQGWAKFYEFN 57
G+K NL R +S++Q L + LF L +FHA++QERR + P GW K YEFN
Sbjct: 233 TGLKANLLRALSSFTQETLEMCKKPAEFKRILFLLCFFHAVVQERRKFGPLGWNKSYEFN 292
Query: 58 DSDLNAALNILNARLSQDGMGGVKWDYIHGLLGNAIYGGRIDNAQDMKVLSSYLQFYFS 116
+ DL +L++L+ L + V W+ + L G +YGGRI + D ++L +YL+ +F+
Sbjct: 293 EGDLRISLDVLDNYLDANAPDKVPWEDLRYLFGEIMYGGRITDDWDRRLLRTYLEEFFT 351
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 67.7 bits (165), Expect = 4e-14
Identities = 24/108 (22%), Positives = 41/108 (37%), Gaps = 4/108 (3%)
Query: 27 RALFTLAWFHALIQERRTYIPQGWAKFYEFNDSDLNAALNILNARLSQDGMGGVKWDYIH 86
F L+W HA + + P+ + F D D ++L L + + KW
Sbjct: 3008 DDAFYLSWEHAAVASVISAGPKENNEEIYFGDKDFEFKTHLLKNILFLNHLNARKWGNNR 3067
Query: 87 GLLGNAIYGGRIDNAQDMKVLSSYLQFYFSSNVAKTASTPLAPGVVLP 134
L+ +YG + +D KV+ Y + Y A S+ + V
Sbjct: 3068 DLIFTIVYGKKHSLMEDSKVVDKYCRGYG----AHETSSQILASVPGG 3111
>gnl|CDD|215381 PLN02711, PLN02711, Probable galactinol--sucrose
galactosyltransferase.
Length = 777
Score = 31.7 bits (72), Expect = 0.12
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 68 LNARLSQDGMGGVKWDYIHGL-LGNAIYGGRIDNAQD-MKVLSSYLQFYFSSN 118
L++ L G+ GVK D IH L + YGGR++ A+ K L++ ++ +F+ N
Sbjct: 390 LHSHLQSVGIDGVKVDVIHLLEMLCEEYGGRVELAKAYYKALTASVRKHFNGN 442
>gnl|CDD|218695 pfam05691, Raffinose_syn, Raffinose synthase or seed inhibition
protein Sip1. This family consists of several raffinose
synthase proteins, also known as seed inhibition (Sip1)
proteins. Raffinose (O-alpha- D-galactopyranosyl-
(1-->6)- O-alpha- D-glucopyranosyl-(1<-->2)- O-beta-
D-fructofuranoside) is a widespread oligosaccharide in
plant seeds and other tissues. Raffinose synthase
(EC:2.4.1.82) is the key enzyme that channels sucrose
into the raffinose oligosaccharide pathway. Raffinose
family oligosaccharides (RFOs) are ubiquitous in plant
seeds and are thought to play critical roles in the
acquisition of tolerance to desiccation and seed
longevity. Raffinose synthases are alkaline
alpha-galactosidases and are solely responsible for RFO
breakdown in germinating maize seeds, whereas acidic
galactosidases appear to have other functions.
Length = 742
Score = 29.3 bits (66), Expect = 0.71
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 11/50 (22%)
Query: 52 KFYEFNDSDLNAALNILNARLSQDGMGGVKWDYIHGL--LGNAIYGGRID 99
K +EF D L++ L+ G+ GVK D IH L LG YGGR++
Sbjct: 361 KAHEFYDE--------LHSYLASAGIDGVKVDVIHILETLG-EGYGGRVE 401
>gnl|CDD|143580 cd07176, terB, tellurite resistance protein terB. This family
contains uncharacterized bacterial proteins involved in
tellurium resistance. The prototype of this CD is the
Kp-terB protein from Klebsiella pneumoniae, whose 3D
structure was recently determined. The biological
function of terB and the mechanism responsible for
tellurium resistance are unknown.
Length = 111
Score = 27.6 bits (62), Expect = 1.2
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 39 IQERRTYIPQGWAKFYEFNDSDLNAALNILNARLSQDGMGGVK 81
+Q + + F+ L A L+ L A L +G+ +
Sbjct: 24 LQAIEALL-RSLPVLSGFDRERLIALLDKLLALLRPEGLAALL 65
>gnl|CDD|223747 COG0675, COG0675, Transposase and inactivated derivatives [DNA
replication, recombination, and repair].
Length = 364
Score = 28.5 bits (63), Expect = 1.4
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 56 FNDSDLNAALNILNARLSQDGMGGVKW 82
+D D+NAALNI L GG
Sbjct: 331 VHDRDVNAALNIARRALGLLREGGAAS 357
>gnl|CDD|115907 pfam07282, OrfB_Zn_ribbon, Putative transposase DNA-binding
domain. This putative domain is found at the
C-terminus of a large number of transposase proteins.
This domain contains four conserved cysteines
suggestive of a zinc binding domain. Given the need for
transposases to bind DNA as well as the large number of
DNA-binding zinc fingers we hypothesise this domain is
DNA-binding.
Length = 69
Score = 26.4 bits (59), Expect = 1.9
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 58 DSDLNAALNILN 69
D D+NAA+NIL
Sbjct: 57 DRDVNAAINILK 68
>gnl|CDD|178851 PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate
synthase; Reviewed.
Length = 159
Score = 26.6 bits (60), Expect = 3.2
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 77 MGGVKWDYIHGLLGN 91
+GGV+ Y GLLG+
Sbjct: 22 LGGVEIPYEKGLLGH 36
>gnl|CDD|131813 TIGR02766, crypt_chrom_pln, cryptochrome, plant family. At least
five major families of cryptochomes and photolyases
share FAD cofactor binding, sequence homology, and the
ability to react to short wavelengths of visible light.
Photolysases are responsible for light-dependent DNA
repair by removal of two types of uv-induced DNA
dimerizations. Cryptochromes have other functions, often
regulatory and often largely unknown, which may include
circadian clock entrainment and control of development.
Members of this subfamily are known so far only in
plants; they may show some photolyase activity in vitro
but appear mostly to be regulatory proteins that respond
to blue light.
Length = 475
Score = 27.1 bits (60), Expect = 3.6
Identities = 30/101 (29%), Positives = 41/101 (40%), Gaps = 21/101 (20%)
Query: 12 YASWSQ--TKLNSTDQG-RALFTLAWFHALIQE-------RRTYIPQGWAKFYEFNDSDL 61
+ +W Q T D G R L+ W H I+ + +P W Y F D+
Sbjct: 317 FKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKY-FWDT-- 373
Query: 62 NAALNILNARLSQDGMGGVKWDYIHGLLGNAIYGGRIDNAQ 102
+L+A L D +G W YI G L + RIDN Q
Sbjct: 374 -----LLDADLESDALG---WQYISGSLPDGRELDRIDNPQ 406
>gnl|CDD|184685 PRK14453, PRK14453, chloramphenicol/florfenicol resistance protein;
Provisional.
Length = 347
Score = 26.2 bits (58), Expect = 6.0
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 83 DYIHGLLGNAIYGGRIDNAQDMKVLSSYLQ 112
DY + + AI+ RIDN +DM +L L+
Sbjct: 21 DYRYEQITKAIFKQRIDNFEDMHILPKALR 50
>gnl|CDD|100025 cd00554, MECDP_synthase, MECDP_synthase
(2-C-methyl-D-erythritol-2,4-cyclodiphosphate
synthase), encoded by the ispF gene, catalyzes the
formation of 2-C-methyl-D-erythritol
2,4-cyclodiphosphate (MEC) in the non-mevalonate
deoxyxylulose (DOXP) pathway for isoprenoid
biosynthesis. This pathway is present in bacteria,
plants and some protozoa but is distinct from that used
by mammals and Archaea. MECDP_synthase forms a
homotrimer, carrying three active sites, each of which
is formed in a cleft between pairs of subunits.
Length = 153
Score = 25.5 bits (57), Expect = 8.0
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 77 MGGVKWDYIHGLLGN 91
+GGV+ + GLLG+
Sbjct: 19 LGGVEIPHEKGLLGH 33
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 0.133 0.407
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,020,999
Number of extensions: 602794
Number of successful extensions: 483
Number of sequences better than 10.0: 1
Number of HSP's gapped: 482
Number of HSP's successfully gapped: 19
Length of query: 140
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 53
Effective length of database: 7,078,804
Effective search space: 375176612
Effective search space used: 375176612
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 (21.8 bits)
S2: 54 (24.5 bits)