BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 027515
(222 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 116 bits (290), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 50/92 (54%), Positives = 70/92 (76%), Gaps = 1/92 (1%)
Query: 103 EKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEID 161
EK+E+D RS+YVGNVDY T ++++ HF SCG++NR+TIL DKF G PKG+AY+EF E +
Sbjct: 30 EKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERN 89
Query: 162 AVQNALLLNETELHGRQLKVSAKRTNIPGMKQ 193
+V A+ ++ET GR +KV KRTN+PG+
Sbjct: 90 SVDAAVAMDETVFRGRTIKVLPKRTNMPGISS 121
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 114 bits (286), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 53/87 (60%), Positives = 67/87 (77%), Gaps = 1/87 (1%)
Query: 106 EVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQ 164
E D+RSIYVGNVDY T EE++ HF CG+VNRVTIL DKF G PKGFAY+EF + ++V+
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 165 NALLLNETELHGRQLKVSAKRTNIPGM 191
+L L+E+ GRQ+KV KRTN PG+
Sbjct: 62 TSLALDESLFRGRQIKVIPKRTNRPGI 88
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 114 bits (285), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 53/87 (60%), Positives = 67/87 (77%), Gaps = 1/87 (1%)
Query: 106 EVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQ 164
E D+RSIYVGNVDY T EE++ HF CG+VNRVTIL DKF G PKGFAY+EF + ++V+
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 165 NALLLNETELHGRQLKVSAKRTNIPGM 191
+L L+E+ GRQ+KV KRTN PG+
Sbjct: 63 TSLALDESLFRGRQIKVIPKRTNRPGI 89
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 48/80 (60%), Gaps = 2/80 (2%)
Query: 104 KEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAV 163
+EE D R+++VGN++ E + + F G + +VTI D+ G+PK F +V F ++V
Sbjct: 12 QEEAD-RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESV 70
Query: 164 QNAL-LLNETELHGRQLKVS 182
A+ LLN L+GR + VS
Sbjct: 71 SYAIALLNGIRLYGRPINVS 90
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALL 168
R+IYVGN+ Y+ T E+V++ F G V V ++ D+ +PKGF +VE E +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 169 LNETELHGRQLKVS 182
L+ T+ GR ++V+
Sbjct: 62 LDNTDFMGRTIRVT 75
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALL 168
RS++VGN+ Y T E+++ F G V ++ D+ G+PKG+ + E+ + + +A+
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 169 -LNETELHGRQLKV 181
LN E GR L+V
Sbjct: 69 NLNGREFSGRALRV 82
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 2/74 (2%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNAL-L 168
++YV N+ ++ T ++ + F G V +VTI+ DK + KG A++ F++ D+ QN
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 169 LNETELHGRQLKVS 182
+N +L GR +K S
Sbjct: 78 INNKQLFGRVIKAS 91
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 40/64 (62%)
Query: 94 SSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFA 153
SS +S ++ +++ + ++CT EE+++ ++ GTV + ++T++ G+PKG A
Sbjct: 2 SSGSSGVFRYSTSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLA 61
Query: 154 YVEF 157
YVE+
Sbjct: 62 YVEY 65
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 105 EEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFVEIDAV 163
EE D+R+++ + P +++ F + G V V I++D+ + KG AYVEF EI +V
Sbjct: 21 EERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSV 80
Query: 164 QNALLLNETELHGRQLKVSA 183
A+ L L G + V A
Sbjct: 81 PLAIGLTGQRLLGVPIIVQA 100
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
+++VG +D E++ F G+V V I+TD+ G KG+ +V F VQ ++ +
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQK-IVES 70
Query: 171 ETELHGRQLKV 181
+ HG++LK+
Sbjct: 71 QINFHGKKLKL 81
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
+++VG +D E++ F G+V V I+TD+ G KG+ +V F VQ ++ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQK-IVES 69
Query: 171 ETELHGRQLKV 181
+ HG++LK+
Sbjct: 70 QINFHGKKLKL 80
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
+++VG +D E++ F G+V V I+TD+ G KG+ +V F VQ ++ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQK-IVES 69
Query: 171 ETELHGRQLKV 181
+ HG++LK+
Sbjct: 70 QINFHGKKLKL 80
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 44/78 (56%), Gaps = 4/78 (5%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLL 169
R +YVGN+D A T + ++Q+FQ G + + I+ DK + +A+VE+ + AL
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIAL-- 58
Query: 170 NETELHGRQLKVSAKRTN 187
L+G+Q++ + + N
Sbjct: 59 --QTLNGKQIENNIVKIN 74
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 108 DSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFVEIDAVQNA 166
D+ +++VG+++ E ++ F+ + ++ D + G +G+ +V F D QNA
Sbjct: 86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNA 145
Query: 167 L-LLNETELHGRQLKVS 182
+ + +L+GR L+++
Sbjct: 146 MDSMQGQDLNGRPLRIN 162
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL- 167
S ++YVGN+ + T E++ + F G + ++ + DK GF +VE+ +NA+
Sbjct: 18 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
Query: 168 LLNETELHGRQLKV 181
+N T L R ++
Sbjct: 78 YINGTRLDDRIIRT 91
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 45/91 (49%), Gaps = 2/91 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPK-GFAYVEFVEIDAVQNAL 167
S ++YVGN+ + T E++ + F G + ++ + DK + GF +VE+ +NA+
Sbjct: 39 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
Query: 168 -LLNETELHGRQLKVSAKRTNIPGMKQFRGR 197
+N T L R ++ G + RGR
Sbjct: 99 RYINGTRLDDRIIRTDWDAGFKEGRQYGRGR 129
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 9/101 (8%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFVEIDA 162
+R +YVGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 163 VQNALLLNETELHGRQLKVSAKRTN--IPGM-KQFRGRRPN 200
A+ + G+ LK+ +PG K F G PN
Sbjct: 66 TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPN 106
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNAL 167
+ +++G + ++V++ S G + ++ D G KG+A+ E+V+I+ A+
Sbjct: 96 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Query: 168 L-LNETELHGRQLKV 181
LN +L ++L V
Sbjct: 156 AGLNGMQLGDKKLLV 170
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 9/101 (8%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFVEIDA 162
+R +YVGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 163 VQNALLLNETELHGRQLKVSAKRTN--IPGM-KQFRGRRPN 200
A+ + G+ LK+ +PG K F G PN
Sbjct: 64 TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPN 104
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNAL 167
+ +++G + ++V++ S G + ++ D G KG+A+ E+V+I+ A+
Sbjct: 94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Query: 168 L-LNETELHGRQLKV 181
LN +L ++L V
Sbjct: 154 AGLNGMQLGDKKLLV 168
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 8/75 (10%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTIL----TDKFGQPKGFAYVEFVEIDAVQNA 166
+ YVGN+ + ++ F+ ++ V ++ TDKF KGF YVEF E+D+++ A
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKF---KGFCYVEFDEVDSLKEA 72
Query: 167 LLLNETELHGRQLKV 181
L + L R L+V
Sbjct: 73 LTYDGALLGDRSLRV 87
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 47/93 (50%), Gaps = 3/93 (3%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFG-QPKGFAYVE 156
SA Q + +YVG++ Y + ++Q F G + + + D + KGFA+VE
Sbjct: 17 SAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVE 76
Query: 157 FVEIDAVQNAL-LLNETELHGRQLKVSAKRTNI 188
+ +A Q AL +N L GR +KV + +NI
Sbjct: 77 YEVPEAAQLALEQMNSVMLGGRNIKV-GRPSNI 108
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 5/79 (6%)
Query: 104 KEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDA 162
K+E D+R++ N+ Y T +E+++ F+ + V+ K G+ KG AY+EF E DA
Sbjct: 88 KKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVS----KDGKSKGIAYIEFKTEADA 143
Query: 163 VQNALLLNETELHGRQLKV 181
+ TE+ GR + +
Sbjct: 144 EKTFEEKQGTEIDGRSISL 162
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 38/71 (53%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
+++VGN+++ + E++ N + ++ + G + F YV+F + ++ AL L
Sbjct: 9 NLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEKALELT 68
Query: 171 ETELHGRQLKV 181
++ G ++K+
Sbjct: 69 GLKVFGNEIKL 79
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 156
S +++ KE R +++G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 157 FV---EIDAVQNA 166
+ E+DA NA
Sbjct: 62 YATVEEVDAAMNA 74
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 65 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 124
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 125 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 177
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 156
S +++ KE R +++G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 62
Query: 157 FV---EIDAVQNA 166
+ E+DA NA
Sbjct: 63 YATVEEVDAAMNA 75
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 66 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 125
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 126 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 178
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 156
S +++ KE R +++G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 60
Query: 157 FV---EIDAVQNA 166
+ E+DA NA
Sbjct: 61 YATVEEVDAAMNA 73
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 64 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 123
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 124 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 176
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFVEIDA 162
+R +YVGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 163 VQNALLLNETELHGRQLKV 181
A+ + G+ LK+
Sbjct: 66 TTQAMAFDGIIFQGQSLKI 84
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 156
S +++ KE R +++G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 157 FV---EIDAVQNA 166
+ E+DA NA
Sbjct: 62 YATVEEVDAAMNA 74
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 65 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 124
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 125 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 177
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNALLLN 170
++VG +D++ T E ++ +F G V I+ DK Q +GF +V+F + + V L
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 171 ETELHGRQL 179
L GR +
Sbjct: 79 PHTLDGRNI 87
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFVEIDA 162
+R +YVGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 163 VQNALLLNETELHGRQLKV 181
A+ + G+ LK+
Sbjct: 61 TTQAMAFDGIIFQGQSLKI 79
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 49/100 (49%), Gaps = 6/100 (6%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVE-IDAVQNALLLN 170
+++G ++ + ++ F G ++ V ++ D+ + +GFA++ F DA A +N
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 171 ETELHGRQLKV-SAKRTNIPGMKQFRGRRPNTFGFRGRRP 209
LHG+ +KV AK+ + Q GRR R R P
Sbjct: 70 GKSLHGKAIKVEQAKKPSF----QSGGRRRPPASSRNRSP 105
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 46/95 (48%), Gaps = 12/95 (12%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFVEIDA 162
+R +YVGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 163 VQNALLLNETELHGRQLKVSAKRTN----IPGMKQ 193
A+ + G+ LK+ +R + +PGM +
Sbjct: 64 TTQAMAFDGIIFQGQSLKI--RRPHDYQPLPGMSE 96
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNAL 167
+ +++G + ++V++ S G + ++ D G KG+A+ E+V+I+ A+
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 168 L-LNETELHGRQLKV 181
LN +L ++L V
Sbjct: 174 AGLNGMQLGDKKLLV 188
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 44/75 (58%), Gaps = 4/75 (5%)
Query: 108 DSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL 167
+S+++ + N+ Y+ T E +Q+ F+ + + ++ G+ KG+A++EF + + AL
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFEK---ATFIKVPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 168 -LLNETELHGRQLKV 181
N+ E+ GR +++
Sbjct: 71 NSCNKREIEGRAIRL 85
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 52/104 (50%), Gaps = 10/104 (9%)
Query: 96 STSATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTV--NRVT------ILTDK-F 146
S+ ++ E+ D+ +IYV ++ + T +++ F+ CG V N+ T I DK
Sbjct: 2 SSGSSGDPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKET 61
Query: 147 GQPKGFAYVEFVEIDAVQNAL-LLNETELHGRQLKVSAKRTNIP 189
G+PKG A V + + + A+ + + G +LKVS R P
Sbjct: 62 GKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 105
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFG-QPKGFAYVEFVEIDAVQNAL-LL 169
+YVG++ Y + ++Q F G + + + D + KGFA+VE+ +A Q AL +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 170 NETELHGRQLKV 181
N L GR +KV
Sbjct: 76 NSVMLGGRNIKV 87
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 100 TQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFV 158
+++ KE R +++G + + T E ++ HF+ GT+ ++ D + +GF +V +
Sbjct: 2 SESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYA 61
Query: 159 ---EIDAVQNA 166
E+DA NA
Sbjct: 62 TVEEVDAAMNA 72
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 63 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 122
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 123 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 175
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 51/87 (58%), Gaps = 3/87 (3%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFVEIDAVQNAL 167
SR +Y+G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ +A+
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
Query: 168 L-LNETELHGRQLKVS-AKRTNIPGMK 192
LN +L R LK + ++I G+
Sbjct: 63 RNLNGYQLGSRFLKCGYSSNSDISGVS 89
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 51/87 (58%), Gaps = 3/87 (3%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFVEIDAVQNAL 167
SR +Y+G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ +A+
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 168 L-LNETELHGRQLKVS-AKRTNIPGMK 192
LN +L R LK + ++I G+
Sbjct: 62 RNLNGYQLGSRFLKCGYSSNSDISGVS 88
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFV---EIDAVQN 165
R +++G + + T E ++ HF+ GT+ ++ D + +GF +V + E+DA N
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 166 A 166
A
Sbjct: 67 A 67
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 70 IEEEAGALREMQAKVEKEMGAVQDSSSTSATQAEKEEVDSRSIYVGNVDYACTPEEVQQH 129
+EE A+ KV+ + + + S +Q + + I+VG + ++ +
Sbjct: 58 VEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDY 117
Query: 130 FQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLNETELHGRQLKV 181
F+ G + + I+TD+ G+ +GFA+V F + D+V ++ ++G +V
Sbjct: 118 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 170
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFVEIDAVQNAL 167
SR +Y+G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ +A+
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 168 L-LNETELHGRQLKV 181
LN +L R LK
Sbjct: 64 RNLNGYQLGSRFLKC 78
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRV-TILTDKFGQPKGFAYVEFVEIDAVQNAL- 167
++++V V+Y T ++++ F+ G + R+ + + + G+P+G+A++E+ + +A
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 168 LLNETELHGRQLKVSAKR 185
+ ++ GR++ V +R
Sbjct: 163 HADGKKIDGRRVLVDVER 180
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLN 170
I+VG + P+E ++ F GT+ ++ DK GQ +GF +V + DAV
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNK 149
Query: 171 ETELHGRQLKV 181
+ R++++
Sbjct: 150 FIDFKDRKIEI 160
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 108 DSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF 157
+S +++G +++ T + ++++F GTV + I+ D G+ +GF ++ F
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF 52
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNAL-LL 169
+YVG++ Y + ++Q F G + + D + KGFA+VE+ +A Q AL
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 170 NETELHGRQLKVSAKRTNI 188
N L GR +KV + +NI
Sbjct: 75 NSVXLGGRNIKV-GRPSNI 92
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 33/49 (67%), Gaps = 1/49 (2%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRV-TILTDKFGQPKGFAYVEF 157
++++V V+Y T ++++ F+ G + R+ + + + G+P+G+A++E+
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEY 151
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 108 DSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNA 166
++ I+VGNV ACT +E++ F+ G V ++ D +A+V E DA
Sbjct: 8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-------YAFVHMEKEADAKAAI 60
Query: 167 LLLNETELHGRQLKV 181
LN E+ G+++ V
Sbjct: 61 AQLNGKEVKGKRINV 75
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF---VEIDAVQNA 166
R ++VG + T E+V++ F+ GT++ T+L G KG A+V+F E A N
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINT 72
Query: 167 LLLNET 172
L + T
Sbjct: 73 LHSSRT 78
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLL 169
R ++VG ++ + E+V + FQ G ++ T+L G KG A+V+F Q A+
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAI-- 73
Query: 170 NETELHGRQ 178
LHG Q
Sbjct: 74 --HALHGSQ 80
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%)
Query: 107 VDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNA 166
V+ R +++G + CT +++ F S G + IL G +G A+V F Q A
Sbjct: 93 VEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTA 152
Query: 167 L 167
+
Sbjct: 153 I 153
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%)
Query: 107 VDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNA 166
V+ R +++G + CT +++ F S G + IL G +G A+V F Q A
Sbjct: 105 VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTA 164
Query: 167 L 167
+
Sbjct: 165 I 165
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%)
Query: 107 VDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNA 166
V+ R +++G + CT +++ F S G + IL G +G A+V F Q A
Sbjct: 93 VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTA 152
Query: 167 L 167
+
Sbjct: 153 I 153
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALL 168
S ++VGN+ CT +E++ F+ G V I+ D F ++E E DAV+
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD-----YAFVHMERAE-DAVEAIRG 63
Query: 169 LNETELHGRQLKV 181
L+ TE G+++ V
Sbjct: 64 LDNTEFQGKRMHV 76
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 105 EEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAV 163
E + ++YV N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 9 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 68
Query: 164 QNAL 167
Q A+
Sbjct: 69 QEAI 72
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNALLLN 170
+++G + + T ++++ +F G V T+ D G+ +GF +V F E ++V +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 171 ETELHGRQL 179
E +L+G+ +
Sbjct: 62 EHKLNGKVI 70
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNALLLN 170
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F + DA++ N
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 171 ETELHGRQLKV 181
L GR + +
Sbjct: 91 GVPLDGRPMNI 101
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 4/83 (4%)
Query: 96 STSATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYV 155
S+ ++ ++ R ++VG ++ + ++V++ F++ G + TIL G KG A+V
Sbjct: 2 SSGSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFV 61
Query: 156 EFVEIDAVQNALLLNETELHGRQ 178
++ Q A+ LHG Q
Sbjct: 62 KYSSHAEAQAAI----NALHGSQ 80
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 105 EEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAV 163
E + ++YV N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 96 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 155
Query: 164 QNAL 167
Q A+
Sbjct: 156 QEAI 159
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLN 170
I+VG + Y T ++++F+ G + ++TD+ G+ +G+ +V + A + A
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 171 ETELHGRQLKVS 182
+ GR+ V+
Sbjct: 80 NPIIDGRKANVN 91
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 105 EEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAV 163
E + ++YV N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 85 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 144
Query: 164 QNAL 167
Q A+
Sbjct: 145 QEAI 148
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 45/92 (48%), Gaps = 18/92 (19%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF------GQPKGFAYVEFVEIDAVQ 164
++Y+GN+ + T E++ + S G + IL KF GQ KGFA V V +A
Sbjct: 70 ALYIGNLTWWTTDEDLTEAVHSLGVND---ILEIKFFENRANGQSKGFALVG-VGSEASS 125
Query: 165 NAL--LLNETELHGRQLKVSAKRTNIPGMKQF 194
L LL + ELHG+ V+ P KQF
Sbjct: 126 KKLMDLLPKRELHGQNPVVT------PVNKQF 151
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 34.3 bits (77), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNALLLN 170
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F + DA++ N
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 171 ETELHGR 177
L GR
Sbjct: 92 GVPLDGR 98
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNALLLN 170
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 150
Query: 171 ETELHGRQLKV 181
L GR + +
Sbjct: 151 GVPLDGRPMDI 161
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.9 bits (76), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL 167
S S+ V N+ + E +++ F G V R ++ D G+P G VEF A + AL
Sbjct: 96 SASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKAL 154
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 14/75 (18%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVE-----FVEIDAVQNA 166
++VGN+ T EE+++ F+ G V I D KGF ++ EI V+
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVE-- 77
Query: 167 LLLNETELHGRQLKV 181
L+ L G+QL+V
Sbjct: 78 --LDNMPLRGKQLRV 90
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 40/76 (52%), Gaps = 12/76 (15%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF------GQPKGFAYVEFVEIDAVQ 164
++Y+GN+ + T E++ + S G VN IL KF GQ KGFA V V +A
Sbjct: 3 ALYIGNLTWWTTDEDLTEAVHSLG-VN--DILEIKFFENRANGQSKGFALVG-VGSEASS 58
Query: 165 NAL--LLNETELHGRQ 178
L LL + ELHG+
Sbjct: 59 KKLMDLLPKRELHGQN 74
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLNE 171
+YV N+D E +++ F GT+ ++ + G+ KGF +V F + A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG-GRSKGFGFVCFSSPEEATKAV---- 72
Query: 172 TELHGR 177
TE++GR
Sbjct: 73 TEMNGR 78
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVN---RVTILTDKFGQPKGFAYVEFVEIDAVQNALL 168
+ V + ++C+ +EVQ+ F C N + + + G+P G A+VE D V+ AL
Sbjct: 10 VKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDEVKLALK 69
Query: 169 LNETELHGRQLKV 181
+ + R ++V
Sbjct: 70 KDRETMGHRYVEV 82
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFVEID-AVQNALLL 169
++V N+ Y + E++++ F + G ++ + D + PKGFA+V F+ + AV+ +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 170 NETELHGRQLKV 181
+ GR L V
Sbjct: 71 DGQVFQGRMLHV 82
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNALLLN 170
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 171 ETELHGRQLKVSAKRTNI 188
L GR + + + I
Sbjct: 98 GVPLDGRPMDIQLVASQI 115
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNALLLN 170
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 171 ETELHGRQLKVSAKRTNI 188
L GR + + + I
Sbjct: 98 GVPLDGRPMDIQLVASQI 115
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNAL 167
+R++ N+ + T +E+++ F+ + L + G+ KG AY+EF E DA +N
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIR----LVSQDGKSKGIAYIEFKSEADAEKNLE 71
Query: 168 LLNETELHGRQLKV 181
E+ GR + +
Sbjct: 72 EKQGAEIDGRSVSL 85
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-VEIDAVQNAL 167
+R++ N+ + T +E+++ F+ + L + G+ KG AY+EF E DA +N
Sbjct: 99 ARTLLAKNLSFNITEDELKEVFEDALEIR----LVSQDGKSKGIAYIEFKSEADAEKNLE 154
Query: 168 LLNETELHGRQLKV 181
E+ GR + +
Sbjct: 155 EKQGAEIDGRSVSL 168
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/71 (19%), Positives = 37/71 (52%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
++++GN++ + E++ N + ++ + G + F YV+F + ++ AL L
Sbjct: 15 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 171 ETELHGRQLKV 181
++ G ++K+
Sbjct: 75 GLKVFGNEIKL 85
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFVEIDAVQNALLLN 170
I+VG + T E+V+ +F+ G V+ ++ DK + +GF +V F D V+ ++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 171 ETELHGRQL 179
E++ + +
Sbjct: 62 FHEINNKMV 70
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 43/85 (50%), Gaps = 13/85 (15%)
Query: 108 DSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNA 166
D+ +++G + ++++ F+ G + +T+L D+F G KG A++ + E ++ A
Sbjct: 12 DAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
Query: 167 LLLNETELHGRQLKVSAKRTNIPGM 191
++ LH ++ +PGM
Sbjct: 72 ----QSALH--------EQKTLPGM 84
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/99 (20%), Positives = 48/99 (48%), Gaps = 13/99 (13%)
Query: 96 STSATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAY 154
S+ ++ ++ D+ ++VG + ++++ F+ G + +T+L D+ G KG A+
Sbjct: 2 SSGSSGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAF 61
Query: 155 VEFVEIDAVQNALLLNETELHGRQLKVSAKRTNIPGMKQ 193
+ + D+ A ++ LH ++ +PGM +
Sbjct: 62 LTYCARDSALKA----QSALH--------EQKTLPGMNR 88
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 39/72 (54%), Gaps = 7/72 (9%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL--LL 169
+Y+GN+ A T ++++Q F +R L + G+A+V++ + + A+ L
Sbjct: 11 LYIGNLSPAVTADDLRQLFG-----DRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLS 65
Query: 170 NETELHGRQLKV 181
+ ELHG+ ++V
Sbjct: 66 GKVELHGKIMEV 77
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 14/84 (16%)
Query: 103 EKEEVDSRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVE-----F 157
EK ++VGN+ T EE+++ F+ G V I D KGF ++
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTL 63
Query: 158 VEIDAVQNALLLNETELHGRQLKV 181
EI V+ L+ L G+QL+V
Sbjct: 64 AEIAKVE----LDNMPLRGKQLRV 83
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFVEIDAVQNAL-L 168
+++VG+++ E ++ F+ + ++ D + G +G+ +V F D QNA+
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 169 LNETELHGRQLKVS 182
+ +L+GR L+++
Sbjct: 63 MQGQDLNGRPLRIN 76
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNAL 167
+ +++G + ++V++ S G + ++ D G KG+A+ E+V+I+ A+
Sbjct: 1 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Query: 168 L-LNETELHGRQLKV 181
LN +L ++L V
Sbjct: 61 AGLNGMQLGDKKLLV 75
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.4 bits (67), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 120 ACTPEEVQQHFQSCGTVNR-VTILTDKF-GQPKGFAYVEFVEIDAVQNALLLNETELHGR 177
A T ++++ QS G R V ++ +K GQ +GFA+VEF + + N+ L+
Sbjct: 12 AATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNIL 71
Query: 178 QLKVS 182
KVS
Sbjct: 72 GQKVS 76
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 30.0 bits (66), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLNE 171
IYVGN+ ++++ F G + + + + G P FA+VEF + ++A+ +
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP--FAFVEFEDPRDAEDAVYGRD 82
Query: 172 T-ELHGRQLKVSAKRT 186
+ G +L+V R+
Sbjct: 83 GYDYDGYRLRVEFPRS 98
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 30.0 bits (66), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 110 RSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEI-DAVQNALL 168
R++YVGN+ T + Q F G ++T+ + +VEF E DA
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP-YCFVEFYEHRDAAAALAA 74
Query: 169 LNETELHGRQLKVSAKRT 186
+N ++ G+++KV+ T
Sbjct: 75 MNGRKILGKEVKVNWATT 92
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLL 169
+ ++GN+ Y T E +++ F+ + R+ + KGF Y EF ++D++ +AL L
Sbjct: 21 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSL 80
Query: 170 NETELHGRQLKV 181
NE L R+++V
Sbjct: 81 NEESLGNRRIRV 92
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 48/107 (44%), Gaps = 8/107 (7%)
Query: 97 TSATQAEKEEVDSRS-IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAY 154
+S + K V S + V + + T ++++++F + G V V + D K G KGF +
Sbjct: 2 SSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGF 61
Query: 155 VEFVEIDAVQNALLLNETELHGRQLKVSAKRTNIPGMKQFRGRRPNT 201
V F E + Q ++ + GR +P KQ + P++
Sbjct: 62 VRFTEYET-QVKVMSQRHMIDGRWCDC-----KLPNSKQSQDSGPSS 102
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/81 (20%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 112 IYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ--PKGFAYVEFVEIDAVQNAL-L 168
+++G + T + + + F + G + + + ++ KG+AYVEF D + AL
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKH 66
Query: 169 LNETELHGRQLKVSAKRTNIP 189
++ ++ G+++ +A P
Sbjct: 67 MDGGQIDGQEITATAVLAPWP 87
>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna Binding
Motif Protein 12
Length = 114
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 113 YVGNVDYACTPEEVQQHFQSCGT-VNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLNE 171
++ N+ ++ T +V Q + N V +L D GQ G A V+F D + + L+
Sbjct: 19 HITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHR 78
Query: 172 TELHGRQ 178
+L+GR+
Sbjct: 79 KKLNGRE 85
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL--L 168
++YVG + T +++ HF G + +T++ Q + A+++F A + A
Sbjct: 14 TLYVGGLGDTITETDLRNHFYQFGEIRTITVV-----QRQQCAFIQFATRQAAEVAAEKS 68
Query: 169 LNETELHGRQLKVSAKR 185
N+ ++GR+L V R
Sbjct: 69 FNKLIVNGRRLNVKWGR 85
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/71 (19%), Positives = 37/71 (52%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLLN 170
++++GN++ + E++ N + ++ + G + F YV+F + ++ AL L
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 78
Query: 171 ETELHGRQLKV 181
++ G ++K+
Sbjct: 79 GLKVFGNEIKL 89
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKF-GQPKGFAYVEFVEIDAVQNA 166
+ S+++G+++ + + F + G TV V I+ ++ G P G+ +VEF ++ +
Sbjct: 9 AASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKC 68
Query: 167 L 167
L
Sbjct: 69 L 69
>pdb|2LMI|A Chain A, Nmr Structure Of The Protein Bc040485 From Homo Sapiens
Length = 107
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 99 ATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSC---GTVNRVTILTDKFGQPKGFAYV 155
++ E+E D I + ++CT E+V F C N + L ++ G+ +G A +
Sbjct: 1 GSKLEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALI 60
Query: 156 EFVEIDAVQNAL 167
E VQ AL
Sbjct: 61 EMESEQDVQKAL 72
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 111 SIYVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKFGQPKGFAYVEFVEIDAVQNALLL 169
+ ++GN+ Y T E +++ F+ + R+ + KGF Y EF ++D++ +AL L
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSL 76
Query: 170 NETELHGRQLKV 181
NE L ++++V
Sbjct: 77 NEESLGNKRIRV 88
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNAL 167
+R +Y+ N+ Y T EE+ F G + ++ + + +G AYV + +I +NA+
Sbjct: 8 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV--GNTPETRGTAYVVYEDIFDAKNAV 64
>pdb|2E8M|A Chain A, Solution Structure Of The C-Terminal Sam-Domain Of
Epidermal Growth Receptor Pathway Substrate 8
Length = 99
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 98 SATQAEKEEVDSRSIYVGNVDYACTPEEVQQHFQSCG----TVNRVTIL 142
SA Q +K V +++ V N+ Y TPE+V+ QS G TVN + +L
Sbjct: 12 SAAQ-KKFHVPRQNVPVINITYDSTPEDVKTWLQSKGFNPVTVNSLGVL 59
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 109 SRSIYVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFVEIDAVQNA 166
+R +Y+ N+ Y T EE+ F G + ++ + + +G AYV + +I +NA
Sbjct: 18 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV--GNTPETRGTAYVVYEDIFDAKNA 73
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,678,511
Number of Sequences: 62578
Number of extensions: 188630
Number of successful extensions: 662
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 60
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 124
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)