BLASTP 2.2.23 [Feb-03-2010]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Reference for compositional score matrix adjustment:
Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= Os06g0219600 Os06g0219600|AK060429
(204 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os06g0219600 Similar to Poly(A)-binding protein II-like 341 2e-94
Os02g0757900 Similar to Poly(A)-binding protein II-like 266 6e-72
AK110265 114 4e-26
Os04g0306800 RNA-binding region RNP-1 (RNA recognition moti... 75 4e-14
Os08g0504600 RNA-binding region RNP-1 (RNA recognition moti... 70 7e-13
>Os06g0219600 Similar to Poly(A)-binding protein II-like
Length = 204
Score = 341 bits (874), Expect = 2e-94, Method: Compositional matrix adjust.
Identities = 167/179 (93%), Positives = 167/179 (93%)
Query: 1 MADEEHEVYGQEIPLDGEDVDMGAPGDEAAKMQELDXXXXXXXXXXXXANALREMQTKVA 60
MADEEHEVYGQEIPLDGEDVDMGAPGDEAAKMQELD ANALREMQTKVA
Sbjct: 1 MADEEHEVYGQEIPLDGEDVDMGAPGDEAAKMQELDEMKRRLKEMEEEANALREMQTKVA 60
Query: 61 KEMQGLDPNASSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTDKFGQ 120
KEMQGLDPNASSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTDKFGQ
Sbjct: 61 KEMQGLDPNASSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTDKFGQ 120
Query: 121 PKGFAYVEFLEVEAVQEAVKLNESELHGRQIKVAPKRTNVPGMKQPRGGRGFGGHPYMR 179
PKGFAYVEFLEVEAVQEAVKLNESELHGRQIKVAPKRTNVPGMKQPRGGRGFGGHPYMR
Sbjct: 121 PKGFAYVEFLEVEAVQEAVKLNESELHGRQIKVAPKRTNVPGMKQPRGGRGFGGHPYMR 179
>Os02g0757900 Similar to Poly(A)-binding protein II-like
Length = 212
Score = 266 bits (681), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 135/183 (73%), Positives = 151/183 (82%), Gaps = 6/183 (3%)
Query: 1 MADEEHEVYGQEIP----LDGEDVDMGAPGDEAAKMQELDXXXXXXXXXXXXANALREMQ 56
M +EEHEVYGQEIP +DG DVDM + GD+AAK+QELD A ALR+MQ
Sbjct: 1 MDEEEHEVYGQEIPEDGDMDGADVDMASGGDDAAKLQELDQMKRRLKEMEEEAAALRDMQ 60
Query: 57 TKVAKEMQGLDPNASSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTD 116
KVAKEMQG DP+AS++E+KE++DARSVYVGNVDYACTPEEVQQHF +CGTVNRVTILTD
Sbjct: 61 AKVAKEMQGGDPSASTAEAKEQVDARSVYVGNVDYACTPEEVQQHFQACGTVNRVTILTD 120
Query: 117 KFGQPKGFAYVEFLEVEAVQEAVKLNESELHGRQIKVAPKRTNVPGMKQ--PRGGRGFGG 174
KFGQPKGFAYVEFLE EAVQEA+ LNESELHGRQIKVAPKRTNVPGMKQ PRG + G
Sbjct: 121 KFGQPKGFAYVEFLEQEAVQEALNLNESELHGRQIKVAPKRTNVPGMKQRPPRGYNPYHG 180
Query: 175 HPY 177
+PY
Sbjct: 181 YPY 183
>AK110265
Length = 351
Score = 114 bits (286), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 51/90 (56%), Positives = 69/90 (76%), Gaps = 1/90 (1%)
Query: 76 KEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTDKF-GQPKGFAYVEFLEVEA 134
KEE D RSV++ V+YA T ++++ HF++CG + R+TI+ DK QPKGFAY+EF +E
Sbjct: 83 KEESDRRSVHISQVEYATTSDQLKAHFDACGQIVRLTIMLDKHTAQPKGFAYIEFATLEG 142
Query: 135 VQEAVKLNESELHGRQIKVAPKRTNVPGMK 164
Q A+ LN+S L+GRQIKV PKRTNVPG+K
Sbjct: 143 AQAALALNDSTLNGRQIKVTPKRTNVPGLK 172
>Os04g0306800 RNA-binding region RNP-1 (RNA recognition motif) domain containing
protein
Length = 649
Score = 74.7 bits (182), Expect = 4e-14, Method: Composition-based stats.
Identities = 43/112 (38%), Positives = 61/112 (54%), Gaps = 1/112 (0%)
Query: 52 LREMQTKVAKEMQGLDPNASSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRV 111
LR Q ++ QG + + E+ D+R+V V NV +A T E + HF CGTV ++
Sbjct: 485 LRSKQAQINNVKQGFLSSGPHANLDEDADSRTVLVTNVHFAATKEALSGHFMKCGTVLKI 544
Query: 112 TILTDKF-GQPKGFAYVEFLEVEAVQEAVKLNESELHGRQIKVAPKRTNVPG 162
ILTD G PKG A+V F + E+V++AV L+ S R + V K PG
Sbjct: 545 NILTDAISGHPKGAAFVTFTDKESVEKAVSLSGSSFFSRVLTVMRKAEAPPG 596
>Os08g0504600 RNA-binding region RNP-1 (RNA recognition motif) domain containing
protein
Length = 684
Score = 70.5 bits (171), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 38/103 (36%), Positives = 59/103 (57%), Gaps = 3/103 (2%)
Query: 71 SSSESKEEMDARSVYVGNVDYACTPEEVQQHFNSCGTVNRVTILTD-KFGQPKGFAYVEF 129
S++ E+ D+R++YV NV + T + + +HFN G V +V I+T+ GQP G AYVEF
Sbjct: 517 STAHPTEDADSRTLYVSNVHFGATKDALSRHFNKFGAVLKVVIVTNAATGQPTGSAYVEF 576
Query: 130 LEVEAVQEAVKLNESELHGRQIKVAPKRTNVPG--MKQPRGGR 170
L E+ + A+ LN + R +KV + ++ P GGR
Sbjct: 577 LHKESAERALSLNGTSFMARILKVVRRSSHEAAHFYGWPGGGR 619
Database: rap3
Posted date: Nov 19, 2010 6:03 PM
Number of letters in database: 17,035,801
Number of sequences in database: 52,214
Lambda K H
0.311 0.131 0.372
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 5,867,289
Number of extensions: 201573
Number of successful extensions: 767
Number of sequences better than 1.0e-10: 5
Number of HSP's gapped: 786
Number of HSP's successfully gapped: 5
Length of query: 204
Length of database: 17,035,801
Length adjustment: 96
Effective length of query: 108
Effective length of database: 12,023,257
Effective search space: 1298511756
Effective search space used: 1298511756
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 153 (63.5 bits)