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= BGIBMGA001870-TA|BGIBMGA001870-PA|IPR000504|RNA-binding region
RNP-1 (RNA recognition motif)
(619 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At1g32790.1 68414.m04042 RNA-binding protein, putative similar t... 50 3e-06
At5g24440.1 68418.m02880 RNA-binding protein, putative 46 6e-05
At4g10610.1 68417.m01735 RNA-binding protein, putative 45 1e-04
At3g49390.1 68416.m05399 RNA-binding protein, putative RNA-bindi... 45 1e-04
At3g14450.1 68416.m01831 RNA-binding protein, putative contains ... 44 4e-04
At1g53650.1 68414.m06105 RNA-binding protein, putative similar t... 43 7e-04
At3g23900.1 68416.m03003 RNA recognition motif (RRM)-containing ... 40 0.005
At1g67950.2 68414.m07760 RNA recognition motif (RRM)-containing ... 39 0.009
At1g67950.1 68414.m07761 RNA recognition motif (RRM)-containing ... 39 0.009
At1g67950.3 68414.m07762 RNA recognition motif (RRM)-containing ... 38 0.015
At5g32450.1 68418.m03826 RNA recognition motif (RRM)-containing ... 37 0.046
At1g49760.1 68414.m05580 polyadenylate-binding protein, putative... 36 0.11
At5g51730.1 68418.m06415 expressed protein 33 0.43
At5g09880.1 68418.m01142 RNA recognition motif (RRM)-containing ... 33 0.43
At3g47120.1 68416.m05116 RNA recognition motif (RRM)-containing ... 33 0.56
At3g18610.1 68416.m02365 nucleolin, putative contains Pfam profi... 33 0.56
At2g16940.1 68415.m01952 RNA recognition motif (RRM)-containing ... 33 0.56
At1g67950.4 68414.m07759 RNA recognition motif (RRM)-containing ... 33 0.74
At2g23350.1 68415.m02788 polyadenylate-binding protein, putative... 32 1.3
At5g12190.1 68418.m01430 RNA recognition motif (RRM)-containing ... 31 2.3
>At1g32790.1 68414.m04042 RNA-binding protein, putative similar to
RNA-binding protein GB:CAB40027 GI:4539439 from
[Arabidopsis thaliana]
Length = 358
Score = 50.4 bits (115), Expect = 3e-06
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 157 SRKIEEIRRTVLVADTGS-LTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEA 215
+++ + IRRTV V+D +T +QL F G+V R C L++A IE T++E
Sbjct: 165 AQREDVIRRTVYVSDLDQQVTEEQLAGLFVSCGQVVDCRICGDPNSVLRFAFIEFTDEEG 224
Query: 216 VIKALHLNGSTLDGQTIQVYHATQSI 241
+ AL+L+G+ L ++V + +I
Sbjct: 225 AMTALNLSGTMLGFYPVKVLPSKTAI 250
>At5g24440.1 68418.m02880 RNA-binding protein, putative
Length = 320
Score = 46.4 bits (105), Expect = 6e-05
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Query: 163 IRRTVLVADTGS-LTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEAVIKALH 221
I+RTV V+D + +T +QL F G+V R C L++A IE T+ E AL
Sbjct: 135 IKRTVYVSDIDNQVTEEQLASLFLSCGQVVDCRMCGDYKSILRFAFIEFTDAEGARSALR 194
Query: 222 LNGSTLDGQTIQVYHATQSICKPQTKSNEAAQREIEE 258
+G+ I+V+ + +I ++ E+E+
Sbjct: 195 KSGTMFGSHPIRVFMSKTAIAPVNPSFLPQSKDELEK 231
>At4g10610.1 68417.m01735 RNA-binding protein, putative
Length = 336
Score = 45.2 bits (102), Expect = 1e-04
Identities = 28/86 (32%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 157 SRKIEEIRRTVLVADTGS-LTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEA 215
+++ E IRRTV V+D +T +QL F G+V R C L++A IE T++
Sbjct: 142 AQREEIIRRTVYVSDIDQQVTEEQLAGLFIGFGQVVDCRICGDPNSVLRFAFIEFTDEVG 201
Query: 216 VIKALHLNGSTLDGQTIQVYHATQSI 241
AL+L+G+ L ++V + +I
Sbjct: 202 ARTALNLSGTMLGFYPVKVMPSKTAI 227
>At3g49390.1 68416.m05399 RNA-binding protein, putative RNA-binding
protein RBP37, Arabidopsis thaliana, PIR:T04196
Length = 353
Score = 45.2 bits (102), Expect = 1e-04
Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 157 SRKIEEIRRTVLVADTGS-LTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEA 215
++K + IRRTV V+D +T + L F G+V R C L++A IE T +E
Sbjct: 161 AQKDDVIRRTVYVSDIDQQVTEENLAGVFINCGQVVDCRVCGDPNSVLRFAFIEFTNEEG 220
Query: 216 VIKALHLNGSTLDGQTIQVYHATQSI 241
AL ++G+ L ++V + +I
Sbjct: 221 ARAALSMSGTVLGFYPLKVLPSKTAI 246
>At3g14450.1 68416.m01831 RNA-binding protein, putative contains
Pfam profile: PF00076 RNA recognition motif. (a.k.a.
RRM, RBD, or RNP domain) (2 copies)
Length = 327
Score = 43.6 bits (98), Expect = 4e-04
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 157 SRKIEEIRRTVLVADTG-SLTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEA 215
+++ + IRRTV V+D S+T + L F G+V R C L++A +E + +
Sbjct: 133 AQREDSIRRTVYVSDIDQSVTEEGLAGLFSNCGQVVDCRICGDPHSVLRFAFVEFADDQG 192
Query: 216 VIKALHLNGSTLDGQTIQVYHATQSI 241
+AL L G+ L ++V + +I
Sbjct: 193 AHEALSLGGTMLGFYPVRVLPSKTAI 218
>At1g53650.1 68414.m06105 RNA-binding protein, putative similar to
RNA-binding protein GB:AAA86641 GI:1174153 from
[Arabidopsis thaliana]
Length = 314
Score = 42.7 bits (96), Expect = 7e-04
Identities = 24/86 (27%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 157 SRKIEEIRRTVLVADTG-SLTSQQLIDHFCQAGEVKYMRFCSRDVDTLKYALIEMTEQEA 215
+++ + IRRTV V+D S+T + L F G+V R C L++A +E ++ +
Sbjct: 120 AQREDSIRRTVYVSDIDQSVTEEGLAGLFSSCGQVVDCRICGDPNSVLRFAFVEFSDDQG 179
Query: 216 VIKALHLNGSTLDGQTIQVYHATQSI 241
AL L G+ + ++V + +I
Sbjct: 180 ARSALSLGGTMIGYYPVRVLPSKTAI 205
>At3g23900.1 68416.m03003 RNA recognition motif (RRM)-containing
protein
Length = 987
Score = 39.9 bits (89), Expect = 0.005
Identities = 29/99 (29%), Positives = 48/99 (48%), Gaps = 13/99 (13%)
Query: 7 RVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNV 66
+ +QV+N++P T +Q++ LF + G T+ D S I Y++Y +S
Sbjct: 351 KFLQVSNLSPSLTTEQLRQLFSFCG---------TVVDCSITDSKHIAYIEYSNSEEATA 401
Query: 67 AQHMTNTVFIDRALIVIPVQSGEIPDEHKALEMSSNGTL 105
A + NT RAL V +S +P HK +S+ +L
Sbjct: 402 ALALNNTEVFGRALNVEIAKS--LP--HKPSSNNSSSSL 436
>At1g67950.2 68414.m07760 RNA recognition motif (RRM)-containing
protein
Length = 279
Score = 39.1 bits (87), Expect = 0.009
Identities = 26/104 (25%), Positives = 50/104 (48%), Gaps = 9/104 (8%)
Query: 2 VSGSTRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDS 61
VSG + ++++N++ +K ++ F + G I + + ++ S++ YV + DS
Sbjct: 26 VSG-VKTVKISNVSLIVSKKDVKEFFSFSGDIQYVEMRSETQE------SQVAYVTFKDS 78
Query: 62 ANVNVAQHMTNTVFIDRALIVIPVQSGEIPDEHKAL--EMSSNG 103
A +T V D + + P + ++P E AL E S NG
Sbjct: 79 QGAETAMLLTGAVIADLRVSITPAVNYQLPPEALALDSEHSFNG 122
>At1g67950.1 68414.m07761 RNA recognition motif (RRM)-containing
protein
Length = 278
Score = 39.1 bits (87), Expect = 0.009
Identities = 26/104 (25%), Positives = 50/104 (48%), Gaps = 9/104 (8%)
Query: 2 VSGSTRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDS 61
VSG + ++++N++ +K ++ F + G I + + ++ S++ YV + DS
Sbjct: 25 VSG-VKTVKISNVSLIVSKKDVKEFFSFSGDIQYVEMRSETQE------SQVAYVTFKDS 77
Query: 62 ANVNVAQHMTNTVFIDRALIVIPVQSGEIPDEHKAL--EMSSNG 103
A +T V D + + P + ++P E AL E S NG
Sbjct: 78 QGAETAMLLTGAVIADLRVSITPAVNYQLPPEALALDSEHSFNG 121
>At1g67950.3 68414.m07762 RNA recognition motif (RRM)-containing
protein
Length = 279
Score = 38.3 bits (85), Expect = 0.015
Identities = 22/97 (22%), Positives = 47/97 (48%), Gaps = 7/97 (7%)
Query: 2 VSGSTRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDS 61
VSG + ++++N++ +K ++ F + G I + + ++ S++ YV + DS
Sbjct: 25 VSG-VKTVKISNVSLIVSKKDVKEFFSFSGDIQYVEMRSETQE------SQVAYVTFKDS 77
Query: 62 ANVNVAQHMTNTVFIDRALIVIPVQSGEIPDEHKALE 98
A +T V D + + P + ++P E AL+
Sbjct: 78 QGAETAMLLTGAVIADLRVSITPAVNYQLPPEALALD 114
>At5g32450.1 68418.m03826 RNA recognition motif (RRM)-containing
protein various predicted proteins, Arabidopsis thaliana
and others
Length = 267
Score = 36.7 bits (81), Expect = 0.046
Identities = 22/98 (22%), Positives = 46/98 (46%), Gaps = 6/98 (6%)
Query: 5 STRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANV 64
+TR +QV N++ AT+ ++ F + G I+ I + QSRI +V + D +
Sbjct: 3 TTRSVQVNNVSDLATEREIHEFFSFSGDIEHIEIQKEFG------QSRIAFVTFTDPKAL 56
Query: 65 NVAQHMTNTVFIDRALIVIPVQSGEIPDEHKALEMSSN 102
+A ++ +D+ + + ++ E + + M N
Sbjct: 57 EIALLLSGATIVDQIVTITRAENYVQRRETQEVRMLDN 94
>At1g49760.1 68414.m05580 polyadenylate-binding protein, putative /
PABP, putative similar to poly(A)-binding protein
GB:AAF66825 GI:7673359 from [Nicotiana tabacum]
Length = 671
Score = 35.5 bits (78), Expect = 0.11
Identities = 23/70 (32%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 174 SLTSQQLIDHFCQAGEVKYMRFCSRDVDT---LKYALIEMTEQEAVIKALH-LNGSTLDG 229
++T QL + F QAG+V +R C RD+ T L Y + + +AL+ LN L+G
Sbjct: 55 TVTDSQLFEAFTQAGQVVSVRVC-RDMTTRRSLGYGYVNYATPQDASRALNELNFMALNG 113
Query: 230 QTIQVYHATQ 239
+ I+V ++ +
Sbjct: 114 RAIRVMYSVR 123
>At5g51730.1 68418.m06415 expressed protein
Length = 412
Score = 33.5 bits (73), Expect = 0.43
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 177 SQQLIDHFCQAGEVKYMRFCSRDVD--TLKYALIEMTEQEAVIKALHLNGSTLDGQTIQV 234
++ L++HF G + + F + D LK+ I M + AL LNGS + G ++V
Sbjct: 210 ARALLEHFSPCGMISRIYFQTNDAGEAVLKHVFIVMLQ--GTEDALKLNGSDMGGCNLEV 267
Query: 235 YHATQ 239
+ AT+
Sbjct: 268 HDATE 272
>At5g09880.1 68418.m01142 RNA recognition motif (RRM)-containing
protein
Length = 527
Score = 33.5 bits (73), Expect = 0.43
Identities = 18/71 (25%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 17 QATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNVAQHMTNTVFI 76
+AT+ + F GK+ D+RL I D + + Y+++YD +V +A ++ +F+
Sbjct: 178 KATERDVYEFFSKAGKVRDVRL---IMDRNSRRSKGVGYIEFYDVMSVPMAIALSGQLFL 234
Query: 77 DRALIVIPVQS 87
+ ++V P ++
Sbjct: 235 GQPVMVKPSEA 245
>At3g47120.1 68416.m05116 RNA recognition motif (RRM)-containing
protein contains InterPro entry IPR000504: RNA-binding
region RNP-1 (RNA recognition motif) (RRM)
Length = 352
Score = 33.1 bits (72), Expect = 0.56
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 9/94 (9%)
Query: 175 LTSQQLIDHFCQAGEVKYMRFCSRDVDTLK---YALIEMTEQEAVIKAL-HLNGSTLDGQ 230
LT L+ F Q GE+ + RD T K +A + +Q + I A+ +LNG+ + G+
Sbjct: 47 LTEGDLLAVFSQYGEIVDVNLI-RDKGTGKSKGFAFLAYEDQRSTILAVDNLNGALVLGR 105
Query: 231 TIQVYHATQSICKPQTKSNEAAQREIEEA--MCR 262
TI+V H K + +E +R+ EA +CR
Sbjct: 106 TIKVDHC--GAYKKHEEEDEETRRQNREARGVCR 137
>At3g18610.1 68416.m02365 nucleolin, putative contains Pfam profile:
PF00076 RNA recognition motif
Length = 636
Score = 33.1 bits (72), Expect = 0.56
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 184 FCQAGEVKYMRFCSRDVDTLK-YALIEMTEQEAVIKALHLNGSTLDGQTIQV 234
F +AGEV +R S D + K Y IE E KAL +NG L G+ +++
Sbjct: 404 FKEAGEVVDVRLSSFDDGSFKGYGHIEFASPEEAQKALEMNGKLLLGRDVRL 455
>At2g16940.1 68415.m01952 RNA recognition motif (RRM)-containing
protein
Length = 561
Score = 33.1 bits (72), Expect = 0.56
Identities = 24/101 (23%), Positives = 47/101 (46%), Gaps = 3/101 (2%)
Query: 7 RVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNV 66
R + IA +AT+ + F GK+ D+R+ I D I YV++YD+ +V +
Sbjct: 182 RTVFAYQIALRATERDVYEFFSRAGKVRDVRI---IMDRISRRSRGIGYVEFYDTMSVPM 238
Query: 67 AQHMTNTVFIDRALIVIPVQSGEIPDEHKALEMSSNGTLVP 107
A ++ + + ++V P ++ + + + G L P
Sbjct: 239 AIALSGQPLLGQPVMVKPSEAEKNLVQSTTAAAGAGGMLGP 279
>At1g67950.4 68414.m07759 RNA recognition motif (RRM)-containing
protein
Length = 219
Score = 32.7 bits (71), Expect = 0.74
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 50 QSRICYVKYYDSANVNVAQHMTNTVFIDRALIVIPVQSGEIPDEHKAL--EMSSNG 103
+S++ YV + DS A +T V D + + P + ++P E AL E S NG
Sbjct: 7 ESQVAYVTFKDSQGAETAMLLTGAVIADLRVSITPAVNYQLPPEALALDSEHSFNG 62
>At2g23350.1 68415.m02788 polyadenylate-binding protein, putative /
PABP, putative
Length = 662
Score = 31.9 bits (69), Expect = 1.3
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 174 SLTSQQLIDHFCQAGEVKYMRFCSRDVDT---LKYALIEMTEQEAVIKALH-LNGSTLDG 229
++T QL D+F + +V +R C RD T L Y + + + KA+ LN S L+G
Sbjct: 56 NVTDSQLYDYFTEVCQVVSVRVC-RDAATNTSLGYGYVNYSNTDDAEKAMQKLNYSYLNG 114
Query: 230 QTIQVYHATQ 239
+ I++ ++++
Sbjct: 115 KMIRITYSSR 124
>At5g12190.1 68418.m01430 RNA recognition motif (RRM)-containing
protein similar to SP|P52298 20 kDa nuclear cap binding
protein (NCBP 20 kDa subunit) (CBP20) (NCBP interacting
protein 1) (NIP1) {Homo sapiens}; contains InterPro
entry IPR000504: RNA-binding region RNP-1 (RNA
recognition motif) (RRM)
Length = 124
Score = 31.1 bits (67), Expect = 2.3
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 7 RVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNV 66
RV+ V N+ T ++M +FG G I IR+ D + + + Y YD+ N
Sbjct: 19 RVLYVRNLPFNITSEEMYDIFGKYGAIRQIRIG---CDKATKGTAFVVYEDIYDAK--NA 73
Query: 67 AQHMTNTVFIDRALIVIPVQSGEI 90
H++ +R LIV+ Q ++
Sbjct: 74 VDHLSGFNVANRYLIVLYYQHAKM 97
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
0.313 0.130 0.371
Gapped
Lambda K H
0.279 0.0580 0.190
Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 9,178,995
Number of Sequences: 28952
Number of extensions: 312868
Number of successful extensions: 793
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 780
Number of HSP's gapped (non-prelim): 21
length of query: 619
length of database: 12,070,560
effective HSP length: 85
effective length of query: 534
effective length of database: 9,609,640
effective search space: 5131547760
effective search space used: 5131547760
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 42 (21.9 bits)
S2: 62 (29.1 bits)
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