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= psy8001
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 60/153 (39%), Positives = 83/153 (54%), Gaps = 15/153 (9%)
Query: 28 HDDIDLYDDVTLQPFPEHTGRSP-------------AXXXXXXXXXXXXXXXXXXXCNLY 74
HD IDLYDDV + P + G +P LY
Sbjct: 15 HDQIDLYDDV-ISP-SANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALY 72
Query: 75 VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL 134
+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF V +GSE S +M+ L
Sbjct: 73 IGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL 132
Query: 135 PTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
P ELHG+ P+V + L QFE Q+ ++S
Sbjct: 133 PKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQS 165
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 99.8 bits (247), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 42/74 (56%), Positives = 58/74 (78%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF V +GSE S +M+
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 133 RLPTLELHGRKPMV 146
LP ELHG+ P+V
Sbjct: 64 LLPKRELHGQNPVV 77
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 88.6 bits (218), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/100 (46%), Positives = 62/100 (62%), Gaps = 4/100 (4%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
+YVG+ +WWTT+ + IRSIGV D +++KF EN +NGQSKG+ V + SE S+ ++E
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
LP L+G K V TR L QFEAQ +R R R
Sbjct: 118 LLPGKVLNGEKVDVRPATRQNLSQFEAQ----ARKRECVR 153
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVP--DFIDVKFFENASNGQSKGFCTVTLGSEESMSL 129
LYVG+L + TE D +R I P ++ +++ G+SKG+ +T E
Sbjct: 7 GLYVGSLHFNITE----DMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
Query: 130 VMERLPTLELHGRKPMVAYPTRNV 153
+E+L EL GR V + T +
Sbjct: 63 ALEQLNGFELAGRPMRVGHVTERL 86
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVP--DFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
LYVG+L + TE D +R I P ++ ++ G+SKG+ +T E
Sbjct: 29 LYVGSLHFNITE----DMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKA 84
Query: 131 MERLPTLELHGRKPMVAYPT 150
+E+L EL GR V + T
Sbjct: 85 LEQLNGFELAGRPMKVGHVT 104
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C +++G L W TTE ++ + G D+K ++ + G+S+GF ++ S+ V
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGT--VTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61
Query: 131 MERLPTLELHGRKPMVAYP 149
++ L+ P A P
Sbjct: 62 VKTQHILDGKVIDPKRAIP 80
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C L V L+ +TTE D+ + G DV + + +S+GF V + +
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 131 MERLPTLELHGRKPMVAYPT 150
ER +EL GR+ V+ P+
Sbjct: 74 KERANGMELDGRRIRVSGPS 93
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
+++G L+W TT+ D+ D G + +D + G+S+GF V ES+ VM+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFG--EVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
Query: 133 R 133
+
Sbjct: 60 Q 60
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 34.7 bits (78), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C L V L+ +TTE D+ + G DV + + +S+GF V + +
Sbjct: 13 CCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Query: 131 MERLPTLELHGRKPMVAY 148
ER +EL GR+ V +
Sbjct: 71 KERANGMELDGRRIRVDF 88
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C L V L+ +TTE D+ + G DV + + +S+GF V + +
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 131 MERLPTLELHGRKPMVAY 148
ER +EL GR+ V +
Sbjct: 74 KERANGMELDGRRIRVDF 91
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 33.9 bits (76), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C L V L+ +TTE D+ + G DV + + +S+GF V + +
Sbjct: 47 CCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Query: 131 MERLPTLELHGRKPMVAY 148
ER +EL GR+ V +
Sbjct: 105 KERANGMELDGRRIRVDF 122
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 33.9 bits (76), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
N+YVGNL + T + + G +VK + + KGF V + EES+S +
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFG--KVFNVKLIYDRETKKPKGFGFVEM-QEESVSEAI 59
Query: 132 ERLPTLELHGR 142
+L + GR
Sbjct: 60 AKLDNTDFMGR 70
>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 = 33.5 bits (75), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 2/80 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C +YVG++ + E + A G ID+ + ++ + KGF V E+ L
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW--DSVTMKHKGFAFVEYEVPEAAQLA 71
Query: 131 MERLPTLELHGRKPMVAYPT 150
+E++ ++ L GR V P+
Sbjct: 72 LEQMNSVMLGGRNIKVGRPS 91
>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 = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 2/80 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C +YVG++ + E + A G ID + ++ + KGF V E+ L
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSW--DSVTXKHKGFAFVEYEVPEAAQLA 70
Query: 131 MERLPTLELHGRKPMVAYPT 150
+E+ ++ L GR V P+
Sbjct: 71 LEQXNSVXLGGRNIKVGRPS 90
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 8/69 (11%)
Query: 74 YVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMER 133
Y+GN+ + TEAD+ +P F + F + + KG C + + E ++ +
Sbjct: 31 YIGNIPHFATEADL--------IPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVA 82
Query: 134 LPTLELHGR 142
L GR
Sbjct: 83 LANFPFQGR 91
>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 = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 74 YVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMER 133
+VG L+W T++ D+ D G + +D + + G+S+GF + S+ V+++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFG--EVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 30.8 bits (68), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 3/82 (3%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C +++G L+W TT+ + + G + + + +S+GF VT + + V
Sbjct: 26 CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 83
Query: 131 M-ERLPTLELHGRKPMVAYPTR 151
+ + L+ P VA+P R
Sbjct: 84 LAQSRHELDSKTIDPKVAFPRR 105
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
++VG L+ T E + + G + I++ +N +N + +GFC +T EE + +ME
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPM-DNKTN-KRRGFCFITFKEEEPVKKIME 59
Query: 133 R 133
+
Sbjct: 60 K 60
>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 = 30.0 bits (66), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
++VG L+ T E + + G + I++ +N +N + +GFC +T EE + +M
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPM-DNKTN-KRRGFCFITFKEEEPVKKIM 60
Query: 132 ER 133
E+
Sbjct: 61 EK 62
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 30.0 bits (66), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
L+VG L W TT+ + G + +D ++ + QS+GF V + V+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYG--EVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVL 75
Query: 132 ERLP 135
P
Sbjct: 76 ASRP 79
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 82 TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME-RLPTLELH 140
TE D+ ++S GV +V+ N S+GQS+GF V + + ME +L +
Sbjct: 13 ATEDDIRGQLQSHGVQAR-EVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNIL 71
Query: 141 GRKPMVAY 148
G+K + Y
Sbjct: 72 GQKVSMHY 79
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 30.0 bits (66), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
+L V L W TTE D+ + + G + VK ++ G SKGF V E+ VM
Sbjct: 17 DLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVK--KDLKTGHSKGFGFVRFTEYETQVKVM 74
Query: 132 ER 133
+
Sbjct: 75 SQ 76
>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 = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
+YVG++ + E + A G ID+ + ++ + KGF V E+ L
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW--DSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 131 MERLPTLELHGRKPMVAYPT 150
+E++ ++ L GR V P+
Sbjct: 87 LEQMNSVMLGGRNIKVGRPS 106
>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 = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
NL+VG+L + + +A + P ++ + G S+G+ V+ S++ M
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDF--PSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Query: 132 ERLPTLELHGRKPMVAYPTR 151
+ + +L+GR + + +
Sbjct: 61 DSMQGQDLNGRPLRINWAAK 80
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTV 119
C LYVGNL+++TTE + + G D + + + GFC V
Sbjct: 40 CTLYVGNLSFYTTEEQIYELFSKSG--DIKKIIMGLDKMKKTACGFCFV 86
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
NL+VG+L + + +A + P ++ + G S+G+ V+ S++ M
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDF--PSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 146
Query: 132 ERLPTLELHGRKPMVAYPTR 151
+ + +L+GR + + +
Sbjct: 147 DSMQGQDLNGRPLRINWAAK 166
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
+Y+G++ + TE + D ++G I++K + G+SKG+ + ES + +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVG--PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 64
Query: 133 RLPTLELHGRKPMVAYPT 150
L +L R Y +
Sbjct: 65 NLNGYQLGSRFLKCGYSS 82
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 4/73 (5%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C ++V NL + T + D G + D+K NG+SKG V S E
Sbjct: 9 CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM----ENGKSKGCGVVKFESPEVAERA 64
Query: 131 MERLPTLELHGRK 143
+ ++L GR+
Sbjct: 65 CRMMNGMKLSGRE 77
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIG 95
C LYVGNL+++TTE + + G
Sbjct: 19 CTLYVGNLSFYTTEEQIYELFSKSG 43
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
+Y+G++ + TE + D ++G I++K + G+SKG+ + ES + +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVG--PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 63
Query: 133 RLPTLELHGRKPMVAYPT 150
L +L R Y +
Sbjct: 64 NLNGYQLGSRFLKCGYSS 81
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
+Y+G++ + TE + D ++G I++K + G+SKG+ + ES + +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVG--PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 62
Query: 133 RLPTLELHGRKPMVAYPT 150
L +L R Y +
Sbjct: 63 NLNGYQLGSRFLKCGYSS 80
>pdb|2WU9|A Chain A, Crystal Structure Of Peroxisomal Kat2 From Arabidopsis
Thaliana
pdb|2WU9|B Chain B, Crystal Structure Of Peroxisomal Kat2 From Arabidopsis
Thaliana
Length = 442
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 DDAILGMGPTDTNTSPGEHVSTEHDDIDLYD 35
D AI+G+GP + + E DDIDL++
Sbjct: 309 DPAIMGIGPAVAIPAAVKAAGLELDDIDLFE 339
>pdb|2C7Y|A Chain A, Plant Enzyme
pdb|2C7Y|B Chain B, Plant Enzyme
pdb|2C7Z|A Chain A, Plant Enzyme Crystal Form Ii
Length = 404
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 DDAILGMGPTDTNTSPGEHVSTEHDDIDLYD 35
D AI+G+GP + + E DDIDL++
Sbjct: 292 DPAIMGIGPAVAIPAAVKAAGLELDDIDLFE 322
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 26.6 bits (57), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
L+V L+ TTE + ++ + + + G SKGF V SEE E
Sbjct: 18 LFVKGLSEDTTEETLKESFDGS-----VRARIVTDRETGSSKGFGFVDFNSEEDAKAAKE 72
Query: 133 RLPTLELHGRK 143
+ E+ G K
Sbjct: 73 AMEDGEIDGNK 83
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/61 (21%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
C +++G L+W TT+ + + G + + + +S+GF VT + + V
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58
Query: 131 M 131
+
Sbjct: 59 L 59
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 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,836,035
Number of Sequences: 62578
Number of extensions: 169483
Number of successful extensions: 277
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 39
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
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: 48 (23.1 bits)