Last updated: 2022/11/18
BLASTX 2.2.12 [Aug-07-2005]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= msgV0903.Seq
(499 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containi... 38 0.005
At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containi... 37 0.007
At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containi... 37 0.007
At3g16810.1 68416.m02147 pumilio/Puf RNA-binding domain-containi... 36 0.020
At3g20250.1 68416.m02565 pumilio/Puf RNA-binding domain-containi... 32 0.19
At3g10360.1 68416.m01242 pumilio/Puf RNA-binding domain-containi... 32 0.19
At5g43110.1 68418.m05263 pumilio/Puf RNA-binding domain-containi... 29 1.3
At3g12850.1 68416.m01602 COP9 signalosome complex-related / CSN ... 29 2.3
At4g08560.1 68417.m01408 pumilio/Puf RNA-binding domain-containi... 28 3.0
At1g22400.1 68414.m02801 UDP-glucoronosyl/UDP-glucosyl transfera... 28 4.0
At1g78160.1 68414.m09108 pumilio/Puf RNA-binding domain-containi... 27 7.0
At5g17180.1 68418.m02013 hypothetical protein 27 9.3
At1g50730.1 68414.m05705 expressed protein 27 9.3
>At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containing
protein
Length = 972
Score = 37.5 bits (83), Expect = 0.005
Identities = 20/45 (44%), Positives = 27/45 (60%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
VIQ +L+H D I KEL IVQM Q K+A + V++ L +G
Sbjct: 832 VIQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 876
>At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containing
protein similar to BPM [Hordeum vulgare] GI:20513851
Length = 968
Score = 37.1 bits (82), Expect = 0.007
Identities = 19/45 (42%), Positives = 27/45 (60%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
V+Q +L+H D I KEL IVQM Q K+A + V++ L +G
Sbjct: 828 VVQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 872
Score = 28.7 bits (61), Expect = 2.3
Identities = 9/19 (47%), Positives = 14/19 (73%)
Frame = +3
Query: 261 VLKKFYGHIVSLSTHAIKC 317
++ F+GH+V+LSTH C
Sbjct: 771 IISTFFGHVVTLSTHPYGC 789
>At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containing
protein
Length = 964
Score = 37.1 bits (82), Expect = 0.007
Identities = 19/45 (42%), Positives = 27/45 (60%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
V+Q +L+H D I KEL IVQM Q K+A + V++ L +G
Sbjct: 824 VVQHVLEHGKPDERTVIIKELAGKIVQMSQQKFASNVVEKCLTFG 868
Score = 28.7 bits (61), Expect = 2.3
Identities = 9/19 (47%), Positives = 14/19 (73%)
Frame = +3
Query: 261 VLKKFYGHIVSLSTHAIKC 317
++ F+GH+V+LSTH C
Sbjct: 767 IISTFFGHVVTLSTHPYGC 785
>At3g16810.1 68416.m02147 pumilio/Puf RNA-binding domain-containing
protein contains Pfam profile:PF00806 Pumilio-family RNA
binding domains
Length = 641
Score = 35.5 bits (78), Expect = 0.020
Identities = 21/77 (27%), Positives = 39/77 (50%)
Frame = +1
Query: 1 RKVVKSDFKINSCKELHNMLKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDII 180
R + K D + E +KG+ IA++H SRV+Q +K + + + EL
Sbjct: 101 RNIGKED-RSKLISEAIRKMKGKVPEIAVSHVSSRVLQTCVKFCSQAEKDVLFTELQPQF 159
Query: 181 VQMGQSKYAHHSVKRIL 231
+ + +KYA H ++++L
Sbjct: 160 LNLASNKYAVHFIQKML 176
>At3g20250.1 68416.m02565 pumilio/Puf RNA-binding domain-containing
protein contains Pfam profile: PF00806 Pumilio-family
RNA binding domains (aka PUM-HD, Pumilio homology
domain) (8 copies at C-terminus)
Length = 961
Score = 32.3 bits (70), Expect = 0.19
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Frame = +1
Query: 76 SIALTHDL--SRVIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKY 237
+ AL HD + V Q +L+ D +I ++L +VQM Q KYA + V++ L++
Sbjct: 814 AFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASNVVEKCLEH 869
>At3g10360.1 68416.m01242 pumilio/Puf RNA-binding domain-containing
protein similar to RNA binding protein PufA GB:AAD39751
[Dictyostelium discoideum] and similar to Pumilio
protein GB:A46221 [Drosophila sp.]
Length = 1003
Score = 32.3 bits (70), Expect = 0.19
Identities = 16/45 (35%), Positives = 27/45 (60%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILKYG 240
VIQ +++H +EI +L IV+M Q K+A + V++ L +G
Sbjct: 862 VIQHIIQHGKPHERSEIINKLAGQIVKMSQQKFASNVVEKCLTFG 906
>At5g43110.1 68418.m05263 pumilio/Puf RNA-binding domain-containing
protein contains similarity to RNA-binding protein
Length = 518
Score = 29.5 bits (63), Expect = 1.3
Identities = 10/43 (23%), Positives = 28/43 (65%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILK 234
V+Q +++ + +I+ + ++L+ + ++KY H+V+++LK
Sbjct: 405 VVQYIVELNNRYLIDALVRQLIGNYAHLARNKYGSHAVQKLLK 447
>At3g12850.1 68416.m01602 COP9 signalosome complex-related / CSN
complex-related low similarity to SP|P45432 COP9
signalosome complex subunit 1 (CSN complex subunit 1)
(COP11 protein) (FUSCA protein FUS6) {Arabidopsis
thaliana}
Length = 367
Score = 28.7 bits (61), Expect = 2.3
Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Frame = +1
Query: 22 FKINSCKELHNMLKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDIIVQMGQSK 201
FKI+ K L N+L+ +Y+ A + + ++ +P I ++ L ++I G
Sbjct: 187 FKIDCFKSLSNLLESKYQVTAEGNAVDTIV------NP---IGQVASHLENVIKPFGPCD 237
Query: 202 YAHHSVKRILK-YGTDCISM 258
Y +K++L + TDC+++
Sbjct: 238 YLIDVIKKLLAGHFTDCMTL 257
>At4g08560.1 68417.m01408 pumilio/Puf RNA-binding domain-containing
protein low similarity to RNA binding protein PufA
[Dictyostelium discoideum] GI:5106561; contains Pfam
profile PF00806: Pumilio-family RNA binding repeat
Length = 477
Score = 28.3 bits (60), Expect = 3.0
Identities = 13/43 (30%), Positives = 24/43 (55%)
Frame = +1
Query: 106 VIQVLLKHSPEDIINEITKELLDIIVQMGQSKYAHHSVKRILK 234
V+Q LL+ ++ + ++K L VQ+ KY H V++ L+
Sbjct: 361 VVQYLLRLKDYEVTSALSKHLDGNYVQLSYDKYGSHVVQKCLE 403
>At1g22400.1 68414.m02801 UDP-glucoronosyl/UDP-glucosyl transferase
family protein contains Pfam profile: PF00201
UDP-glucoronosyl and UDP-glucosyl transferase
Length = 489
Score = 27.9 bits (59), Expect = 4.0
Identities = 14/36 (38%), Positives = 19/36 (52%)
Frame = -2
Query: 294 GIQYVHKTSSKPHANAICSIFQYSLNGMMRILRLTH 187
G Q +H S KPH + Q +N MMR+ +L H
Sbjct: 2 GSQIIHN-SQKPHVVCVPYPAQGHINPMMRVAKLLH 36
>At1g78160.1 68414.m09108 pumilio/Puf RNA-binding domain-containing
protein contains Pfam profile: PF00806 Pumilio-family
RNA binding domains (aka PUM-HD, Pumilio homology
domain) (8 copies at C-terminal half of protein)
Length = 650
Score = 27.1 bits (57), Expect = 7.0
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Frame = +1
Query: 58 LKGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDI--IVQMGQSKYAHHSVKRIL 231
LKG Y +++ S +++ L H PE +I +EL+ + Q+ Q YA+ ++ L
Sbjct: 554 LKGHYVQLSMQKFSSHMVERCLMHCPES-RPQIVRELVSVPHFDQLLQDPYANFVIQAAL 612
>At5g17180.1 68418.m02013 hypothetical protein
Length = 123
Score = 26.6 bits (56), Expect = 9.3
Identities = 10/17 (58%), Positives = 13/17 (76%)
Frame = +1
Query: 115 VLLKHSPEDIINEITKE 165
V LKH P+D+IN + KE
Sbjct: 77 VSLKHKPKDVINVVQKE 93
>At1g50730.1 68414.m05705 expressed protein
Length = 1013
Score = 26.6 bits (56), Expect = 9.3
Identities = 10/40 (25%), Positives = 25/40 (62%)
Frame = +1
Query: 61 KGQYKSIALTHDLSRVIQVLLKHSPEDIINEITKELLDII 180
+ +++S + +S ++ LLK P ++++ + E+LD+I
Sbjct: 404 RNKFQSSYNSSHVSILLHYLLKELPSELVSSLAMEILDMI 443
Database: arabidopsis
Posted date: Oct 4, 2007 10:56 AM
Number of letters in database: 12,070,560
Number of sequences in database: 28,952
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.279 0.0580 0.190
Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 9,820,700
Number of Sequences: 28952
Number of extensions: 179964
Number of successful extensions: 489
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 471
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 489
length of database: 12,070,560
effective HSP length: 76
effective length of database: 9,870,208
effective search space used: 878448512
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
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