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= 036201
(112 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 33/51 (64%), Gaps = 1/51 (1%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALS-NTHLYGRHLIFSVAHDQIISIIAPT 53
G HRGF FV+++TKQ+A+ A AL +THLYGR L+ A ++ P+
Sbjct: 55 GAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSGPS 105
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
M+ G+ RG+ FV + ++ +AQNA++++ L GR L
Sbjct: 123 MQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPL 159
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
M+ G+ RG+ FV + ++ +AQNA++++ L GR L + A
Sbjct: 37 MQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 78
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 23/32 (71%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
H+GFAFVEY + AQ ALE +++ L GR++
Sbjct: 54 HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 85
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAP 52
G H+G+ F+EY Q +Q+A+ +++ L G++L A + ++ P
Sbjct: 149 GKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMPLLTP 197
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 23/32 (71%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
H+GFAFVEY + AQ ALE +++ L GR++
Sbjct: 69 HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 100
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAP 52
G H+G+ F+EY Q +Q+A+ +++ L G++L A + ++ P
Sbjct: 164 GKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMPLLTP 212
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAPT 53
HRGFAFVE+ ++A A++ ++ + L+GR + ++A I P+
Sbjct: 53 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPMRIKESGPS 100
>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 = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 22/32 (68%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
H+GFAFVEY + AQ ALE ++ L GR++
Sbjct: 53 HKGFAFVEYEVPEAAQLALEQXNSVXLGGRNI 84
Score = 31.2 bits (69), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAP 52
G H+G+ F+EY Q +Q+A+ + + L G++L A ++ P
Sbjct: 148 GKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKAVTPPXPLLTP 196
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 34.7 bits (78), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
+G AF+ ++ K AQN A++N L+GR + S+A
Sbjct: 58 KGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA 93
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 26/37 (70%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
HRGFAFVE+ ++A A++ ++ + L+GR + ++A
Sbjct: 48 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 84
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 26/37 (70%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
HRGFAFVE+ ++A A++ ++ + L+GR + ++A
Sbjct: 104 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 140
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 26/37 (70%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
HRGFAFVE+ ++A A++ ++ + L+GR + ++A
Sbjct: 46 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 82
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 26/37 (70%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
HRGFAFVE+ ++A A++ ++ + L+GR + ++A
Sbjct: 43 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 79
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
RGFAFV + K++A++A++A+ L GR L +A
Sbjct: 89 RGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 124
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
RGFAFV + K++A++A++A+ L GR L +A
Sbjct: 112 RGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 147
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
RGFAFV + +++AQ+A A+ L GR L VA
Sbjct: 55 RGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVA 90
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 24/34 (70%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G H+G+ FVE++++++A A++ + LYG+ +
Sbjct: 54 GQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPI 87
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In
Cytotoxic Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
M G +G+ FV + K +A+NA++ + L GR +
Sbjct: 51 MATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 87
>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 = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSV 41
G RG AFV Y ++EAQ A+ AL+N G SV
Sbjct: 52 GRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV 89
>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 = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSV 41
G RG AFV Y ++EAQ A+ AL+N G SV
Sbjct: 139 GRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV 176
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 2 KFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAH 43
K G G+AFV++ ++ ++Q A++ L+ + + L S A
Sbjct: 51 KTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLKVSYAR 92
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
M G +G+ FV + K +A+NA++ + L GR +
Sbjct: 42 MATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 32.3 bits (72), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSN 29
G RG AFV Y ++EAQ A+ AL+N
Sbjct: 128 GRPRGVAFVRYNKREEAQEAISALNN 153
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 2 KFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAH 43
K G G+AFV++ ++ ++Q A++ L+ + + L S A
Sbjct: 40 KTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
GN +G+AF+ + + + A+EA++ +L R + S A
Sbjct: 45 GNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA 83
>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 = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 8 GFAFVEYVTKQEAQNALEALSNTHL 32
GF FVEY ++ +A+NA+ ++ T L
Sbjct: 82 GFCFVEYYSRADAENAMRYINGTRL 106
>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 = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 8 GFAFVEYVTKQEAQNALEALSNTHLYGR 35
GF FVEY ++ +A+NA+ ++ T L R
Sbjct: 60 GFCFVEYYSRADAENAMRYINGTRLDDR 87
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 62 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 95
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 24/40 (60%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAH 43
G+ +GF FV++ ++++A+ A EA+ + + G + A
Sbjct: 51 GSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAK 90
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 28/48 (58%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAPT 53
H+GFAFV+YV ++ A+ A+ + G+ L ++A + ++ P+
Sbjct: 49 HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRSGPS 96
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 61 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 94
>pdb|2XB2|D Chain D, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
Length = 90
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 46 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 48 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 46 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEAL 27
GN +G AFV+Y + EAQ A+ AL
Sbjct: 53 GNSKGCAFVKYSSHAEAQAAINAL 76
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
Length = 109
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ VEY T +EAQ A+E L+ L G+ +
Sbjct: 46 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
M G +G+ FV + K +A+NA+ + L GR +
Sbjct: 51 MATGKSKGYGFVSFYNKLDAENAIVHMGGQWLGGRQI 87
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQ 45
M G RG AF+ + K+ A AL ++ LYG+ L+ ++
Sbjct: 61 MMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNK 105
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 22/34 (64%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+AF+E+ + ++A+ AL + + + GR +
Sbjct: 50 GKSKGYAFIEFASFEDAKEALNSCNKREIEGRAI 83
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 20/31 (64%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
RGFAF+ + +A+NA + ++ L+G+ +
Sbjct: 48 RGFAFITFENPADAKNAAKDMNGKSLHGKAI 78
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 8 GFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
GF FVEY ++AQ AL+ L + G L
Sbjct: 51 GFGFVEYKKPEQAQKALKQLQGHTVDGHKL 80
>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 = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSV 41
G RG+AF+EY +++ +A + + GR ++ V
Sbjct: 141 GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDV 178
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGR 35
G +G+A VEY T ++A A EAL+ + G+
Sbjct: 111 GFSKGYALVEYETHKQALAAKEALNGAEIMGQ 142
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGR 35
G +G+A VEY T ++A A EAL+ + G+
Sbjct: 65 GFSKGYALVEYETHKQALAAKEALNGAEIMGQ 96
>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 = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEA 26
G RGFAFVE+ Q+A +EA
Sbjct: 41 GQSRGFAFVEFSHLQDATRWMEA 63
>pdb|2J6H|A Chain A, E. Coli Glucosamine-6-p Synthase In Complex With
Glucose-6p And 5-oxo-l-norleucine
pdb|2J6H|B Chain B, E. Coli Glucosamine-6-p Synthase In Complex With
Glucose-6p And 5-oxo-l-norleucine
pdb|2VF4|X Chain X, E. Coli Glucosamine-6-P Synthase
pdb|2VF5|X Chain X, Glucosamine-6-Phosphate Synthase In Complex With
Glucosamine-6-Phosphate
Length = 608
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 44 DQIISIIAPTFQVMERAKEGESLEELRARTAAQ--FTDEVNGFQNSTKL 90
D + ++AP +++E+ K ++EE+RAR F D+ GF +S +
Sbjct: 513 DMPVIVVAPNNELLEKLK--SNIEEVRARGGQLYVFADQDAGFVSSDNM 559
>pdb|1JXA|A Chain A, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
pdb|1JXA|B Chain B, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
pdb|1JXA|C Chain C, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
pdb|2BPL|A Chain A, E.Coli Glucosamine-6p Synthase In Complex With Fructose-6p
pdb|2BPL|B Chain B, E.Coli Glucosamine-6p Synthase In Complex With Fructose-6p
pdb|2BPL|C Chain C, E.Coli Glucosamine-6p Synthase In Complex With Fructose-6p
Length = 608
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 44 DQIISIIAPTFQVMERAKEGESLEELRARTAAQ--FTDEVNGFQNSTKL 90
D + ++AP +++E+ K ++EE+RAR F D+ GF +S +
Sbjct: 513 DMPVIVVAPNNELLEKLK--SNIEEVRARGGQLYVFADQDAGFVSSDNM 559
>pdb|3OOJ|A Chain A, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|B Chain B, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|C Chain C, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|D Chain D, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|E Chain E, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|F Chain F, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|G Chain G, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
pdb|3OOJ|H Chain H, C1a Mutant Of E. Coli Glms In Complex With Glucose-6p And
Glutamate
Length = 608
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 44 DQIISIIAPTFQVMERAKEGESLEELRARTAAQ--FTDEVNGFQNSTKL 90
D + ++AP +++E+ K ++EE+RAR F D+ GF +S +
Sbjct: 513 DMPVIVVAPNNELLEKLK--SNIEEVRARGGQLYVFADQDAGFVSSDNM 559
>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 = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 11/44 (25%), Positives = 23/44 (52%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQII 47
G RG+AF+EY +++ +A + + GR ++ V + +
Sbjct: 141 GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTV 184
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 2 KFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAH 43
K G G+AFV++ ++ ++Q A++ L+ + + L S A
Sbjct: 40 KTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|1MOS|A Chain A, Isomerase Domain Of Glucosamine 6-phosphate Synthase
Complexed With 2- Amino-2-deoxyglucitol 6-phosphate
pdb|1MOQ|A Chain A, Isomerase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glucosamine 6-Phosphate
pdb|1MOR|A Chain A, Isomerase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glucose 6-Phosphate
Length = 368
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 44 DQIISIIAPTFQVMERAKEGESLEELRARTAAQ--FTDEVNGFQNSTKL 90
D + ++AP +++E+ K ++EE+RAR F D+ GF +S +
Sbjct: 273 DMPVIVVAPNNELLEKLK--SNIEEVRARGGQLYVFADQDAGFVSSDNM 319
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ F+ + + A+ ALE L+ L GR +
Sbjct: 65 GRSKGYGFITFSDSECAKKALEQLNGFELAGRPM 98
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
+G F++Y T ++A + AL+N GR+L
Sbjct: 63 KGCCFIKYDTHEQAAVCIVALANFPFQGRNL 93
>pdb|3IU0|A Chain A, Structural Basis For Zymogen Activation And Substrate
Binding Of Transglutaminase From Streptomyces Mobaraense
Length = 382
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 59 RAKEGESLEELRARTAAQFTDEVNGFQNSTKLS 91
R + GE+ E R A + DE GFQ + +++
Sbjct: 143 RPRSGETRAEFEGRVAKESFDEEKGFQRAREVA 175
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
G +G+ F+ + + A+ ALE L+ L GR +
Sbjct: 44 GRSKGYGFITFSDSECARRALEQLNGFELAGRPM 77
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 21/42 (50%)
Query: 1 MKFGNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
M+ F F+++ Q ++A+E S +G+ LI V+
Sbjct: 31 MQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS 72
>pdb|2RF8|A Chain A, Crystal Structure Of The Mutant C2a Conjugated Bile Acid
Hydrolase From Clostridium Perfringens
pdb|2RF8|B Chain B, Crystal Structure Of The Mutant C2a Conjugated Bile Acid
Hydrolase From Clostridium Perfringens
Length = 329
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 23 ALEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEGE 64
ALE HL+GR++ + +Q I I F+ + ++ + E
Sbjct: 6 ALETKDGLHLFGRNMDIEYSFNQSIIFIPRNFKCVNKSNKKE 47
>pdb|2BJF|A Chain A, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
pdb|2BJG|A Chain A, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
pdb|2BJG|B Chain B, Crystal Structure Of Conjugated Bile Acid Hydrolase From
Clostridium Perfringens In Complex With Reaction
Products Taurine And Deoxycholate
Length = 329
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 23 ALEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEGE 64
ALE HL+GR++ + +Q I I F+ + ++ + E
Sbjct: 6 ALETKDGLHLFGRNMDIEYSFNQSIIFIPRNFKCVNKSNKKE 47
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 9 FAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
F F+++ Q ++A+E S +G+ LI V+
Sbjct: 47 FGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS 80
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
G +GFA +EY T + A+ A + L G HL S
Sbjct: 221 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 259
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 9 FAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
F F+++ Q ++A+E S +G+ LI V+
Sbjct: 59 FGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS 92
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEGESL 66
RG A+V Y +A+NA + LS ++ R+L+ + FQ M+ K+ E L
Sbjct: 57 RGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANR------AFQKMDTKKKEEQL 110
Query: 67 EELRAR 72
+ L+ +
Sbjct: 111 KLLKEK 116
>pdb|3LMM|A Chain A, Crystal Structure Of The Dip2311 Protein From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr35
pdb|3LMM|B Chain B, Crystal Structure Of The Dip2311 Protein From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr35
pdb|3LMM|C Chain C, Crystal Structure Of The Dip2311 Protein From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr35
pdb|3LMM|D Chain D, Crystal Structure Of The Dip2311 Protein From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr35
Length = 583
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 17 KQEAQNALEALSNTHLYGRHLIFSVAHDQI 46
K+ A+NALEA T + G LI +AHD +
Sbjct: 458 KEAARNALEAARQTTVAGAPLI--IAHDGV 485
>pdb|1BLX|B Chain B, P19ink4dCDK6 COMPLEX
Length = 166
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 24 LEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEG-ESLEELRARTAAQFTDEVN 82
+ AL +T HL H ++S +AP + R G LE R R A D +
Sbjct: 100 VNALDSTGSLPIHLAIREGHSSVVSFLAPESDLHHRDASGLTPLELARQRGAQNLMDILQ 159
Query: 83 G 83
G
Sbjct: 160 G 160
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
G +GFA +EY T + A+ A + L G HL S
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>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 = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEGESL 66
RG A+V Y +A+NA + LS ++ R+L+ + FQ M+ K+ E L
Sbjct: 57 RGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANR------AFQKMDTKKKEEQL 110
Query: 67 EELRAR 72
+ L+ +
Sbjct: 111 KLLKEK 116
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 4 GNHRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
G +GFA +EY T + A+ A + L G HL S
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>pdb|1AP7|A Chain A, P19-Ink4d From Mouse, Nmr, 20 Structures
Length = 168
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 24 LEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEG-ESLEELRARTAAQFTDEVN 82
+ AL +T HL H ++S +AP + R G LE R R A D +
Sbjct: 102 VNALDSTGSLPIHLAIREGHSSVVSFLAPESDLHHRDASGLTPLELARQRGAQNLMDILQ 161
Query: 83 G 83
G
Sbjct: 162 G 162
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 7 RGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVAHDQIISIIAPTFQVMERAKEGESL 66
RG A+V Y +A+NA++ LS ++ R+L+ + FQ M+ K+ E L
Sbjct: 47 RGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNANR------AFQKMDTKKKEEQL 100
Query: 67 EELRAR 72
+ L+ +
Sbjct: 101 KLLKEK 106
>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 = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 2 KFGNH-RGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
KF H +GFA++E+ K+ + +L AL + GR +
Sbjct: 41 KFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQI 76
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 6 HRGFAFVEYVTKQEAQNALEALSNTHLYGRHLIFSVA 42
H+G+AFV+Y ++ A+ A+ + L G+ L ++A
Sbjct: 61 HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA 97
>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 = 25.0 bits (53), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 2 KFGNH-RGFAFVEYVTKQEAQNALEALSNTHLYGRHL 37
KF H +GFA++E+ K+ + +L AL + GR +
Sbjct: 42 KFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQI 77
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
0.319 0.131 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,848,126
Number of Sequences: 62578
Number of extensions: 89255
Number of successful extensions: 494
Number of sequences better than 100.0: 77
Number of HSP's better than 100.0 without gapping: 67
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 414
Number of HSP's gapped (non-prelim): 89
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)