RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17361
(219 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 = 2e-32
Identities = 45/119 (37%), Positives = 70/119 (58%), Gaps = 4/119 (3%)
Query: 16 AGIKRNLQRTYASWSQTKLNSTDQGRA----LFTLAWFHALIQERRTYIPQGWAKFYEFN 71
G+K NL R +S++Q L + LF L +FHA++QERR + P GW K YEFN
Sbjct: 233 TGLKANLLRALSSFTQETLEMCKKPAEFKRILFLLCFFHAVVQERRKFGPLGWNKSYEFN 292
Query: 72 DSDLNAALNILNARLSQDGMGGVKWDYIHGLLGNAIYGGRIDNAQDMKVLSSYLQFYFS 130
+ DL +L++L+ L + V W+ + L G +YGGRI + D ++L +YL+ +F+
Sbjct: 293 EGDLRISLDVLDNYLDANAPDKVPWEDLRYLFGEIMYGGRITDDWDRRLLRTYLEEFFT 351
Score = 31.9 bits (73), Expect = 0.25
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 190 SSTYWRSPVDLSGLFHPHAFLSVLKQHTAR 219
T W LSG F+P +FL+ + Q AR
Sbjct: 561 PKTVW-----LSGFFNPQSFLTAIMQSVAR 585
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 67.3 bits (164), Expect = 4e-13
Identities = 24/108 (22%), Positives = 41/108 (37%), Gaps = 4/108 (3%)
Query: 41 RALFTLAWFHALIQERRTYIPQGWAKFYEFNDSDLNAALNILNARLSQDGMGGVKWDYIH 100
F L+W HA + + P+ + F D D ++L L + + KW
Sbjct: 3008 DDAFYLSWEHAAVASVISAGPKENNEEIYFGDKDFEFKTHLLKNILFLNHLNARKWGNNR 3067
Query: 101 GLLGNAIYGGRIDNAQDMKVLSSYLQFYFSSNVAKTASTPLAPGVVLP 148
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 = 31.3 bits (71), Expect = 0.39
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 82 LNARLSQDGMGGVKWDYIHGL-LGNAIYGGRIDNAQD-MKVLSSYLQFYFSSN 132
L++ L G+ GVK D IH L + YGGR++ A+ K L++ ++ +F+ N
Sbjct: 390 LHSHLQSVGIDGVKVDVIHLLEMLCEEYGGRVELAKAYYKALTASVRKHFNGN 442
>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 = 28.3 bits (64), Expect = 1.1
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 53 IQERRTYIPQGWAKFYEFNDSDLNAALNILNARLSQDGMGGVK 95
+Q + + F+ L A L+ L A L +G+ +
Sbjct: 24 LQAIEALL-RSLPVLSGFDRERLIALLDKLLALLRPEGLAALL 65
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 29.7 bits (67), Expect = 1.3
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 3/31 (9%)
Query: 147 LPSSTNLGTPDDWQSIWSGSGNPLLYIRSVV 177
LP++TN PDDW I G ++YIR++V
Sbjct: 485 LPNTTN---PDDWARISGRKGERIVYIRTLV 512
>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 = 28.9 bits (65), Expect = 2.4
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 11/50 (22%)
Query: 66 KFYEFNDSDLNAALNILNARLSQDGMGGVKWDYIHGL--LGNAIYGGRID 113
K +EF D L++ L+ G+ GVK D IH L LG YGGR++
Sbjct: 361 KAHEFYDE--------LHSYLASAGIDGVKVDVIHILETLG-EGYGGRVE 401
>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 = 26.0 bits (58), Expect = 5.0
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 72 DSDLNAALNILN 83
D D+NAA+NIL
Sbjct: 57 DRDVNAAINILK 68
>gnl|CDD|235213 PRK04044, rps5p, 30S ribosomal protein S5P; Reviewed.
Length = 211
Score = 27.2 bits (61), Expect = 5.4
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 9/60 (15%)
Query: 10 KKKIRFAGIKRNLQRTYASWSQTKLNSTDQGRALFTLAWFHALIQERRTYIPQGWAKFYE 69
KK + AGIK RT+ ++T +N F A F+AL + P WA+
Sbjct: 161 KKVLELAGIKDVWTRTFGE-TRTTVN--------FAKATFNALKNTYKVRTPPDWAEKRG 211
>gnl|CDD|178851 PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate
synthase; Reviewed.
Length = 159
Score = 27.0 bits (61), Expect = 5.9
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 91 MGGVKWDYIHGLLGN 105
+GGV+ Y GLLG+
Sbjct: 22 LGGVEIPYEKGLLGH 36
>gnl|CDD|223747 COG0675, COG0675, Transposase and inactivated derivatives [DNA
replication, recombination, and repair].
Length = 364
Score = 27.3 bits (60), Expect = 7.4
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 70 FNDSDLNAALNILNARLSQDGMGGVKW 96
+D D+NAALNI L GG
Sbjct: 331 VHDRDVNAALNIARRALGLLREGGAAS 357
>gnl|CDD|185759 cd09220, GH64-GluB-like, glycoside hydrolase family 64:
beta-1,3-glucanase B (GluB)-like. This subfamily is
represented by GluB, beta-1,3-glucanase B , from
Lysobacter enzymogenes Strain N4-7 and related bacterial
and ascomycete proteins. GluB is a member of the
glycoside hydrolase family 64 (GH64) involved in the
cleavage of long-chain polysaccharide beta-1,3-glucans,
into specific pentasaccharide oligomers. Among bacteria,
many beta-1,3-glucanases are implicated in fungal cell
wall degradation. GluB possesses the conserved Glu and
Asp residues required to cleave substrate
beta-1,3-glucans. Recombinant GluB demonstrated higher
relative activity toward the branched-chain beta-1,3
glucan substrate zymosan A than toward linear beta-1,3
glucan substrates. Based on the structure of
laminaripentaose-producing, beta-1,3-glucanase (LPHase)
of Streptomyces matensis, which belongs to the same
family as GluB but to a different subfamily, this cd is
a two-domain model. Sometimes these two domains are
found associated with other domains such as in the
Catenulispora acidiphila DSM 44928 carbohydrate binding
family 6 protein in which they are positioned N-terminal
of a carbohydrate binding module, family 6 (CBM_6)
domain.
Length = 369
Score = 26.9 bits (60), Expect = 9.0
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 15/58 (25%)
Query: 107 IYGGRIDNAQDMKVLSSYLQFYFSSNVAKTASTPLAPGVVLPSSTNLGTPDDWQSIWS 164
+ GGRI + D K L F + P P +V PS TN P ++ W
Sbjct: 73 LAGGRIWFSVDDK-----LTFLLN---------PGGPALVEPSVTNPSDP-NYNKNWG 115
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
0.320 0.132 0.410
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,075,587
Number of extensions: 995916
Number of successful extensions: 799
Number of sequences better than 10.0: 1
Number of HSP's gapped: 798
Number of HSP's successfully gapped: 16
Length of query: 219
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 126
Effective length of database: 6,812,680
Effective search space: 858397680
Effective search space used: 858397680
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: 57 (25.7 bits)