Last updated: 2022/11/18
BLASTP 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= BGIBMGA000756-TA|BGIBMGA000756-PA|IPR003029|RNA binding S1,
IPR008994|Nucleic acid-binding, OB-fold
(250 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protei... 36 0.020
At5g66270.1 68418.m08356 zinc finger (CCCH-type) family protein ... 30 1.7
At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containi... 29 3.0
At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containi... 29 3.0
At5g51670.1 68418.m06406 expressed protein contains Pfam domain ... 29 3.9
At2g37280.1 68415.m04573 ABC transporter family protein similar ... 29 3.9
At4g39880.1 68417.m05650 ribosomal protein L23 family protein co... 28 5.2
At4g32940.1 68417.m04687 vacuolar processing enzyme gamma / gamm... 28 6.9
At4g24550.2 68417.m03519 clathrin adaptor complexes medium subun... 28 6.9
At4g24550.1 68417.m03518 clathrin adaptor complexes medium subun... 28 6.9
At5g04895.1 68418.m00514 helicase domain-containing protein simi... 27 9.1
At3g02320.1 68416.m00214 N2,N2-dimethylguanosine tRNA methyltran... 27 9.1
At2g32590.1 68415.m03979 barren family protein low similarity to... 27 9.1
At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containi... 27 9.1
>At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protein
similar to SP|Q05022 rRNA biogenesis protein RRP5
{Saccharomyces cerevisiae}; contains Pfam profile
PF00575: S1 RNA binding domain
Length = 1838
Score = 36.3 bits (80), Expect = 0.020
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 178 IFQAAVSSVEDHGYVMDLGIPNTTAFLP-KKDANPE 212
+F A V S+EDHG ++ G+P+ T F+ D N E
Sbjct: 170 VFSANVKSIEDHGSILHFGLPSITGFIEISDDGNQE 205
Score = 35.9 bits (79), Expect = 0.026
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 71 LSSKSLRPGINLLGRVIHVSDVKIKVSMPCKLLGNVMACHISESYNKLLEAY 122
+++K++ PG+ LLG V V+ I +S+P L G V A +S+ ++ +E +
Sbjct: 120 ITTKNISPGMKLLGVVTEVNQKDIVISLPGGLRGLVRASEVSDFTDRGIEVF 171
>At5g66270.1 68418.m08356 zinc finger (CCCH-type) family protein
contains Pfam domain, PF00642: Zinc finger
C-x8-C-x5-C-x3-H type (and similar)
Length = 449
Score = 29.9 bits (64), Expect = 1.7
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 81 NLLGRVIHVSDVKIKVSMPCKLLGNVMACHISES 114
N GRV H VK+++ PC C + ES
Sbjct: 386 NYKGRVDHKKIVKVRIQKPCMYFNRPKGCRMGES 419
>At2g29190.1 68415.m03548 pumilio/Puf RNA-binding domain-containing
protein
Length = 972
Score = 29.1 bits (62), Expect = 3.0
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 63 KLNNNLIFLSSKSLRPGINLLGRVIHVSDVKIKVSMPCKLLGNVMACHISESYNKLLEAY 122
KL +N++ LS + G ++ + I V D+ K+ M +L G+VM C ++ N +++
Sbjct: 706 KLFDNVLPLSLQMY--GCRVIQKAIEVVDLDQKIKMVKELDGHVMRCVRDQNGNHVVQKC 763
Query: 123 VE 124
+E
Sbjct: 764 IE 765
>At2g29140.1 68415.m03542 pumilio/Puf RNA-binding domain-containing
protein
Length = 964
Score = 29.1 bits (62), Expect = 3.0
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 63 KLNNNLIFLSSKSLRPGINLLGRVIHVSDVKIKVSMPCKLLGNVMACHISESYNKLLEAY 122
KL +N++ LS + G ++ + I V D+ K+ M +L G+VM C ++ N +++
Sbjct: 698 KLIDNVLPLSLQMY--GCRVIQKAIEVVDLDQKIQMVKELDGHVMRCVRDQNGNHVVQKC 755
Query: 123 VE 124
+E
Sbjct: 756 IE 757
>At5g51670.1 68418.m06406 expressed protein contains Pfam domain
PF05003: protein of unknown function (DUF668)
Length = 474
Score = 28.7 bits (61), Expect = 3.9
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 104 GNVMACHISESYNKLLEAYVEDKTEKVRELSQM 136
G VM C +E+ NK +E YV T RE+ +M
Sbjct: 137 GWVMNCKDTEAKNKKIERYVSVTTALYREMEEM 169
>At2g37280.1 68415.m04573 ABC transporter family protein similar to
PDR5-like ABC transporter GI:1514643 from [Spirodela
polyrhiza]
Length = 1413
Score = 28.7 bits (61), Expect = 3.9
Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 2/84 (2%)
Query: 120 EAYVEDKTEKVRELSQMFKPGQYIAVSVVELAPGNTMLTTMPQHVNSGKRHTEIKKGAIF 179
+ Y E K + + E++ F+PG A+ + A T+L + SG EI+
Sbjct: 831 QGYNEKKLQLLSEITGAFRPGVLTALMGISGAGKTTLLDVLAGRKTSGYIEGEIRISGFL 890
Query: 180 QAAVSSVEDHGYV--MDLGIPNTT 201
+ + GY D+ P+ T
Sbjct: 891 KVQETFARVSGYCEQTDIHSPSIT 914
>At4g39880.1 68417.m05650 ribosomal protein L23 family protein
contains Pfam profile PF00276: ribosomal protein L23
Length = 178
Score = 28.3 bits (60), Expect = 5.2
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 79 GINLLGRVIHVSDVKIKVSMPCKL 102
G L GRV+H +++ IK+ MP KL
Sbjct: 2 GSRLGGRVVHFANLPIKLLMPAKL 25
>At4g32940.1 68417.m04687 vacuolar processing enzyme gamma /
gamma-VPE nearly identical to SP|Q39119 Vacuolar
processing enzyme, gamma-isozyme precursor (EC 3.4.22.-)
(Gamma-VPE) {Arabidopsis thaliana}
Length = 494
Score = 27.9 bits (59), Expect = 6.9
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 46 GDDGYLSDEAQDYLKTHKLNNNLIFLSSKSLRP 78
GD G D Y+ T+ N+N F + SL+P
Sbjct: 315 GDVGISKDNLDLYMGTNPANDNFTFADANSLKP 347
>At4g24550.2 68417.m03519 clathrin adaptor complexes medium subunit
family protein contains Pfam profile: PF00928 adaptor
complexes medium subunit family
Length = 451
Score = 27.9 bits (59), Expect = 6.9
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 152 PGNTMLTTMPQHVNSGKRHTEIKKGAIFQAAVSSVEDHGYVMDLGIPNTTAFLPKKDANP 211
PG + ++ + G+R EI I + +V+ GY++ I T NP
Sbjct: 166 PGTAVTKSVVANDPGGRRREEIFVDIIEKISVT-FSSSGYILTSEIDGTIQMKSYLSGNP 224
Query: 212 EIDLGKSVNLN 222
EI L + +LN
Sbjct: 225 EIRLALNEDLN 235
>At4g24550.1 68417.m03518 clathrin adaptor complexes medium subunit
family protein contains Pfam profile: PF00928 adaptor
complexes medium subunit family
Length = 380
Score = 27.9 bits (59), Expect = 6.9
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 152 PGNTMLTTMPQHVNSGKRHTEIKKGAIFQAAVSSVEDHGYVMDLGIPNTTAFLPKKDANP 211
PG + ++ + G+R EI I + +V+ GY++ I T NP
Sbjct: 166 PGTAVTKSVVANDPGGRRREEIFVDIIEKISVT-FSSSGYILTSEIDGTIQMKSYLSGNP 224
Query: 212 EIDLGKSVNLN 222
EI L + +LN
Sbjct: 225 EIRLALNEDLN 235
>At5g04895.1 68418.m00514 helicase domain-containing protein similar
to DEIH-box RNA/DNA helicase [Arabidopsis thaliana]
GI:5881579;contains Pfam profiles PF04408: Helicase
associated domain (HA2), PF00271: Helicase conserved
C-terminal domain, PF00035: Double-stranded RNA binding
motif
Length = 581
Score = 27.5 bits (58), Expect = 9.1
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 110 HISESYNKLLEAYVEDKTEKVRELSQMFKPGQYIAVSVVELAPGN 154
+++ESY KL E + +K + K G+Y+ ++V EL G+
Sbjct: 404 NLAESYVKLKEELDKLLQKKANPSMDIHKEGKYLMLAVQELVAGD 448
>At3g02320.1 68416.m00214 N2,N2-dimethylguanosine tRNA
methyltransferase family protein similar to
N2,N2-dimethylguanosine tRNA methyltransferase [Homo
sapiens] GI:11066198; contains Pfam profile PF02005:
N2,N2-dimethylguanosine tRNA methyltransferase
Length = 599
Score = 27.5 bits (58), Expect = 9.1
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 12/84 (14%)
Query: 166 SGKRHTEIKKGAIFQAAVSSVEDHGYVMDLGIP--NTTAFLP------KKDANPEIDLGK 217
S ++T +K ++Q + H + +P N+ +LP K+D N GK
Sbjct: 310 SAMKNTPLKLSYVYQC-IGCDSFHLQPVGRSLPKNNSVRYLPAIGPVVKQDCN---HCGK 365
Query: 218 SVNLNHPLKNAPMRTPKPIYSLLS 241
N+ P+ +APM P+ + S+L+
Sbjct: 366 KYNMGGPIWSAPMHDPEWVTSILN 389
>At2g32590.1 68415.m03979 barren family protein low similarity to
SP|Q9Y7R3 Condensin complex subunit 2 (p105)
{Schizosaccharomyces pombe}; contains Pfam profile
PF05786: Barren protein
Length = 704
Score = 27.5 bits (58), Expect = 9.1
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 206 KKDANPEIDLGKSVNLNHPLKNAPMRTPKPIYSLLSLKQNP 246
KK A PE+D K++ P AP + PK + LL + P
Sbjct: 470 KKQAEPELDFAKALEEEMPDIFAPPKNPKTL--LLPASRTP 508
>At2g29200.1 68415.m03549 pumilio/Puf RNA-binding domain-containing
protein similar to BPM [Hordeum vulgare] GI:20513851
Length = 968
Score = 27.5 bits (58), Expect = 9.1
Identities = 13/46 (28%), Positives = 26/46 (56%)
Query: 79 GINLLGRVIHVSDVKIKVSMPCKLLGNVMACHISESYNKLLEAYVE 124
G ++ + I V D+ K+ M +L G+VM C ++ N +++ +E
Sbjct: 716 GCRVIQKAIEVVDLDQKIKMVKELDGHVMRCVRDQNGNHVVQKCIE 761
Database: arabidopsis
Posted date: Oct 3, 2007 3:31 PM
Number of letters in database: 12,070,560
Number of sequences in database: 28,952
Lambda K H
0.315 0.133 0.382
Gapped
Lambda K H
0.279 0.0580 0.190
Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 5,732,935
Number of Sequences: 28952
Number of extensions: 228377
Number of successful extensions: 421
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 409
Number of HSP's gapped (non-prelim): 16
length of query: 250
length of database: 12,070,560
effective HSP length: 79
effective length of query: 171
effective length of database: 9,783,352
effective search space: 1672953192
effective search space used: 1672953192
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 42 (22.0 bits)
S2: 58 (27.5 bits)
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