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= 036554
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 50/85 (58%), Gaps = 4/85 (4%)
Query: 23 GGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAI 82
G G+AN P+ LWVG L N A L +F RFG + ++ G S+A+I ++ + A
Sbjct: 10 GYGKAN--PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQ 67
Query: 83 ASMKALQGFPLAG--NPLRIEFAKA 105
A+ ++GFPL G LR++FAK+
Sbjct: 68 AACAKMRGFPLGGPDRRLRVDFAKS 92
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 49/87 (56%), Gaps = 5/87 (5%)
Query: 21 SGGGGRANTPPS-RHLWVGNLSHNIEEANLTDQF--LRFGELESVAFQPGRSYAFINFKI 77
SG G +T S + L+V NL + E + +F ++ G +E V + R YAF++F
Sbjct: 3 SGSSGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERV--KKIRDYAFVHFSN 60
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFAK 104
EDA+ +MKAL G L G+P+ + AK
Sbjct: 61 REDAVEAMKALNGKVLDGSPIEVTLAK 87
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 21 SGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS-----YAFINF 75
SG GG L V NL + +A++ + F FG L+ A RS A ++F
Sbjct: 24 SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHF 83
Query: 76 KIEEDAIASMKALQGFPLAGNPLRIEFA 103
+ DA+ +MK +G PL G P+ I+
Sbjct: 84 ERRADALKAMKQYKGVPLDGRPMDIQLV 111
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 21 SGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS-----YAFINF 75
SG GG L V NL + +A++ + F FG L+ A RS A ++F
Sbjct: 24 SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHF 83
Query: 76 KIEEDAIASMKALQGFPLAGNPLRIEFA 103
+ DA+ +MK +G PL G P+ I+
Sbjct: 84 ERRADALKAMKQYKGVPLDGRPMDIQLV 111
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 31/81 (38%), Positives = 44/81 (54%), Gaps = 7/81 (8%)
Query: 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF----QPGRS--YAFINFKIEE 79
+ + P R L+VG+L NI E L F FG +ES+ + GRS Y FI F E
Sbjct: 21 KGSAGPMR-LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79
Query: 80 DAIASMKALQGFPLAGNPLRI 100
A +++ L GF LAG P+++
Sbjct: 80 CAKKALEQLNGFELAGRPMKV 100
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 20 HSGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS-----YAFIN 74
SG GG L V NL + +A++ + F FG L+ A RS A ++
Sbjct: 76 DSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVH 135
Query: 75 FKIEEDAIASMKALQGFPLAGNPLRIEFA 103
F+ DA+ +MK +G PL G P+ I+
Sbjct: 136 FERRADALKAMKQYKGVPLDGRPMDIQLV 164
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 41/75 (54%), Gaps = 6/75 (8%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAF----QPGRS--YAFINFKIEEDAIASM 85
S L+VG+L NI E L F FG+++++ GRS Y FI F E A ++
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 86 KALQGFPLAGNPLRI 100
+ L GF LAG P+R+
Sbjct: 65 EQLNGFELAGRPMRV 79
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 22 GGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDA 81
G G + + L+V NL++ + E L F +FG+LE V + + YAFI+F + A
Sbjct: 1 GSSGSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERV--KKLKDYAFIHFDERDGA 58
Query: 82 IASMKALQGFPLAGNPLRIEFAK 104
+ +M+ + G L G + I FAK
Sbjct: 59 VKAMEEMNGKDLEGENIEIVFAK 81
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 1 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 60
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 61 TNALRSMQGFPFYDKPMRIQYAKT 84
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 2 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 61
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 62 TNALRSMQGFPFYDKPMRIQYAKT 85
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 6 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 66 TNALRSMQGFPFYDKPMRIQYAKT 89
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 3 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 62
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 63 TNALRSMQGFPFYDKPMRIQYAKT 86
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 6 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 66 TNALRSMQGFPFYDKPMRIQYAKT 89
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 65 TNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 65 TNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 65 TNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 46/90 (51%), Gaps = 8/90 (8%)
Query: 21 SGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFIN 74
SG G A T R L+VG L+ +++ L F+ FG++ + + R +AF+
Sbjct: 3 SGSSGMATT--KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 60
Query: 75 FKIEEDAIASMKALQGFPLAGNPLRIEFAK 104
F++ EDA A++ + L G +R+ AK
Sbjct: 61 FELAEDAAAAIDNMNESELFGRTIRVNLAK 90
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 7/82 (8%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDAIA 83
P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATN 61
Query: 84 SMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 62 ALRSMQGFPFYDKPMRIQYAKT 83
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F +FG++ + R AF+ FK A
Sbjct: 5 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 65 TNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 48/84 (57%), Gaps = 6/84 (7%)
Query: 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELES----VAFQPG--RSYAFINFKIEE 79
++++ + +L+VG+L+ N+++ L + F F S Q G R Y F++F ++
Sbjct: 81 QSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQD 140
Query: 80 DAIASMKALQGFPLAGNPLRIEFA 103
DA +M ++QG L G PLRI +A
Sbjct: 141 DAQNAMDSMQGQDLNGRPLRINWA 164
Score = 32.7 bits (73), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 5/76 (6%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-----SYAFINFKIEEDAIASMKA 87
R L+VGNL I E L F G + ++ + +YAF+ + DA +++
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT 60
Query: 88 LQGFPLAGNPLRIEFA 103
L G + N ++I +A
Sbjct: 61 LNGKQIENNIVKINWA 76
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F +FG++ + R AF+ FK A
Sbjct: 6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 66 TNALRSMQGFPFYDKPMRIQYAKT 89
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 6/76 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES----VAFQPG--RSYAFINFKIEEDAIASMKA 87
+L+VG+L+ N+++ L + F F S Q G R Y F++F ++DA +M +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 88 LQGFPLAGNPLRIEFA 103
+QG L G PLRI +A
Sbjct: 63 MQGQDLNGRPLRINWA 78
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS-----YAFINFKIEEDAIASMKALQ 89
L V NL + +A++ + F FG L+ A RS A ++F+ + DA+ +MK
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 90 GFPLAGNPLRIEFAKA 105
G PL G P+ I+ +
Sbjct: 91 GVPLDGRPMNIQLVTS 106
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQ---PGRSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSSA 64
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
++++ QGFP P RI++AK
Sbjct: 65 TNALRSXQGFPFYDKPXRIQYAKT 88
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQ---PGRSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 6 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSSA 65
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
++++ QGFP P RI++AK
Sbjct: 66 TNALRSXQGFPFYDKPXRIQYAKT 89
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQ---PGRSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F RFG++ + R AF+ FK A
Sbjct: 3 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSSA 62
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
++++ QGFP P RI++AK
Sbjct: 63 TNALRSXQGFPFYDKPXRIQYAKT 86
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS---YAFINFKIEEDAIASMKALQG 90
++VGNL +I ++ D F ++G + + + R +AF+ F+ DA ++ G
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDG 83
Query: 91 FPLAGNPLRIEFAKA 105
+ G LR+EF ++
Sbjct: 84 YDYDGYRLRVEFPRS 98
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQ----FLRFGELESVAFQPG---RSYAFINFKIEEDA 81
T P+ +++ NL+ I++ L F +FG++ + R AF+ FK A
Sbjct: 6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 82 IASMKALQGFPLAGNPLRIEFAKA 105
+++++QGFP P+RI++AK
Sbjct: 66 TNALRSMQGFPFYDKPMRIQYAKT 89
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 41/80 (51%), Gaps = 2/80 (2%)
Query: 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-SYAFINFKIEEDAIASM 85
+ PP+ L++ NL E L+ F +F + V PGR AF+ F E A A+
Sbjct: 202 SENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAAR 261
Query: 86 KALQGFPLA-GNPLRIEFAK 104
ALQGF + N ++I FAK
Sbjct: 262 DALQGFKITQNNAMKISFAK 281
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 34/79 (43%)
Query: 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASM 85
R+ P ++GN+ H EA+L F FG + P + FI + E A +
Sbjct: 21 RSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCI 80
Query: 86 KALQGFPLAGNPLRIEFAK 104
AL FP G LR + K
Sbjct: 81 VALANFPFQGRNLRTGWGK 99
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAI 82
+ R L+VG L+ +++ L F+ FG++ + + R +AF+ F++ EDA
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 61
Query: 83 ASMKALQGFPLAGNPLRIEFAK 104
A++ + L G +R+ AK
Sbjct: 62 AAIDNMNESELFGRTIRVNLAK 83
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 8/87 (9%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G A T R L+VG L+ +++ L F+ FG++ + + R +AF+ F++
Sbjct: 1 GSMATT--KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 58
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFAK 104
EDA A++ + L G +R+ AK
Sbjct: 59 AEDAAAAIDNMNESELFGRTIRVNLAK 85
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQ----FLRFG---ELESVAFQPGRSYAFINFKIEEDAIA 83
P+ +++ N++ I++ L F +FG ++ ++ R AF+ FK +
Sbjct: 5 PNHTIYINNMNDKIKKEELKRSLYALFSQFGHVVDIVALKTMKMRGQAFVIFKELGSSTN 64
Query: 84 SMKALQGFPLAGNPLRIEFAKA 105
+++ LQGFP G P+RI++AK
Sbjct: 65 ALRQLQGFPFYGKPMRIQYAKT 86
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-SYAFINFKIEEDAIASMKAL 88
PP+ L++ NL E L+ F +F + V PGR AF+ F E A A+ AL
Sbjct: 11 PPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDAL 70
Query: 89 QGFPLA-GNPLRIEFAK 104
QGF + N ++I FAK
Sbjct: 71 QGFKITQNNAMKISFAK 87
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 3/84 (3%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQF---LRFGELESVAFQPGRSYAFINFKIEED 80
G A + PS+ L+V LS + E L + F +R + + + F++F EED
Sbjct: 7 GPNARSQPSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEED 66
Query: 81 AIASMKALQGFPLAGNPLRIEFAK 104
A A+ +A++ + GN + +++AK
Sbjct: 67 AKAAKEAMEDGEIDGNKVTLDWAK 90
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKIEEDAI 82
R + P ++VGNL +N + L F +G L SV PG +AF+ F+ DA
Sbjct: 67 RDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG--FAFVEFEDPRDAA 124
Query: 83 ASMKALQGFPLAGNPLRIEFA 103
+++ L G L G +R+E +
Sbjct: 125 DAVRELDGRTLCGCRVRVELS 145
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKIEEDAI 82
R + P ++VGNL +N + L F +G L SV PG +AF+ F+ DA
Sbjct: 67 RDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG--FAFVEFEDPRDAA 124
Query: 83 ASMKALQGFPLAGNPLRIEFA 103
+++ L G L G +R+E +
Sbjct: 125 DAVRDLDGRTLCGCRVRVELS 145
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKA 87
L+VG LS + E +L F ++G++ V Q R + F+ F+ +DA +M A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 88 LQGFPLAGNPLRIEFA 103
+ G + G +R++ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 21 SGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEED 80
SG G T + L+VG L I E +L + F +FGE+ ++ + AFI F +
Sbjct: 3 SGSSGEDKTITT--LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQA 60
Query: 81 A-IASMKALQGFPLAGNPLRIEFAK 104
A +A+ K+ + G L +++ +
Sbjct: 61 AEVAAEKSFNKLIVNGRRLNVKWGR 85
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 32/70 (45%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPL 93
L+VGNL +I E + F R+GE V R + FI + A + L G L
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTIL 83
Query: 94 AGNPLRIEFA 103
PLRI FA
Sbjct: 84 KSRPLRIRFA 93
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS-----YAFINFKIEEDAIASMKALQ 89
L V NL + +A++ + F FG L+ A RS A ++F+ + DA+ + K
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 90 GFPLAGNPLRIEFAKA 105
G PL G P I+ +
Sbjct: 92 GVPLDGRPXNIQLVTS 107
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIAS 84
P++ L++ NLS + E +L F RF E + Q R AFI F +E A +
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
Query: 85 MKALQGFPLAGNPLRIEFAK 104
+ + G+ L G L IEF K
Sbjct: 84 LHLVNGYKLYGKILVIEFGK 103
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMK 86
R L+VG L+ +++ L F+ FG++ + + R +AF+ F++ EDA A++
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
Query: 87 ALQGFPLAGNPLRIEFA 103
+ L G +R+ A
Sbjct: 124 NMNESELFGRTIRVNLA 140
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G RAN P+ L V LS E +L + F ++G + V+ + R +AF+ F+
Sbjct: 7 GNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFA 103
+DA + + G L G +R++F+
Sbjct: 67 VDDAKEAKERANGMELDGRRIRVDFS 92
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASM 85
R L+VG L+ +++ L F+ FG++ + + R +AF+ F++ EDA A++
Sbjct: 2 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 61
Query: 86 KALQGFPLAGNPLRIEFA 103
+ L G +R+ A
Sbjct: 62 DNMNESELFGRTIRVNLA 79
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G RAN P+ L V LS E +L + F ++G + V+ + R +AF+ F+
Sbjct: 38 GNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 97
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFA 103
+DA + + G L G +R++F+
Sbjct: 98 VDDAKEAKERANGMELDGRRIRVDFS 123
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G RAN P+ L V LS E +L + F ++G + V+ + R +AF+ F+
Sbjct: 4 GSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFA 103
+DA + + G L G +R++F+
Sbjct: 64 VDDAKEAKERANGMELDGRRIRVDFS 89
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 25 GRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-SYAFINFKIEEDAIA 83
+ PP++ L++ NL E L+ F +F + V P R AF+ F E + A
Sbjct: 1 AQTEQPPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNA 60
Query: 84 SMKALQGFPLA-GNPLRIEFAK 104
+ +ALQGF + + ++I FAK
Sbjct: 61 AKEALQGFKITPTHAMKITFAK 82
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKAL 88
L V NL++ L F ++G + V + R +AF+ F + DA +M A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 89 QGFPLAGNPLRIEFAK 104
G L G LR++ A+
Sbjct: 110 DGAVLDGRELRVQMAR 125
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFG---ELESVAFQP----GRSYAFINFKIEEDAIAS 84
S +++GNL I+E L D F FG + + P + YAFINF + + A+
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAA 64
Query: 85 MKALQGFPLAGNPLRIEFA 103
++A+ G L P+ + +A
Sbjct: 65 IEAMNGQYLCNRPITVSYA 83
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPL 93
L+VGNL +I E + F ++G+ V + + FI + A + L PL
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPL 76
Query: 94 AGNPLRIEFA 103
G LR+ FA
Sbjct: 77 RGKQLRVRFA 86
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKAL 88
L V NL++ L F ++G + V + R +AF+ F + DA +M A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 89 QGFPLAGNPLRIEFAK 104
G L G LR++ A+
Sbjct: 133 DGAVLDGRELRVQMAR 148
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIA 83
G + T SR L+VGNL +I E + F ++G+ V + + FI + A
Sbjct: 15 GEKTFTQRSR-LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEI 73
Query: 84 SMKALQGFPLAGNPLRIEFA 103
+ L PL G LR+ FA
Sbjct: 74 AKVELDNMPLRGKQLRVRFA 93
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-----SYAFINFKIEEDAIASMKA 87
R ++VGNL + E L + FL+ G L V R S+ F+ FK E ++
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIAL 76
Query: 88 LQGFPLAGNPLRI 100
L G L G P+ +
Sbjct: 77 LNGIRLYGRPINV 89
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
++VG L + E L + FL+ G + + R Y F+ F EEDA ++K +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 89 QGFPLAGNPLRIEFAKA 105
L G P+R+ A A
Sbjct: 78 DMIKLYGKPIRVNKASA 94
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS------YAFINFKIEEDAIASMK 86
R ++VGN+ + E L D F G + S R Y F ++ +E A+++M+
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 87 ALQGFPLAGNPLRIEFA 103
L G +G LR++ A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 21 SGGGGRANTPPS-RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-----RSYAFIN 74
SG G PPS R L+VG L+ E ++ F FG +E G + AF+
Sbjct: 3 SGSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVK 62
Query: 75 FKIEEDAIASMKALQG---FPLAGNPLRIEFA 103
+ +A A++ AL G P A + L ++FA
Sbjct: 63 YSSHAEAQAAINALHGSQTMPGASSSLVVKFA 94
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES--VAFQPGRS--YAFINFKIEEDAIASMKALQ 89
+L+V NL I++ L F FG + S V + GRS + F+ F E+A ++ +
Sbjct: 17 NLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMN 76
Query: 90 GFPLAGNPLRIEFAK 104
G +A PL + A+
Sbjct: 77 GRIVATKPLYVALAQ 91
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 6/79 (7%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMK 86
R+L V + ++E L F R+G +ESV + R Y F+ F+ A ++
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA 102
Query: 87 ALQGFPLAGNPLRIEFAKA 105
L GF + L++ A +
Sbjct: 103 GLNGFNILNKRLKVALAAS 121
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 86 NGQDLMGQPISVDWC 100
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 72 NGQDLMGQPISVDWC 86
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 85 NGQDLMGQPISVDWC 99
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 8/64 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGEL--------ESVAFQPGRSYAFINFKIEEDAIAS 84
R ++VG L +I+E +T F RFG L ES ++ P + YAF+ F+ E A
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQAL 68
Query: 85 MKAL 88
+ A
Sbjct: 69 IDAC 72
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS------YAFINFKIEEDAIASMKAL 88
+ V NLS + E +L + F FG + + ++ +AFI+F EDA ++ +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 89 QGFPLAGNPLRIEFAK 104
GF L +E+AK
Sbjct: 78 SGFGYDHLILNVEWAK 93
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G RAN P+ L V LS E +L + F ++G + V+ + R +AF+ F+
Sbjct: 7 GNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
Query: 78 EEDAIASMKALQGFPLAGNPLRI 100
+DA + + G L G +R+
Sbjct: 67 VDDAKEAKERANGMELDGRRIRV 89
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKAL 88
L+V + E ++ D+F +GE++++ R Y + ++ ++A A+M+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 QGFPLAGNPLRIEFA 103
G L G P+ +++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 42/82 (51%), Gaps = 10/82 (12%)
Query: 28 NTPPSRHLWVGNLSHNIEEANLTDQFLR-----FGELESVAFQPGRSYAFINFKIEEDAI 82
++P + ++ G ++ + LTDQ +R FG++ + P + Y+F+ F E A
Sbjct: 21 SSPKNCTVYCGGIA-----SGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAA 75
Query: 83 ASMKALQGFPLAGNPLRIEFAK 104
++ ++ G + G+ ++ + K
Sbjct: 76 HAIVSVNGTTIEGHVVKCYWGK 97
>pdb|2A3J|A Chain A, Structure Of Urndesign, A Complete Computational Redesign
Of Human U1a Protein
Length = 127
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 23/34 (67%)
Query: 71 AFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104
A+I F +E A A ++A QG+P GNPL I F++
Sbjct: 75 AYIVFATQESAQAFVEAFQGYPFQGNPLVITFSE 108
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 6/81 (7%)
Query: 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIA 83
P +L V L N+ + L F GE+ES + Y F+N+ +DA
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 84 SMKALQGFPLAGNPLRIEFAK 104
++ L G L +++ +A+
Sbjct: 62 AINTLNGLRLQSKTIKVSYAR 82
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIAS 84
P L+VG+L ++ EA L ++F G + S+ + YA++NF+ DA +
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 85 MKALQGFPLAGNPLRIEFAK 104
+ + + G P+RI +++
Sbjct: 74 LDTMNFDVIKGKPVRIMWSQ 93
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES---VAFQPG-RSYAFINFKIEEDAIASMKALQ 89
++++ NL +I+ L D F FG + S V + G + Y F++F+ +E A +++ +
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 164
Query: 90 GFPL 93
G L
Sbjct: 165 GMLL 168
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS--YAFINFKIEEDAIASMKALQ 89
+R L NLS NI E L + F E+ V+ Q G+S A+I FK E DA +++ Q
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVS-QDGKSKGIAYIEFKSEADAEKNLEEKQ 74
Query: 90 GFPLAGNPLRIEFA 103
G + G + + +
Sbjct: 75 GAEIDGRSVSLYYT 88
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKAL 88
L V NL++ +L F ++G + V + R +AF+ F DA + A+
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 89 QGFPLAGNPLRIEFAK 104
G L G LR++ A+
Sbjct: 76 DGAELDGRELRVQVAR 91
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 34.7 bits (78), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQG 90
+ L+V NL+ + E L F FG+LE V + + YAF++F+ A+ +M + G
Sbjct: 16 KVLFVRNLATTVTEEILEKSFSEFGKLERV--KKLKDYAFVHFEDRGAAVKAMDEMNG 71
>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 = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS--YAFINFKIEEDAIASMKALQ 89
+R L NLS NI E L + F E+ V+ Q G+S A+I FK E DA +++ Q
Sbjct: 99 ARTLLAKNLSFNITEDELKEVFEDALEIRLVS-QDGKSKGIAYIEFKSEADAEKNLEEKQ 157
Query: 90 GFPLAGNPLRIEFA 103
G + G + + +
Sbjct: 158 GAEIDGRSVSLYYT 171
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIAS 84
P L+VG+L ++ EA L ++F G + S+ + YA++NF+ DA +
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 85 MKALQGFPLAGNPLRIEFAK 104
+ + + G P+RI +++
Sbjct: 69 LDTMNFDVIKGKPVRIMWSQ 88
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES---VAFQPG-RSYAFINFKIEEDAIASMKALQ 89
++++ NL +I+ L D F FG + S V + G + Y F++F+ +E A +++ +
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 159
Query: 90 GFPL 93
G L
Sbjct: 160 GMLL 163
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKIEEDAIASMKALQG 90
++VGNL + L F +G L +V PG +AF+ F+ DA +++ L G
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG--FAFVEFEDPRDAEDAVRGLDG 59
Query: 91 FPLAGNPLRIEFA 103
+ G+ +R+E +
Sbjct: 60 KVICGSRVRVELS 72
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAF----QPGRSYAFINFKIEEDAIASMKAL 88
R L+VGNLS ++ E + F + G +S Y F+ F DA A++ A+
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM 75
Query: 89 QGFPLAGNPLRIEFA 103
G + G +++ +A
Sbjct: 76 NGRKILGKEVKVNWA 90
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKA 87
+L V L N+ + L F GE+ES + Y F+N+ +DA ++
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 63
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 64 LNGLRLQSKTIKVSYAR 80
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGEL---ESVAFQP---GRSYAFINFKIEEDAIASMKA 87
+L++ L + + ++ D F RFG + + Q R AFI F +A ++ +
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITS 149
Query: 88 LQGF--PLAGNPLRIEFA 103
G P + P+ ++FA
Sbjct: 150 FNGHKPPGSSEPITVKFA 167
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 20 HSGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEE 79
H G +NT L+V +++E+ L + F FG ++ V G +AF+ F+ E
Sbjct: 23 HRQEGELSNT----RLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--FAFVEFEEAE 76
Query: 80 DAIASMKALQGFPLAGNPLRIEFAK 104
A +++ + G A PL + ++K
Sbjct: 77 SAAKAIEEVHGKSFANQPLEVVYSK 101
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKA 87
+L V L N+ + L F GE+ES + Y F+N+ +DA ++
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 63
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 64 LNGLRLQSKTIKVSYAR 80
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGEL---ESVAFQP---GRSYAFINFKIEEDAIASMKA 87
+L++ L + + ++ D F RFG + + Q R AFI F +A ++ +
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITS 149
Query: 88 LQGF--PLAGNPLRIEFA 103
G P + P+ + FA
Sbjct: 150 FNGHKPPGSSEPITVXFA 167
>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 = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 6/86 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGEL------ESVAFQPGRSYAFINFKI 77
G + +T H++VG+LS I ++ F FG + + +A + Y F++F
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFN 66
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFA 103
+ DA +++ + G L G +R +A
Sbjct: 67 KWDAENAIQQMGGQWLGGRQIRTNWA 92
>pdb|2AD9|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd1 Complexed With Cucucu Rna
Length = 119
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 2/83 (2%)
Query: 23 GGGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAI 82
G R+ PSR + + L ++ E + L FG++ ++ G++ AFI EE A
Sbjct: 22 GDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAAN 81
Query: 83 ASMKALQGFP--LAGNPLRIEFA 103
+ L G P+ I+F+
Sbjct: 82 TMVNYYTSVTPVLRGQPIYIQFS 104
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 6/86 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGEL------ESVAFQPGRSYAFINFKI 77
G + +T H++VG+LS I ++ F FG++ + +A + Y F++F
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYN 66
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFA 103
+ DA ++ + G L G +R +A
Sbjct: 67 KLDAENAIVHMGGQWLGGRQIRTNWA 92
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 7/82 (8%)
Query: 31 PSRHLWVGNLSHNIEEA----NLTDQFLRFGE-LESVAFQ--PGRSYAFINFKIEEDAIA 83
P++ +++ NL+ I++ +L F +FG+ L+ VA + R AF+ FK A
Sbjct: 5 PNQTIYINNLNEKIKKEELKKSLYAIFSQFGQILDIVALKTLKMRGQAFVIFKEIGSASN 64
Query: 84 SMKALQGFPLAGNPLRIEFAKA 105
+++ +QGFP P++I ++K+
Sbjct: 65 ALRTMQGFPFYDKPMQIAYSKS 86
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 33.5 bits (75), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 6/87 (6%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKI 77
G + P +L++ +L + +L FL FG + S + + F++F
Sbjct: 32 GKQIEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDN 91
Query: 78 EEDAIASMKALQGFPLAGNPLRIEFAK 104
+ A ++KA+ GF + L+++ K
Sbjct: 92 PDSAQVAIKAMNGFQVGTKRLKVQLKK 118
>pdb|2CQ1|A Chain A, Solution Structure Of Rna Binding Domain In Ptb-Like
Protein L
Length = 101
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 24 GGRANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIA 83
G + + PSR L + L + E + L FG++ ++ G++ AF+ EE AI
Sbjct: 7 GDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAIT 66
Query: 84 SMKALQGFP--LAGNPLRIEFA 103
+ L P+ I+++
Sbjct: 67 MVNYYSAVTPHLRNQPIYIQYS 88
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGF 91
S L VGN+S L +F +G + + + YAF++ + EDA+ +++ L
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPV--IECDIVKDYAFVHMERAEDAVEAIRGLDNT 67
Query: 92 PLAGNPLRIEFAKA 105
G + ++ + +
Sbjct: 68 EFQGKRMHVQLSTS 81
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS--YAFINFKIEEDAIASMKALQ 89
S+ L + NLS++ E L + F + ++ Q G+S YAFI F EDA ++ +
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74
Query: 90 GFPLAGNPLRIEF 102
+ G +R+E
Sbjct: 75 KREIEGRAIRLEL 87
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELE-SVAFQPGRSYAFINFKIEEDAIASMKAL 88
P + ++VGNL + ++L G + + +Q R AF+++ A ++ L
Sbjct: 17 PLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCL 76
Query: 89 QGFPLAGNPLRIEFAK 104
QG L + LR+ A+
Sbjct: 77 QGLRLGTDTLRVALAR 92
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 32.3 bits (72), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYAFINFKIEEDAIASMKA 87
+L V L N + L F GE+ES + Y F+N+ +DA ++
Sbjct: 21 NLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 80
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 81 LNGLRLQSKTIKVSYAR 97
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 28 NTPPS--RHLWVGNLSHN-IEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIAS 84
N P S +++GNL+ ++++++ F ++G + + G YAF+ + E A A+
Sbjct: 21 NDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKG--YAFVQYSNERHARAA 78
Query: 85 MKALQGFPLAGNPLRIEFA 103
+ G LAG L I A
Sbjct: 79 VLGENGRVLAGQTLDINMA 97
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 32.3 bits (72), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPL 93
L+V +++E+ L + F FG ++ V G +AF+ F+ E A +++ + G
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--FAFVEFEEAESAAKAIEEVHGKSF 63
Query: 94 AGNPLRIEFAK 104
A PL + ++K
Sbjct: 64 ANQPLEVVYSK 74
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRS--YAFINFKIEEDAIASMKA 87
+L V L N+ + F G++ES G+S Y F+N+ DA ++
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 66 LNGLKLQTKTIKVSYAR 82
>pdb|1SJQ|A Chain A, Nmr Structure Of Rrm1 From Human Polypyrimidine Tract
Binding Protein Isoform 1 (Ptb1)
Length = 105
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQG 90
PSR + + L ++ E + L FG++ ++ G++ AFI EE A +
Sbjct: 15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTS 74
Query: 91 FP--LAGNPLRIEFA 103
L G P+ I+F+
Sbjct: 75 VTPVLRGQPIYIQFS 89
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASM 85
+ ++VG LS + E + + F FGE+ES+ R + FI FK EE M
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
>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 = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 32 SRHLWVGNLSHNIEEANLTDQF---LRFGELE--------SVAFQPGRSYAFINFKIEED 80
+R L+VGN+ I E + D F +R G L +V +++AF+ F+ ++
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 81 AIASMKALQGFPLAGNPLRI 100
+M A G G L+I
Sbjct: 64 TTQAM-AFDGIIFQGQSLKI 82
>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 = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 32 SRHLWVGNLSHNIEEANLTDQF---LRFGELE--------SVAFQPGRSYAFINFKIEED 80
+R L+VGN+ I E + D F +R G L +V +++AF+ F+ ++
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 81 AIASMKALQGFPLAGNPLRI 100
+M A G G L+I
Sbjct: 66 TTQAM-AFDGIIFQGQSLKI 84
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRS--YAFINFKIEEDAIASMKA 87
+L V L N+ + F G++ES G+S Y F+N+ DA ++
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 66 LNGLKLQTKTIKVSYAR 82
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFG------ELESVAFQPGRSYAFINFKIEEDAIASMKAL 88
LW+ N + + N+ D L S+ F R +A+I+ +EDA ++ L
Sbjct: 6 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 65
Query: 89 QGFPLAG--------NPLRIE 101
G + G NPL +E
Sbjct: 66 NGLKIEGYTLVTKVSNPLELE 86
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 32 SRHLWVGNLSHNIEEANLTDQF---LRFGELE--------SVAFQPGRSYAFINFKIEED 80
+R L+VGN+ I E + D F +R G L +V +++AF+ F+ ++
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 81 AIASMKALQGFPLAGNPLRI 100
+M A G G L+I
Sbjct: 64 TTQAM-AFDGIIFQGQSLKI 82
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRS--YAFINFKIEEDAIASMKA 87
+L V L N+ + F GE+ES G+S Y F+N+ +DA ++
Sbjct: 4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT 63
Query: 88 LQGFPLAGNPLRIEFAK 104
L G L +++ +A+
Sbjct: 64 LNGLRLQTKTIKVSYAR 80
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 32 SRHLWVGNLSHNIEEANLTDQF---LRFGELE--------SVAFQPGRSYAFINFKIEED 80
+R L+VGN+ I E + D F +R G L +V +++AF+ F+ ++
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 81 AIASMKALQGFPLAGNPLRI 100
+M A G G L+I
Sbjct: 66 TTQAM-AFDGIIFQGQSLKI 84
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 32 SRHLWVGNLSHNIEEANLTDQF---LRFGELE--------SVAFQPGRSYAFINFKIEED 80
+R L+VGN+ I E + D F +R G L +V +++AF+ F+ ++
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 81 AIASMKALQGFPLAGNPLRI 100
+M A G G L+I
Sbjct: 61 TTQAM-AFDGIIFQGQSLKI 79
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMK 86
++VG LS + E + + F FGE+ES+ R + FI FK EE M+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 A Ph 9.0
Length = 115
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELES---VAFQPG-RSYAFINFKIEEDAIASMKA 87
S ++++ NL +I+ L D F FG + S V + G + Y F++F+ +E A +++
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEK 64
Query: 88 LQGFPL 93
+ G L
Sbjct: 65 MNGMLL 70
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS--YAFINFKIEEDAIASMKALQ 89
+R L NL + + + L + F E+ V+ + G+S A+I FK E DA + + Q
Sbjct: 93 ARTLLAKNLPYKVTQDELKEVFEDAAEIRLVS-KDGKSKGIAYIEFKTEADAEKTFEEKQ 151
Query: 90 GFPLAGNPLRIEFA 103
G + G + + +
Sbjct: 152 GTEIDGRSISLYYT 165
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 6/70 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFG------ELESVAFQPGRSYAFINFKIEEDAIASMKAL 88
LW+ N + + N+ D L S+ F R +A+I+ +EDA ++ L
Sbjct: 83 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 142
Query: 89 QGFPLAGNPL 98
G + G L
Sbjct: 143 NGLKIEGYTL 152
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES---VAFQPG-RSYAFINFKIEEDAIASMKALQ 89
++++ NL +I+ L D F FG + S V + G + Y F++F+ +E A +++ +
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 72
Query: 90 GFPL 93
G L
Sbjct: 73 GMLL 76
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEE 79
++VG + HN E L + F +FG + V Q R + FI F+ E+
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQ 63
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
>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 = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
>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 = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>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 = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINF 75
+ ++VG + + EE +L D F ++G++E + R +AF+ F
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 34 HLWVGNLSH-NIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFP 92
+++GNL+ ++++++ F ++G++ + G +AF+ + E +A A++ G
Sbjct: 17 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKG--FAFVQYVNERNARAAVAGEDGRM 74
Query: 93 LAGNPLRIEFA 103
+AG L I A
Sbjct: 75 IAGQVLDINLA 85
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFG------ELESVAFQPGRSYAFINFKIEEDAIASMKAL 88
LW N + + N+ D L S+ F R +A+I+ +EDA ++ L
Sbjct: 120 LWXTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 179
Query: 89 QGFPLAGNPL 98
G + G L
Sbjct: 180 NGLKIEGYTL 189
>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 = 29.6 bits (65), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESV-----AFQPGRSYAFINFKIEEDAIAS 84
S L+VGNLS E + + F + G+++ + + + F+ + DA +
Sbjct: 16 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENA 75
Query: 85 MKALQGFPLAGNPLRIEF 102
M+ + G L +R ++
Sbjct: 76 MRYINGTRLDDRIIRTDW 93
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 9/68 (13%)
Query: 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRS--YAFINFKIEEDA 81
N + +VG LS + + +L D F +FGE+ + GRS + FI FK DA
Sbjct: 7 NEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFK---DA 63
Query: 82 IASMKALQ 89
+ K L
Sbjct: 64 ASVEKVLD 71
>pdb|4ADB|A Chain A, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADB|B Chain B, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADB|C Chain C, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADB|D Chain D, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADC|A Chain A, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADC|B Chain B, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADC|C Chain C, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADC|D Chain D, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADD|A Chain A, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADD|B Chain B, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADD|C Chain C, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADD|D Chain D, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADE|A Chain A, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
pdb|4ADE|B Chain B, Structural And Functional Study Of Succinyl-ornithine
Transaminase From E. Coli
Length = 406
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 45 EEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKAL-QGFPL 93
E N + L F E+++ + G YA++++ + D + + KAL GFP+
Sbjct: 211 ELCNRHNALLIFDEVQTGVGRTGELYAYMHYGVTPDLLTTAKALGGGFPV 260
>pdb|3R27|A Chain A, Crystal Structure Of The First Rrm Domain Of Heterogeneous
Nuclear Ribonucleoprotein L (Hnrnp L)
pdb|3R27|B Chain B, Crystal Structure Of The First Rrm Domain Of Heterogeneous
Nuclear Ribonucleoprotein L (Hnrnp L)
Length = 100
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKAL 88
TP S + + L + EA+L + FG + V P + A + F ED + + A+
Sbjct: 18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEF---EDVLGACNAV 74
Query: 89 -----QGFPLAGNPLRIEFAKA 105
+AG+P + ++ +
Sbjct: 75 NYAADNQIYIAGHPAFVNYSTS 96
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 12/89 (13%)
Query: 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELE--SVAFQP----GRSYAFINFKIEED 80
++ + +++ NLS + EE L + +FG+L+ V P + AF F +E
Sbjct: 10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEA 69
Query: 81 AIASMKALQ------GFPLAGNPLRIEFA 103
A + A G L G L+++ A
Sbjct: 70 AQKCLAAASLEAEGGGLKLDGRQLKVDLA 98
>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 = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 6/79 (7%)
Query: 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIA 83
S L+VGNLS E + + F + G+++ + + + F+ + DA
Sbjct: 37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAEN 96
Query: 84 SMKALQGFPLAGNPLRIEF 102
+M+ + G L +R ++
Sbjct: 97 AMRYINGTRLDDRIIRTDW 115
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 11/86 (12%)
Query: 31 PSRHLWVGNLSHNIEEANLTDQFLRF----GELESVAF-----QPGR--SYAFINFKIEE 79
P+ ++V NL+ +++E +L F R+ E + + F + GR AFI E+
Sbjct: 44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEK 103
Query: 80 DAIASMKALQGFPLAGNPLRIEFAKA 105
A ++K G+ L G P+ ++FA++
Sbjct: 104 AAAKALKEANGYVLFGKPMVVQFARS 129
>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 = 28.5 bits (62), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRS--YAFINFKIEEDAIASM 85
+++G LS + + +L D F +FGE+ + GRS + F+ FK E M
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>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 = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/77 (22%), Positives = 38/77 (49%), Gaps = 8/77 (10%)
Query: 35 LWVGNLSHNIEEANLTDQFLRFGELESVAF-------QPGRSYAFINFKIEEDAIASMKA 87
L+V ++++ E+ L +F +G ++ + +P R YAFI ++ E D ++ K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKP-RGYAFIEYEHERDMHSAYKH 163
Query: 88 LQGFPLAGNPLRIEFAK 104
G + G + ++ +
Sbjct: 164 ADGKKIDGRRVLVDVER 180
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 20/91 (21%), Positives = 41/91 (45%), Gaps = 5/91 (5%)
Query: 19 THSGGGGRANTPPSRHLWVGNLSHNIEEANLTDQFLR-----FGELESVAFQPGRSYAFI 73
+H G R+++ P R + + ++T LR FG + ++ P R+ AF+
Sbjct: 19 SHMGPFRRSDSFPERRAPRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV 78
Query: 74 NFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104
++ E A ++ L G + L++ A+
Sbjct: 79 TYEKMESADQAVAELNGTQVESVQLKVNIAR 109
>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 = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/73 (17%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKA 87
++VG++ + + E + F FG ++S+ + +AF+ +++ E A +++
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 88 LQGFPLAGNPLRI 100
+ L G +++
Sbjct: 90 MNSVMLGGRNIKV 102
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES--VAFQPG----RSYAFINFKIEEDAIASMKA 87
++V ++ ++ + ++ F FG+++S +A P + Y FI ++ + + ++ +
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 88 LQGFPLAGNPLRI 100
+ F L G LR+
Sbjct: 187 MNLFDLGGQYLRV 199
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/73 (17%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAF------QPGRSYAFINFKIEEDAIASMKA 87
++VG++ + + E + F FG ++S+ + +AF+ +++ E A +++
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 88 LQGFPLAGNPLRI 100
+ L G +++
Sbjct: 75 MNSVMLGGRNIKV 87
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELES--VAFQPG----RSYAFINFKIEEDAIASMKA 87
++V ++ ++ + ++ F FG+++S +A P + Y FI ++ + + ++ +
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 88 LQGFPLAGNPLRI 100
+ F L G LR+
Sbjct: 172 MNLFDLGGQYLRV 184
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 48 NLTDQFLR-----FGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102
++T LR FG + ++ P R+ AF+ ++ E A ++ L G + L++
Sbjct: 24 DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI 83
Query: 103 AK 104
A+
Sbjct: 84 AR 85
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 39/95 (41%), Gaps = 13/95 (13%)
Query: 22 GGGGRANTPPSRH----LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR------SYA 71
G G + P H L+VG + ++E +L F FG + + R A
Sbjct: 1 GSSGSSGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCA 60
Query: 72 FINFKIEEDAIASMKAL---QGFPLAGNPLRIEFA 103
F+ + + A+ + AL + P P++++ A
Sbjct: 61 FLTYCARDSALKAQSALHEQKTLPGMNRPIQVKPA 95
>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 = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/73 (17%), Positives = 35/73 (47%), Gaps = 6/73 (8%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESV------AFQPGRSYAFINFKIEEDAIASMKA 87
++VG++ + + E + F FG ++S+ + +AF+ +++ E A +++
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 88 LQGFPLAGNPLRI 100
L G +++
Sbjct: 74 XNSVXLGGRNIKV 86
>pdb|3ASA|A Chain A, Crystal Structure Of Apo-Ll-Diaminopimelate
Aminotransferase From Chlamydia Trachomatis
pdb|3ASB|A Chain A, Crystal Structure Of Plp-Bound Ll-Diaminopimelate
Aminotransferase From Chlamydia Trachomatis
Length = 400
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 11/67 (16%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSY-----AFINFKI---EEDAIASM 85
+LWV NI + +L D FLR +A PG + F+ F ED +A+
Sbjct: 327 YLWVKPTQANISDRDLFDFFLR---EYHIAITPGIGFGRSGSGFVRFSSLGKREDILAAC 383
Query: 86 KALQGFP 92
+ LQ P
Sbjct: 384 ERLQMAP 390
>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 = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 34 HLWVGNLSHNIEEANLTDQFLRFGEL------ESVAFQPGRSYAFINFKIEEDAIASMKA 87
H++VG+LS I A + F FG + + +A + Y F++F + DA +++
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 67
Query: 88 LQGFPLAGNPLRIEFA 103
+ G L G +R +A
Sbjct: 68 MGGQWLGGRQIRTNWA 83
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/74 (21%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRS------YAFINFKIEEDAIASMK 86
R+++VGNL ++ + + F +FG++ +V R + F+ + EE ++
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIA 60
Query: 87 ALQGFPLAGNPLRI 100
L G +R+
Sbjct: 61 KLDNTDFMGRTIRV 74
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 28 NTPPSRHLWVGNLS-HNIEEANLTDQFLRFGELESVAFQPGRSYAFINF 75
N PP L++GNL N+ + +L F +G + + + ++ FI F
Sbjct: 6 NIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--NAFGFIQF 52
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
0.318 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,688,905
Number of Sequences: 62578
Number of extensions: 88766
Number of successful extensions: 377
Number of sequences better than 100.0: 140
Number of HSP's better than 100.0 without gapping: 90
Number of HSP's successfully gapped in prelim test: 50
Number of HSP's that attempted gapping in prelim test: 258
Number of HSP's gapped (non-prelim): 149
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)