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= 025677
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 10/90 (11%)
Query: 152 LYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACAATAL 211
L++ GLP TK E+ I + K++RLV R G P L +V++EN + A+ A+
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTN----RAGKPKGLAYVEYENESQASQAV 75
Query: 212 SALQGYRMDEDDPDSKFLRLQFSRNPGPRS 241
+ G + E+ +++ S N GP S
Sbjct: 76 MKMDGMTIKEN-----IIKVAIS-NSGPSS 99
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 48/91 (52%), Gaps = 13/91 (14%)
Query: 133 AAARPGHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGD 192
A A+P E PP+ L++ LP ++ + ++ +F F G+KEVRLV
Sbjct: 2 APAQPLSEN---PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD----- 51
Query: 193 PLILCFVDFENPACAATALSALQGYRMDEDD 223
+ FV+F+N A A ALQG+++ +++
Sbjct: 52 ---IAFVEFDNEVQAGAARDALQGFKITQNN 79
>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 = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 10/79 (12%)
Query: 145 PPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENP 204
PP+ L++ LP ++ + ++ +F F G+KEVRLV + FV+F+N
Sbjct: 205 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD--------IAFVEFDNE 254
Query: 205 ACAATALSALQGYRMDEDD 223
A A ALQG+++ +++
Sbjct: 255 VQAGAARDALQGFKITQNN 273
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 10/75 (13%)
Query: 145 PPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENP 204
PP+ L++ LP ++ + ++ +F F G+KEVRLV + FV+F
Sbjct: 6 PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHD--------IAFVEFTTE 55
Query: 205 ACAATALSALQGYRM 219
+ A ALQG+++
Sbjct: 56 LQSNAAKEALQGFKI 70
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 11/85 (12%)
Query: 152 LYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACAATAL 211
+YV LP D +++ +F + +++ L RGG P FV+FE+P A A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDL----KNRRGGPPF--AFVEFEDPRDAEDAV 78
Query: 212 SALQGYRMDEDDPDSKFLRLQFSRN 236
GY D D LR++F R+
Sbjct: 79 YGRDGY-----DYDGYRLRVEFPRS 98
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 48/96 (50%), Gaps = 17/96 (17%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKES--KLRGGDPLILCFVDFENPA 205
SS LY+ GL +T +++ + +P+ + ++ ++ K +G FVDF++P+
Sbjct: 4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKG-----YGFVDFDSPS 58
Query: 206 CAATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRS 241
A A++AL+ + ++ Q ++ GP S
Sbjct: 59 AAQKAVTALK----------ASGVQAQMAKQSGPSS 84
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 45/99 (45%), Gaps = 12/99 (12%)
Query: 145 PPDASSTLYVEGLPADSTKREVAHIFRPFVGYK--EVRLVIKESKLRGGDPLILCFVDFE 202
P + + LY++ L T+R++ +F F K ++ + ++RG F+ F
Sbjct: 21 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRG-----QAFITFP 75
Query: 203 NPACAATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRS 241
N A AL + GY++ K L ++F +N RS
Sbjct: 76 NKEIAWQALHLVNGYKL-----YGKILVIEFGKNKKQRS 109
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 11/69 (15%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACA 207
+++ L+V P D + E+ IF PF KEV++ L G FV+FE A
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI------LNG-----FAFVEFEEAESA 78
Query: 208 ATALSALQG 216
A A+ + G
Sbjct: 79 AKAIEEVHG 87
>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 = 33.9 bits (76), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 49/107 (45%), Gaps = 4/107 (3%)
Query: 116 LVQNLRSSSIDDQLPF-DAAARPGHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFV 174
L++ LRS S + + D R +E S TLYV L +T+ ++ +F
Sbjct: 5 LLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSG 64
Query: 175 GYKEVRLVIKESKLRGGDPLILCFVDFENPACAATALSALQGYRMDE 221
K++ + + + K CFV++ + A A A+ + G R+D+
Sbjct: 65 DIKKIIMGLDKMKK---TACGFCFVEYYSRADAENAMRYINGTRLDD 108
>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 = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/114 (23%), Positives = 54/114 (47%), Gaps = 11/114 (9%)
Query: 105 VTGRHGATGPDLVQNLRSSSIDDQLPFDAAARPGHETLPLPPDASSTLYVEGLPADSTKR 164
VT + + + LR S ++ + ARP E + DA+ LY+ GLP T++
Sbjct: 52 VTAKDAERAINTLNGLRLQSKTIKVSY---ARPSSEVIK---DAN--LYISGLPRTMTQK 103
Query: 165 EVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACAATALSALQGYR 218
+V +F F R+++ ++ G + F+ F+ + A A+++ G++
Sbjct: 104 DVEDMFSRFGRIINSRVLVDQTT---GLSRGVAFIRFDKRSEAEEAITSFNGHK 154
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 42/87 (48%), Gaps = 10/87 (11%)
Query: 150 STLYVEGLPADSTKREVAHIFRPFVGYKEVRLVI-KESKLRGGDPLILCFVDFENPACAA 208
+ L++ LP + +++ +F PF ++ I K++ L FV ++NP A
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLS----KCFGFVSYDNPVSAQ 81
Query: 209 TALSALQGYRMDEDDPDSKFLRLQFSR 235
A+ ++ G+++ K L++Q R
Sbjct: 82 AAIQSMNGFQIGM-----KRLKVQLKR 103
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/114 (23%), Positives = 54/114 (47%), Gaps = 11/114 (9%)
Query: 105 VTGRHGATGPDLVQNLRSSSIDDQLPFDAAARPGHETLPLPPDASSTLYVEGLPADSTKR 164
VT + + + LR S ++ + ARP E + DA+ LY+ GLP T++
Sbjct: 52 VTAKDAERAINTLNGLRLQSKTIKVSY---ARPSSEVIK---DAN--LYISGLPRTMTQK 103
Query: 165 EVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACAATALSALQGYR 218
+V +F F R+++ ++ G + F+ F+ + A A+++ G++
Sbjct: 104 DVEDMFSRFGRIINSRVLVDQTT---GLSRGVAFIRFDKRSEAEEAITSFNGHK 154
>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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 132 DAAARPGHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGG 191
D R +E S TLYV L +T+ ++ +F K++ + + + K G
Sbjct: 1 DQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACG 60
Query: 192 DPLILCFVDFENPACAATALSALQGYRMDE 221
CFV++ + A A A+ + G R+D+
Sbjct: 61 ----FCFVEYYSRADAENAMRYINGTRLDD 86
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 33.1 bits (74), Expect = 0.14, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 11/69 (15%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACA 207
+++ L+V P D + E+ IF PF KEV++ L G FV+FE A
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI------LNG-----FAFVEFEEAESA 51
Query: 208 ATALSALQG 216
A A+ + G
Sbjct: 52 AKAIEEVHG 60
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 35/74 (47%)
Query: 147 DASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPAC 206
SS L+++ L +T+ + +F K + K++K + FV+++ P
Sbjct: 3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQ 62
Query: 207 AATALSALQGYRMD 220
A AL LQG+ +D
Sbjct: 63 AQKALKQLQGHTVD 76
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACA 207
SS LYV L + T+ + IF PF G + +++K+S G F+ F + CA
Sbjct: 4 GSSGLYVGSLHFNITEDMLRGIFEPF-GKIDNIVLMKDSDT--GRSKGYGFITFSDSECA 60
Query: 208 ATALSALQGYRM 219
AL L G+ +
Sbjct: 61 RRALEQLNGFEL 72
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 44/98 (44%), Gaps = 10/98 (10%)
Query: 146 PDASST-LYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENP 204
P AS+T L V LP D T RE+ +FR R+ + G FVDF +
Sbjct: 10 PRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRI---XRDYKTGYSFGYAFVDFTSE 66
Query: 205 ACAATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRSV 242
+ A+ L G + +K L++ ++R PG S+
Sbjct: 67 XDSQRAIKVLNGITV-----RNKRLKVSYAR-PGGESI 98
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 138 GHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRL 181
G + LPP+ + LY+ LP T E+ IF + +++R+
Sbjct: 1 GRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 44
>pdb|2PFF|B Chain B, Structural Insights Of Yeast Fatty Acid Synthase
pdb|2PFF|E Chain E, Structural Insights Of Yeast Fatty Acid Synthase
pdb|2PFF|H Chain H, Structural Insights Of Yeast Fatty Acid Synthase
Length = 2006
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 155 EGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLI-LCFVDFENPACAATALSA 213
EG AD A + F+GY V +++ SK+ D ++ LC +FEN + A
Sbjct: 46 EGFAADDEPTTPAELVGKFLGY--VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA 103
Query: 214 LQGYRMDEDD 223
L + E+D
Sbjct: 104 LAAKLLQEND 113
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 152 LYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACAATAL 211
LYV L + T+ + IF PF + ++L++ G F+ F + CA AL
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSET---GRSKGYGFITFSDSECAKKAL 85
Query: 212 SALQGYRM 219
L G+ +
Sbjct: 86 EQLNGFEL 93
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 144 LPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFEN 203
LPP+ + LY+ LP T E+ IF + +++R V + RG +V +E+
Sbjct: 3 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIR-VGNTPETRGT-----AYVVYED 56
Query: 204 PACAATALSALQGYRM 219
A A+ L G+ +
Sbjct: 57 IFDAKNAVDHLSGFNV 72
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 147 DASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRG-GDPLILCFVDFENPA 205
+S + V +P + +RE+ +F F K VRL K+ G G FVDF
Sbjct: 13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRL---PKKMTGTGAHRGFGFVDFITKQ 69
Query: 206 CAATALSAL 214
A A +AL
Sbjct: 70 DAKKAFNAL 78
>pdb|2VKZ|G Chain G, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|H Chain H, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|I Chain I, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|3HMJ|G Chain G, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|H Chain H, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|I Chain I, Saccharomyces Cerevisiae Fas Type I
pdb|2UV8|G Chain G, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|H Chain H, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|I Chain I, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
Length = 2051
Score = 30.0 bits (66), Expect = 1.2, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 155 EGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLI-LCFVDFENPACAATALSA 213
EG AD A + F+GY V +++ SK+ D ++ LC +FEN + A
Sbjct: 46 EGFAADDEPTTPAELVGKFLGY--VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA 103
Query: 214 LQGYRMDEDD 223
L + E+D
Sbjct: 104 LAAKLLQEND 113
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACA 207
+++ L V LP D T RE+ +FR R++ + G FVDF + +
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIM---RDYKTGYSYGYAFVDFTSEMDS 58
Query: 208 ATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRSV 242
A+ L G + +K L++ ++R PG S+
Sbjct: 59 QRAIKVLNGITV-----RNKRLKVSYAR-PGGESI 87
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 2/74 (2%)
Query: 169 IFRPFVGYKEVRLVIKESKLR-GGDPLILCFVDFENPACAATALSALQGYRMDEDDPDSK 227
I R F E + +K + R G P CFV+F + A A L + G + P +
Sbjct: 26 ISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKR 85
Query: 228 FLRLQFSRNPGPRS 241
F +L ++ GP S
Sbjct: 86 F-KLNYATYSGPSS 98
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 129 LPFDAAARPGHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRL 181
+ AA R + LPP+ + LY+ LP T E+ IF + +++R+
Sbjct: 1 MAMQAAKRAN---IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 50
>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 = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 147 DASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPAC 206
DA TL+V + D+T+ ++ F + K + +V + R G P F+++E+
Sbjct: 100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSK---RSGKPRGYAFIEYEHERD 156
Query: 207 AATALSALQGYRMD 220
+A G ++D
Sbjct: 157 MHSAYKHADGKKID 170
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 147 DASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPAC 206
DA TL+V + D+T+ ++ F + K + +V + R G P F+++E+
Sbjct: 100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSK---RSGKPRGYAFIEYEHERD 156
Query: 207 AATALSALQGYRMD 220
+A G ++D
Sbjct: 157 MHSAYKHADGKKID 170
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 148 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPACA 207
+++ L V LP D T RE+ +FR R++ + G FVDF + +
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIM---RDYKTGYSYGYAFVDFTSEMDS 58
Query: 208 ATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRSV 242
A+ L G + +K L++ ++R PG S+
Sbjct: 59 QRAIKVLNGITV-----RNKRLKVSYAR-PGGESI 87
>pdb|1SY6|A Chain A, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 204
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 1 MHAYSHIPFGEGISLTSLIFNTEDLPPSEVLSRHDMHNYLSQDDD 45
M + P+ IS T++I P SE+L +H+ N +DD
Sbjct: 114 MGGITQTPYKVSISGTTVILTCPQYPGSEILWQHNDKNIGGDEDD 158
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 146 PDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPA 205
PD + L V GL +T+R++ +F + +V +V + R FV FEN
Sbjct: 43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG---FAFVYFENVD 99
Query: 206 CAATALSALQGYRMDEDDPDSKFLRLQFS 234
A A G + D + +R+ FS
Sbjct: 100 DAKEAKERANGMEL-----DGRRIRVDFS 123
>pdb|1XIW|A Chain A, Crystal Structure Of Human Cd3-ED DIMER IN COMPLEX WITH
A Ucht1 Single-Chain Antibody Fragment
pdb|1XIW|E Chain E, Crystal Structure Of Human Cd3-ED DIMER IN COMPLEX WITH
A Ucht1 Single-Chain Antibody Fragment
Length = 105
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 1 MHAYSHIPFGEGISLTSLIFNTEDLPPSEVLSRHDMHNYLSQDDD 45
M + P+ IS T++I P SE+L +H+ N +DD
Sbjct: 7 MGGITQTPYKVSISGTTVILTCPQYPGSEILWQHNDKNIGGDEDD 51
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 8/96 (8%)
Query: 146 PDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPA 205
PD + L V GL +T+R++ +F + +V +V + R FV FEN
Sbjct: 9 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG---FAFVYFENVD 65
Query: 206 CAATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRS 241
A A G + D + +R+ FS P +
Sbjct: 66 DAKEAKERANGMEL-----DGRRIRVDFSITKRPHT 96
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 8/96 (8%)
Query: 146 PDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPA 205
PD + L V GL +T+R++ +F + +V +V + R FV FEN
Sbjct: 12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG---FAFVYFENVD 68
Query: 206 CAATALSALQGYRMDEDDPDSKFLRLQFSRNPGPRS 241
A A G + D + +R+ FS P +
Sbjct: 69 DAKEAKERANGMEL-----DGRRIRVDFSITKRPHT 99
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 146 PDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLVIKESKLRGGDPLILCFVDFENPA 205
PD + L V GL +T+R++ +F + +V +V + R FV FEN
Sbjct: 12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---SRGFAFVYFENVD 68
Query: 206 CAATALSALQGYRMD 220
A A G +D
Sbjct: 69 DAKEAKERANGMELD 83
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
0.317 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,833,223
Number of Sequences: 62578
Number of extensions: 319293
Number of successful extensions: 765
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 751
Number of HSP's gapped (non-prelim): 39
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)