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= 004006
(779 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 54/110 (49%), Gaps = 10/110 (9%)
Query: 147 EFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAA 206
E GK+F+G L + ++ F + GPI V+LIK + K+ GF F+ ++ PA
Sbjct: 3 EADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIK--DRTSKSRGFAFITFENPAD 60
Query: 207 EKSAMKAVEFDGVEFHGRVLTVK------LDDGRRLKNKAEVRARWVAGN 250
K+A K + +G HG+ + V+ G R + A R R +G+
Sbjct: 61 AKNAAK--DMNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPSGS 108
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/130 (22%), Positives = 57/130 (43%), Gaps = 9/130 (6%)
Query: 587 ARAGEMKRALEIFDMMRRSGCIPTVHTFNAL--ILGLVEKRQ-------MEKAIEILDEM 637
++ G++ AL ++D RR+G + + +N L + L E + + +I +M
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 638 TLAGISPNEHTYTTIMHGYASLGDTGKAFEYFTKLRNEGLELDVFTYEALLKACCKSGRM 697
+ + PNE T+T + D AF+ +++ G++ + +Y L C+ G
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 698 QSALAVTKEM 707
A V M
Sbjct: 157 DKAYEVDAHM 166
Score = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 36/170 (21%), Positives = 78/170 (45%), Gaps = 11/170 (6%)
Query: 478 INLYTKIGKVSKALEVSKVMKSSGIKHNMKTYSMLINGFLKLKDWANV----------FA 527
+++ +K G V +AL + + +G++ + Y++L+ L + A F
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFD 91
Query: 528 VFEDVMRDGLKPDVVLYNNIIRAFCGMGNMDRAIHIVKEMQKERHRPTSRTFMPIIHGFA 587
+F+ ++ D + P+ + N R + + A +VK+M+ +P R++ P + GF
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 588 RAGEMKRALEIFDMMRRSGCIPTVHTFNALILGLVEKRQMEKAIEILDEM 637
R G+ +A E+ M S +P AL+ ++ + +K + L +
Sbjct: 152 RKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRL 201
Score = 36.6 bits (83), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%)
Query: 312 MHRARQTFENMRARGIEPTLHVYTNLIHAYAVGRDMEEALSCVRKMKEEGIEMSLVTYSI 371
+ R F+ M + P +TN D E A V++MK GI+ L +Y
Sbjct: 86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145
Query: 372 IVGGFAKMGNAEAA 385
+ GF + G+A+ A
Sbjct: 146 ALFGFCRKGDADKA 159
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 9/104 (8%)
Query: 660 GDTGKAFEYFTKLRNEGLELDVFTYEALLKACC---------KSGRMQSALAVTKEMSAQ 710
GD +A + + R G++L + Y LL C + + + K+M
Sbjct: 40 GDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD 99
Query: 711 KIPRNTFVYNILIDGWARRGDVWEAADLMQQMKQEGVQPDVHTY 754
K+ N + + D A D+++QMK G+QP + +Y
Sbjct: 100 KVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSY 143
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/170 (16%), Positives = 67/170 (39%), Gaps = 11/170 (6%)
Query: 528 VFEDVMRDGLKPDVVLYNNIIRAFCGMG----------NMDRAIHIVKEMQKERHRPTSR 577
++++ R+G++ YN ++ C + + R I K+M ++ P
Sbjct: 48 LYDEARRNGVQLSQYHYN-VLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA 106
Query: 578 TFMPIIHGFARAGEMKRALEIFDMMRRSGCIPTVHTFNALILGLVEKRQMEKAIEILDEM 637
TF + + A ++ M+ G P + ++ + G K +KA E+ M
Sbjct: 107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
Query: 638 TLAGISPNEHTYTTIMHGYASLGDTGKAFEYFTKLRNEGLELDVFTYEAL 687
+ + P E ++ + K ++ +LR+ ++ T++ +
Sbjct: 167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMI 216
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 5/96 (5%)
Query: 149 RQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEK 208
R +FVGN+P + + + F + GP+ + L+ K G+GF Y
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRET-GKPKGYGFCEYQDQETAL 64
Query: 209 SAMKAVEFDGVEFHGRVLTVKLDDGRRLKNKAEVRA 244
SAM+ +G EF GR L ++D+ KNK E+++
Sbjct: 65 SAMR--NLNGREFSGRAL--RVDNAASEKNKEELKS 96
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 8/87 (9%)
Query: 142 SQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIY 201
+QEE + +FVGNL +++ ++ E F Q GP+ V + K K+ FGFV +
Sbjct: 11 AQEEAD----RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKS--FGFVCF 64
Query: 202 DGPAAEKSAMKAVEFDGVEFHGRVLTV 228
P + A+ + +G+ +GR + V
Sbjct: 65 KHPESVSYAIALL--NGIRLYGRPINV 89
>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 = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 33/136 (24%), Positives = 65/136 (47%), Gaps = 11/136 (8%)
Query: 143 QEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNV-GFGFVIY 201
++E ++ ++VGNL + + + E F + G IK +I+ G + +K GF FV Y
Sbjct: 31 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIM--GLDKMKKTACGFCFVEY 88
Query: 202 DGPAAEKSAMKAVEFDGVEFHGRVLTVKLDDGRRLKNKAEVRARWVAGNNGEEFRSTWHK 261
A ++AM+ + +G R++ D G + E R ++ G +G + R + +
Sbjct: 89 YSRADAENAMRYI--NGTRLDDRIIRTDWDAGFK-----EGR-QYGRGRSGGQVRDEYRQ 140
Query: 262 EREWHRREFRKAVETQ 277
+ + R + K + Q
Sbjct: 141 DYDAGRGGYGKLAQNQ 156
>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 = 40.4 bits (93), Expect = 0.004, Method: Composition-based stats.
Identities = 24/91 (26%), Positives = 45/91 (49%), Gaps = 4/91 (4%)
Query: 143 QEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
++E ++ ++VGNL + + + E F + G IK +I+ G + + GF FV Y
Sbjct: 10 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIM--GLDKMKTACGFCFVEYY 67
Query: 203 GPAAEKSAMKAVEFDGVEFHGRVLTVKLDDG 233
A ++AM+ + +G R++ D G
Sbjct: 68 SRADAENAMRYI--NGTRLDDRIIRTDWDAG 96
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 40.0 bits (92), Expect = 0.005, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 151 EGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSA 210
EGK+FVG L + + + F ++G I V+++K +++ GFGFV ++ K A
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRET-QRSRGFGFVTFENIDDAKDA 70
Query: 211 MKAVEFDGVEFHGRVLTV 228
M A+ +G GR + V
Sbjct: 71 MMAM--NGKSVDGRQIRV 86
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 54/126 (42%), Gaps = 9/126 (7%)
Query: 587 ARAGEMKRALEIFDMMRRSGCIPTVHTFNAL--ILGLVEKRQ-------MEKAIEILDEM 637
++ G++ AL ++D RR+G + + +N L + L E + + +I +
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQX 96
Query: 638 TLAGISPNEHTYTTIMHGYASLGDTGKAFEYFTKLRNEGLELDVFTYEALLKACCKSGRM 697
+ + PNE T+T + D AF+ + + G++ + +Y L C+ G
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 698 QSALAV 703
A V
Sbjct: 157 DKAYEV 162
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 28/131 (21%), Positives = 59/131 (45%), Gaps = 11/131 (8%)
Query: 478 INLYTKIGKVSKALEVSKVMKSSGIKHNMKTYSMLINGFLKLKDWANV----------FA 527
++ +K G V +AL + + +G++ + Y++L+ L + A F
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFD 91
Query: 528 VFEDVMRDGLKPDVVLYNNIIRAFCGMGNMDRAIHIVKEMQKERHRPTSRTFMPIIHGFA 587
+F+ + D + P+ + N R + + A VK+ + +P R++ P + GF
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 588 RAGEMKRALEI 598
R G+ +A E+
Sbjct: 152 RKGDADKAYEV 162
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 31/74 (41%)
Query: 312 MHRARQTFENMRARGIEPTLHVYTNLIHAYAVGRDMEEALSCVRKMKEEGIEMSLVTYSI 371
+ R F+ + P +TN D E A V++ K GI+ L +Y
Sbjct: 86 LSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGP 145
Query: 372 IVGGFAKMGNAEAA 385
+ GF + G+A+ A
Sbjct: 146 ALFGFCRKGDADKA 159
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMKA 213
I+VGNL V E F QFG + NV LI +K GFGFV E+S +A
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRET-KKPKGFGFV----EMQEESVSEA 58
Query: 214 V-EFDGVEFHGRVLTV 228
+ + D +F GR + V
Sbjct: 59 IAKLDNTDFMGRTIRV 74
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.1 bits (87), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 145 ETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGP 204
E F Q ++FVGNLP I + + + F ++G V + K+ GFGF+ +
Sbjct: 16 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI-------HKDKGFGFIRLETR 68
Query: 205 AAEKSAMKAVEFDGVEFHGRVLTVKL 230
+ A VE D + G+ L V+
Sbjct: 69 TLAEIA--KVELDNMPLRGKQLRVRF 92
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 14/116 (12%)
Query: 156 VGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDG-PAAEKSAMKAV 214
V NLP ++ L+ E F FG ++ ++I ++ + G G V + G PAA K+ +
Sbjct: 101 VRNLPQYVSNELLEEAFSVFGQVERAVVI--VDDRGRPSGKGIVEFSGKPAARKALDRCS 158
Query: 215 E--FDGVEFHGRVLTVKLDDGRRLKNKAEVRARWVAGNNGEEFRSTWHKEREWHRR 268
E F F V +D +L ++ + + V N +HKERE R
Sbjct: 159 EGSFLLTTFPRPVTVEPMD---QLDDEEGLPEKLVIKNQ------QFHKEREQPPR 205
>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 = 38.1 bits (87), Expect = 0.020, Method: Composition-based stats.
Identities = 27/106 (25%), Positives = 56/106 (52%), Gaps = 10/106 (9%)
Query: 138 SLATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVG-- 195
S+ + + E + +F+ +LP +++ F FG NV+ K + + + N+
Sbjct: 12 SIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFG---NVVSAKVFIDKQTNLSKC 68
Query: 196 FGFVIYDGPAAEKSAMKAVEFDGVEFHGRVLTVKLDDGRRLKNKAE 241
FGFV YD P + ++A++++ +G + + L V+L +R KN ++
Sbjct: 69 FGFVSYDNPVSAQAAIQSM--NGFQIGMKRLKVQL---KRSKNDSK 109
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 37.7 bits (86), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 4/88 (4%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
KIFVG +P+ + + E+F++FG + V++I ++ GFGF+ ++ E+S +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEK-QRPRGFGFITFE---DEQSVDQ 67
Query: 213 AVEFDGVEFHGRVLTVKLDDGRRLKNKA 240
AV + G+ + VK + R K+
Sbjct: 68 AVNMHFHDIMGKKVEVKRAEPRDSKSSG 95
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 37.7 bits (86), Expect = 0.028, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 8/85 (9%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMKA 213
++VG+L I + ++ F FG I N++L+K ++ ++ G+GF+ + + A++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKD-SDTGRSKGYGFITFSDSECARRALE- 65
Query: 214 VEFDGVEFHGRVLTV-----KLDDG 233
+ +G E GR + V +LD G
Sbjct: 66 -QLNGFELAGRPMRVGHVTERLDGG 89
>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 = 37.4 bits (85), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 145 ETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGP 204
E F Q ++FVGNLP I + + + F ++G V + K+ GFGF+ +
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI-------HKDKGFGFIRLETR 61
Query: 205 AAEKSAMKAVEFDGVEFHGRVLTVKL 230
+ A VE D + G+ L V+
Sbjct: 62 TLAEIA--KVELDNMPLRGKQLRVRF 85
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 36.6 bits (83), Expect = 0.053, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIY 201
++VGNL I + ++ ++F+ GPI N+ ++ NN KNV + FV Y
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN--KNVNYAFVEY 48
>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 = 36.2 bits (82), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 153
Score = 32.7 bits (73), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 140 ATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFV 199
+ S+ E Q K+F+G L + F Q+G + + ++++ N +++ GFGFV
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGFV 59
Query: 200 IYDGPAAEKSAMKA 213
Y +AM A
Sbjct: 60 TYATVEEVDAAMNA 73
>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 = 36.2 bits (82), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 154
Score = 33.5 bits (75), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 139 LATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGF 198
++ S+ E Q K+F+G L + F Q+G + + ++++ N +++ GFGF
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGF 59
Query: 199 VIYDGPAAEKSAMKA 213
V Y +AM A
Sbjct: 60 VTYATVEEVDAAMNA 74
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 36.2 bits (82), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 155
Score = 32.3 bits (72), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 140 ATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFV 199
+ S+ E Q K+F+G L + F Q+G + + ++++ N +++ GFGFV
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGFV 61
Query: 200 IYDGPAAEKSAMKA 213
Y +AM A
Sbjct: 62 TYATVEEVDAAMNA 75
>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 = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 147
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
K+F+G L + F Q+G + + ++++ N +++ GFGFV Y +AM
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGFVTYATVEEVDAAMN 66
Query: 213 A 213
A
Sbjct: 67 A 67
>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 = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIK 185
K+F+G LPN++ V E FGP+K L+K
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK 130
>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 = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIK 185
K+F+G LPN++ V E FGP+K L+K
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK 148
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIK 185
K+F+G LPN++ V E FGP+K L+K
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK 128
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIK 185
K+F+G LPN++ V E FGP+K L+K
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK 35
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 154
Score = 33.5 bits (75), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 139 LATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGF 198
++ S+ E Q K+F+G L + F Q+G + + ++++ N +++ GFGF
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGF 59
Query: 199 VIYDGPAAEKSAMKA 213
V Y +AM A
Sbjct: 60 VTYATVEEVDAAMNA 74
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 35.4 bits (80), Expect = 0.13, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 143 QEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
Q++T F KIFVG LP + ++F FG I+ ++I K+ G+GFV
Sbjct: 12 QKDTTFT---KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT-GKSRGYGFVTMA 67
Query: 203 GPAAEKSAMK 212
AA + A K
Sbjct: 68 DRAAAERACK 77
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
KIFVG + ++H + ++F Q+G I+ VI I K GF FV +D
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFD 152
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 142 SQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIY 201
S+ E Q K+F+G L + F Q+G + + ++++ N +++ GFGFV Y
Sbjct: 2 SESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT-KRSRGFGFVTY 60
Query: 202 DGPAAEKSAMKA 213
+AM A
Sbjct: 61 ATVEEVDAAMNA 72
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 1/95 (1%)
Query: 138 SLATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFG 197
S +S + + + KI V N+P + + E F FG +K V L K + GFG
Sbjct: 2 SSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFG 61
Query: 198 FVIYDGPAAEKSAMKAVEFDGVEFHGRVLTVKLDD 232
FV + K A A+ +GR L ++ D
Sbjct: 62 FVDFITKQDAKKAFNAL-CHSTHLYGRRLVLEWAD 95
>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 = 35.0 bits (79), Expect = 0.16, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 147 EFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAA 206
E + GKIFVG + ++ EFF Q+G I + L+ + + GFGFV YD A
Sbjct: 83 EQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSR-GFGFVTYDSADA 141
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 34.3 bits (77), Expect = 0.26, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
K++VGNL N K + F +GP+++V + + GF FV ++ P A++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVAR------NPPGFAFVEFEDPRDAADAVR 128
Query: 213 AVEFDGVEFHGRVLTVKLDDGRR 235
E DG G + V+L +G +
Sbjct: 129 --ELDGRTLCGCRVRVELSNGEK 149
>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 = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 134 SPSSSLATSQEETEF----RQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNN 189
SP+++ TS++ E R+ + V NLP ++ V ++F+ GPI I + ++
Sbjct: 20 SPAAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPI---IHVDVADS 76
Query: 190 FEKNVGFG---FVIYDGPAA 206
+KN F F YDG A
Sbjct: 77 LKKNFRFARIEFARYDGALA 96
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 33.5 bits (75), Expect = 0.42, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 152 GKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGP 204
GK+FVG L + + +F Q+G + + +++K ++ GFGFV + P
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTT-NQSRGFGFVKFKDP 68
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 33.5 bits (75), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 5/84 (5%)
Query: 146 TEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPA 205
+E Q+ ++VG L + + L+ E F Q GP+ N + K + G+GFV +
Sbjct: 10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQ-GYGFVEF---L 65
Query: 206 AEKSAMKAVEF-DGVEFHGRVLTV 228
+E+ A A++ D ++ +G+ + V
Sbjct: 66 SEEDADYAIKIMDMIKLYGKPIRV 89
>pdb|2QX5|A Chain A, Structure Of Nucleoporin Nic96
pdb|2QX5|B Chain B, Structure Of Nucleoporin Nic96
Length = 661
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 616 ALILGLVEKRQMEKAIEILDEMTLAGISPNEHTYTTIMHGYASLGDTGKAFEYFTKLRNE 675
ALI L+ +++A+++L E A I E ++ T YAS D G EY TKL E
Sbjct: 157 ALIFYLLRAGLIKEALQVLVENK-ANIKKVEQSFLTYFKAYASSKDHGLPVEYSTKLHTE 215
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.1 bits (74), Expect = 0.57, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
+I+VGNLP I+ + + F ++G I+++ L N F FV ++ P + A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL----KNRRGGPPFAFVEFEDPRDAEDAVY 79
Query: 213 AVEFDGVEFHGRVLTVKL 230
DG ++ G L V+
Sbjct: 80 GR--DGYDYDGYRLRVEF 95
>pdb|2RFO|A Chain A, Crystral Structure Of The Nucleoporin Nic96
pdb|2RFO|B Chain B, Crystral Structure Of The Nucleoporin Nic96
Length = 651
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 616 ALILGLVEKRQMEKAIEILDEMTLAGISPNEHTYTTIMHGYASLGDTGKAFEYFTKLRNE 675
ALI L+ +++A+++L E A I E ++ T YAS D G EY TKL E
Sbjct: 147 ALIFYLLRAGLIKEALQVLVE-NKANIKKVEQSFLTYFKAYASSKDHGLPVEYSTKLHTE 205
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 33.1 bits (74), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 40/71 (56%), Gaps = 4/71 (5%)
Query: 143 QEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYD 202
+E+ +FR K+F+G L + + ++ Q+G + + ++++ + +++ GFGFV +
Sbjct: 22 REKEQFR---KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPAS-KRSRGFGFVTFS 77
Query: 203 GPAAEKSAMKA 213
A +AM A
Sbjct: 78 SMAEVDAAMAA 88
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.1 bits (74), Expect = 0.65, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
K++VGNL N K + F +GP+++V + + GF FV ++ P A++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVAR------NPPGFAFVEFEDPRDAADAVR 128
Query: 213 AVEFDGVEFHGRVLTVKLDDGRR 235
+ DG G + V+L +G +
Sbjct: 129 --DLDGRTLCGCRVRVELSNGEK 149
>pdb|3RIH|A Chain A, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|B Chain B, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|C Chain C, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|D Chain D, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
Length = 293
Score = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 10/100 (10%)
Query: 352 SCVRKMKEEGIEMSLVTYSI---IVG--GFAKMGNAEAADHWFE-----EAKERHATLNA 401
+C+ + G ++T SI + G G++ G ++AA F E R T+NA
Sbjct: 160 ACLAPLTASGRGRVILTSSITGPVTGYPGWSHYGASKAAQLGFMRTAAIELAPRGVTVNA 219
Query: 402 IIYGNIIYAQCQTRNMERAEALVRDMEEEGIDAPIDIYHM 441
I+ GNI+ E + R + + +P+DI H+
Sbjct: 220 ILPGNILTEGLVDMGEEYISGMARSIPMGMLGSPVDIGHL 259
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 32.7 bits (73), Expect = 0.71, Method: Composition-based stats.
Identities = 29/104 (27%), Positives = 47/104 (45%), Gaps = 11/104 (10%)
Query: 134 SPSSSLATSQEETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKN 193
S SS +AT++ ++VG L + ++ F FG I ++ + Y EK+
Sbjct: 3 SGSSGMATTKR--------VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET-EKH 53
Query: 194 VGFGFVIYDGPAAEKSAMKAVEFDGVEFHGRVLTVKLDDGRRLK 237
GF FV ++ AE +A + E GR + V L R+K
Sbjct: 54 RGFAFVEFE--LAEDAAAAIDNMNESELFGRTIRVNLAKPMRIK 95
>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 = 32.7 bits (73), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 44/77 (57%), Gaps = 5/77 (6%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFE-KNVGFGFVIYDGPAAEKSAM 211
+++VG++ + + + + F FGPIK++ + +++ K+ GF FV Y+ P A + A+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDM--SWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 212 KAVEFDGVEFHGRVLTV 228
+ + + V GR + V
Sbjct: 73 E--QMNSVMLGGRNIKV 87
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.7 bits (73), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 9/86 (10%)
Query: 145 ETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGP 204
E + Q ++FVGNLP I + F ++G V + ++ GFGF+ +
Sbjct: 16 EKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFI-------NRDRGFGFIRLESR 68
Query: 205 AAEKSAMKAVEFDGVEFHGRVLTVKL 230
+ + E DG R L ++
Sbjct: 69 TL--AEIAKAELDGTILKSRPLRIRF 92
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 156 VGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMKAVE 215
V NL + L+ + F QFGP++ +++ ++ + G GFV + AA+ A KA+E
Sbjct: 101 VKNLSPVVSNELLEQAFSQFGPVEKAVVV--VDDRGRATGKGFVEF---AAKPPARKALE 155
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFV-IYDGPAAE 207
K+F+GNLP + + F Q+G + +IK Y GFV I D AAE
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNY---------GFVHIEDKTAAE 56
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.3 bits (72), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 686 ALLKACCKSGRMQSA--LAVTKEMSAQKIPRNTF-VYNILIDGWARRGDVWEAADLMQQM 742
A K C + ++ A L V QK T +YN ++ GWAR+G E ++ +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191
Query: 743 KQEGVQPDVHTYTSFINA 760
K G+ PD+ +Y + +
Sbjct: 192 KDAGLTPDLLSYAAALQC 209
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 40/83 (48%), Gaps = 7/83 (8%)
Query: 436 IDIYHMMMDGYTIIGNEEKCLIVFERLKECGFSPSIISYG----CLINLYTKIGKVSKAL 491
+D+Y+ +M G+ G ++ + V +K+ G +P ++SY C+ G + + L
Sbjct: 165 LDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCL 224
Query: 492 EVSKVMKSSGIKHNMKTYSMLIN 514
E M G+K ++L++
Sbjct: 225 E---QMSQEGLKLQALFTAVLLS 244
>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 = 32.3 bits (72), Expect = 1.0, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 4/78 (5%)
Query: 152 GKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAM 211
GK FVG L K + ++F +FG + + IK N ++ GFGF+++ A+ + +
Sbjct: 12 GKXFVGGLSWDTSKKDLKDYFTKFGEVVDCT-IKXDPNTGRSRGFGFILFKDAASVEKVL 70
Query: 212 KAVEFDGVEFHGRVLTVK 229
E GRV+ K
Sbjct: 71 DQKEH---RLDGRVIDPK 85
>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 = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 44/77 (57%), Gaps = 5/77 (6%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFE-KNVGFGFVIYDGPAAEKSAM 211
+++VG++ + + + + F FGPIK++ + +++ K+ GF FV Y+ P A + A+
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDM--SWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 212 KAVEFDGVEFHGRVLTV 228
+ + + V GR + V
Sbjct: 88 E--QMNSVMLGGRNIKV 102
>pdb|1CP9|B Chain B, Crystal Structure Of Penicillin G Acylase From The Bro1
Mutant Strain Of Providencia Rettgeri
Length = 553
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/113 (23%), Positives = 46/113 (40%), Gaps = 11/113 (9%)
Query: 304 NYYARRGDMHRARQTFENMRARGIEP-TLHVYTNLIHAYAVGRDMEEALSCVRKMKEEGI 362
N Y +G + E + +G +P T +Y +H V RD + + +G
Sbjct: 88 NSYLHQGQWKKMLSRQETLNVKGEQPITFEIY-RTVHGNVVKRDKTTHTAYSKARAWDGK 146
Query: 363 EMSLVTYSIIVGGFAKMGNAEAADHWFEEAKERHATLN---AIIYGNIIYAQC 412
E++ + + K G A+ W ++A+ + T+N A GNI Y
Sbjct: 147 ELTSLM------AWVKQGQAQNWQQWLDQAQNQALTINWYYADKDGNIGYVHT 193
>pdb|3HOA|A Chain A, Crystal Structure Of The Thermus Thermophilus M32
Carboxypeptidase
pdb|3HOA|B Chain B, Crystal Structure Of The Thermus Thermophilus M32
Carboxypeptidase
Length = 509
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 13/162 (8%)
Query: 308 RRGDMHRARQTFENMR---ARGIEPTLHVYTNLIHAYAVGRD-MEEALSCVRKMKEEGIE 363
++G HRARQ R R +P + + + + +D + +A VR+ ++
Sbjct: 37 KKGHEHRARQMAALARLLHQRMTDPRIGEWLEKVEGSPLVQDPLSDAAVNVREWRQAYER 96
Query: 364 MSLVTYSIIVGGFAKMGNAEA-ADHWFEEAKERHATLNAIIYGNIIYAQCQTRNMERAEA 422
+ + V ++ AE+ A+ ++EEA+ R + Y +YA + E+AE
Sbjct: 97 ARAIPERLAV----ELAQAESEAESFWEEARPRDDWRGFLPYLKRVYALTK----EKAEV 148
Query: 423 LVRDMEEEGIDAPIDIYHMMMDGYTIIGNEEKCLIVFERLKE 464
L G ++Y ++DGY + L +F LKE
Sbjct: 149 LFALPPAPGDPPYGELYDALLDGYEPGMRARELLPLFAELKE 190
>pdb|1WGZ|A Chain A, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
pdb|1WGZ|B Chain B, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
pdb|1WGZ|C Chain C, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
Length = 510
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 13/162 (8%)
Query: 308 RRGDMHRARQTFENMR---ARGIEPTLHVYTNLIHAYAVGRD-MEEALSCVRKMKEEGIE 363
++G HRARQ R R +P + + + + +D + +A VR+ ++
Sbjct: 37 KKGHEHRARQMAALARLLHQRMTDPRIGEWLEKVEGSPLVQDPLSDAAVNVREWRQAYER 96
Query: 364 MSLVTYSIIVGGFAKMGNAEA-ADHWFEEAKERHATLNAIIYGNIIYAQCQTRNMERAEA 422
+ + V ++ AE+ A+ ++EEA+ R + Y +YA + E+AE
Sbjct: 97 ARAIPERLAV----ELAQAESEAESFWEEARPRDDWRGFLPYLKRVYALTK----EKAEV 148
Query: 423 LVRDMEEEGIDAPIDIYHMMMDGYTIIGNEEKCLIVFERLKE 464
L G ++Y ++DGY + L +F LKE
Sbjct: 149 LFALPPAPGDPPYGELYDALLDGYEPGMRARELLPLFAELKE 190
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
K+ V NL + + E F +FG +K + Y+ +++G V ++ A AMK
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAV--HYDRSGRSLGTADVHFERKADALKAMK 87
Query: 213 AVEFDGVEFHGRVLTVKL 230
+++GV GR + ++L
Sbjct: 88 --QYNGVPLDGRPMNIQL 103
>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 = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 5/77 (6%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNF-EKNVGFGFVIYDGPAAEKSAM 211
+++VG++ + + + + F FGPIK++ +++ K+ GF FV Y+ P A + A+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSI--DXSWDSVTXKHKGFAFVEYEVPEAAQLAL 71
Query: 212 KAVEFDGVEFHGRVLTV 228
+ + + V GR + V
Sbjct: 72 E--QXNSVXLGGRNIKV 86
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 21/81 (25%)
Query: 149 RQEG-----KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDG 203
RQEG ++FV P +++ + E F FGP+K V ++ GF FV ++
Sbjct: 24 RQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN---------GFAFVEFE- 73
Query: 204 PAAEKSAMKAVEFDGVEFHGR 224
+SA KA+E E HG+
Sbjct: 74 --EAESAAKAIE----EVHGK 88
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
+++VG+L I + ++ F FG I+++ L+ ++ G+GF+ + K A++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSET-GRSKGYGFITFSDSECAKKALE 86
Query: 213 AVEFDGVEFHGRVLTV 228
+ +G E GR + V
Sbjct: 87 --QLNGFELAGRPMKV 100
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 45/94 (47%), Gaps = 14/94 (14%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMKA 213
+FV NL N + + ++ + F QFG ++ V +K Y F+ +D AM+
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKDY---------AFIHFDERDGAVKAME- 63
Query: 214 VEFDGVEFHG---RVLTVKLDDGRRLKNKAEVRA 244
E +G + G ++ K D +R + KA+ +A
Sbjct: 64 -EMNGKDLEGENIEIVFAKPPDQKRKERKAQRQA 96
>pdb|1X3L|A Chain A, Crystal Structure Of The Ph0495 Protein From Pyrococccus
Horikoshii Ot3
Length = 440
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%)
Query: 410 AQCQTRNMERAEALVRDMEEEGIDAPIDIYHMMMDGYTIIGNEEKCLIVFERLKE 464
A TR + EAL+ + +G D P D ++DG T EK + V + LKE
Sbjct: 348 ALSATRKISDLEALIVAFDTDGTDGPTDAAGGIVDGTTYKKLREKGIDVEKVLKE 402
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 30.8 bits (68), Expect = 3.3, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIY 201
K+F+G L + + E+F QFG +K ++++ +++ GFGFV +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT-KRSRGFGFVTF 49
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 30.8 bits (68), Expect = 3.4, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 152 GKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAM 211
K+ V NL + + E F +FG +K + Y+ +++G V ++ A AM
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAM 93
Query: 212 KAVEFDGVEFHGRVLTVKL 230
K ++ GV GR + ++L
Sbjct: 94 K--QYKGVPLDGRPMDIQL 110
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 30.8 bits (68), Expect = 3.4, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 152 GKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAM 211
K+ V NL + + E F +FG +K + Y+ +++G V ++ A AM
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAM 93
Query: 212 KAVEFDGVEFHGRVLTVKL 230
K ++ GV GR + ++L
Sbjct: 94 K--QYKGVPLDGRPMDIQL 110
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 12/77 (15%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNV-ILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
++V NL + I + + F FG I + ++++G ++ GFGFV + P + A K
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG----GRSKGFGFVCFSSP---EEATK 70
Query: 213 AVEFDGVEFHGRVLTVK 229
AV E +GR++ K
Sbjct: 71 AV----TEMNGRIVATK 83
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 30.4 bits (67), Expect = 3.9, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIY 201
K+F+G L + + E+F QFG +K ++++ +++ GFGFV +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT-KRSRGFGFVTF 74
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 30.4 bits (67), Expect = 4.1, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 153 KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMK 212
K++VGNL K + F +GP++ V + + GF FV ++ P + A++
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIAR------NPPGFAFVEFEDPRDAEDAVR 55
Query: 213 AVEFDGVEFHGRVLTVKLDDG 233
+ DG G + V+L G
Sbjct: 56 GL--DGKVICGSRVRVELSTG 74
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 29/93 (31%), Positives = 43/93 (46%), Gaps = 13/93 (13%)
Query: 151 EGKI-----FVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPA 205
EGKI FVG + + + + FF ++G +K V +I K G+GFV +
Sbjct: 4 EGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK--GYGFVSF---Y 58
Query: 206 AEKSAMKAVEFDGVEFHGRVLTVKLDDGRRLKN 238
+ K VE + FHG+ L KL R +N
Sbjct: 59 NDVDVQKIVE-SQINFHGKKL--KLGPAIRKQN 88
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 30.0 bits (66), Expect = 5.2, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 11/83 (13%)
Query: 151 EGKI-----FVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPA 205
EGKI FVG + + + + FF ++G +K V +I K G+GFV +
Sbjct: 4 EGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK--GYGFVSF---Y 58
Query: 206 AEKSAMKAVEFDGVEFHGRVLTV 228
+ K VE + FHG+ L +
Sbjct: 59 NDVDVQKIVE-SQINFHGKKLKL 80
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 30.0 bits (66), Expect = 5.3, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 152 GKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAM 211
K+ V NL + + E F +FG +K + Y+ +++G V ++ A AM
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAM 146
Query: 212 KAVEFDGVEFHGRVLTVKL 230
K ++ GV GR + ++L
Sbjct: 147 K--QYKGVPLDGRPMDIQL 163
>pdb|2AXP|A Chain A, X-Ray Crystal Structure Of Protein Bsu20280 From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr256.
pdb|2AXP|B Chain B, X-Ray Crystal Structure Of Protein Bsu20280 From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr256.
pdb|3KB2|A Chain A, Crystal Structure Of Yorr Protein In Complex With
Phosphorylated Gdp From Bacillus Subtilis, Northeast
Structural Genomics Consortium Target Sr256
pdb|3KB2|B Chain B, Crystal Structure Of Yorr Protein In Complex With
Phosphorylated Gdp From Bacillus Subtilis, Northeast
Structural Genomics Consortium Target Sr256
Length = 173
Score = 30.0 bits (66), Expect = 5.4, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 367 VTYSIIVGG---FAKMGNAEAADHWFEEAKERHATLNAIIYGNIIYAQ 411
+ Y II G AK GN + +H+ + A E + ++ +Y N++YA+
Sbjct: 25 LKYPIIKGSSFELAKSGNEKLFEHFNKLADEDNVIIDRFVYSNLVYAK 72
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 30.0 bits (66), Expect = 5.7, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNN--FEKNVGFGFVIYDGPAAEKSAM 211
+F+ NL + + F + G IK+ + K N ++GFGFV Y P + A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 212 KAVEFDGVEFH 222
K ++ V+ H
Sbjct: 68 KQLQGHTVDGH 78
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 30.0 bits (66), Expect = 5.7, Method: Composition-based stats.
Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 145 ETEFRQEGKIFVGNLPNWIKKHLVMEFFRQFGPIKN-----VILIKGYNNFE--KNVGFG 197
E + IFV L + V ++F+Q G IK +I Y + E K G
Sbjct: 1 EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEA 60
Query: 198 FVIYDGPAAEKSAMKAVEFDGVEFHGRVLTVKLDDGR 234
V +D P + K+A+ FDG EF G + V R
Sbjct: 61 TVSFDDPPSAKAAIDW--FDGKEFSGNPIKVSFATRR 95
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 30.0 bits (66), Expect = 5.8, Method: Composition-based stats.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 154 IFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKSAMKA 213
+FVG + + + + FF ++G +K V +I K G+GFV + + K
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK--GYGFVSF---YNDVDVQKI 67
Query: 214 VEFDGVEFHGRVLTVKLDDGRRLKN 238
VE + FHG+ L KL R +N
Sbjct: 68 VE-SQINFHGKKL--KLGPAIRKQN 89
>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 = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 142 SQEETEFRQEG--KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFV 199
SQ + R+ G IF+ NL I + + F FG N++ K + + G+GFV
Sbjct: 92 SQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG---NILSCKVVCDENGSKGYGFV 148
Query: 200 IYDGPAAEKSAMKAVE-FDGVEFHGRVLTVKLDDGRRLKNKAEVRAR 245
++ +++A +A+E +G+ + R + V R+ + +AE+ AR
Sbjct: 149 HFE---TQEAAERAIEKMNGMLLNDRKVFVGRFKSRK-EREAELGAR 191
>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 = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 142 SQEETEFRQEG--KIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFV 199
SQ + R+ G IF+ NL I + + F FG N++ K + + G+GFV
Sbjct: 87 SQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG---NILSCKVVCDENGSKGYGFV 143
Query: 200 IYDGPAAEKSAMKAVE-FDGVEFHGRVLTVKLDDGRRLKNKAEVRAR 245
++ +++A +A+E +G+ + R + V R+ + +AE+ AR
Sbjct: 144 HFE---TQEAAERAIEKMNGMLLNDRKVFVGRFKSRK-EREAELGAR 186
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 150 QEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKS 209
++ K+F+G + ++ + F FG I+ +++G + + G FV + A ++
Sbjct: 94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR--GCAFVTFTTRAMAQT 151
Query: 210 AMKAV 214
A+KA+
Sbjct: 152 AIKAM 156
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 150 QEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILIKGYNNFEKNVGFGFVIYDGPAAEKS 209
++ K+F+G + ++ + F FG I+ +++G + + G FV + A ++
Sbjct: 106 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR--GCAFVTFTTRAMAQT 163
Query: 210 AMKAV 214
A+KA+
Sbjct: 164 AIKAM 168
>pdb|3VPX|A Chain A, Crystal Structure Of Leucine Dehydrogenase From A
Psychrophilic Bacterium Sporosarcina Psychrophila.
pdb|3VPX|B Chain B, Crystal Structure Of Leucine Dehydrogenase From A
Psychrophilic Bacterium Sporosarcina Psychrophila
Length = 364
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 12/75 (16%)
Query: 405 GNIIYAQCQTRNMERAEALVRDMEEEGIDAPIDIYHMMMDGYTIIGNEEKCLIVFERLKE 464
GN+ YA C+ + E A+ ++ D+ EE + +D + G T +G E ++ + +
Sbjct: 182 GNVAYALCEYLHEEGAKLIITDINEEAVQRAVDAF-----GATAVGINE----IYSQEAD 232
Query: 465 CGFSPSIISYGCLIN 479
F+P + G +IN
Sbjct: 233 I-FAPCAL--GAIIN 244
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 29.3 bits (64), Expect = 9.7, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 150 QEGKIFVGNLPNWIKKHLVMEFFRQFGPIKNVILI 184
Q ++VGNL + + L+++ F Q GP K+ +I
Sbjct: 14 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMI 48
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
0.320 0.134 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,259,432
Number of Sequences: 62578
Number of extensions: 846260
Number of successful extensions: 2275
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 70
Number of HSP's that attempted gapping in prelim test: 2203
Number of HSP's gapped (non-prelim): 130
length of query: 779
length of database: 14,973,337
effective HSP length: 106
effective length of query: 673
effective length of database: 8,340,069
effective search space: 5612866437
effective search space used: 5612866437
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)