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= psy93
(503 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 233 bits (594), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 122/253 (48%), Positives = 169/253 (66%), Gaps = 12/253 (4%)
Query: 110 FANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKL 169
+ CRL++GN+ DITE D LF+ YGE E+FIN+++ FGFIR++ + A+ AKA+L
Sbjct: 19 YTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAEL 78
Query: 170 DGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDERGNSKC 229
DG +LK R L+IRFA AA+ VKNL+ V+NELLE AF FG +E+A+V+VD+RG +
Sbjct: 79 DGTILKSRPLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATG 138
Query: 230 EGIVEFARKPAAAQALRRCAEGCFFLTQSLRPVIVEPLELTDEIDGLSERTINKKTPEFY 289
+G VEFA KP A +AL RC +G F LT + RPVIVEP+E D+ DGL E+ + +KT +++
Sbjct: 139 KGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFDDEDGLPEK-LMQKTQQYH 197
Query: 290 KQRQVGPRFATVNSFEFEYGSRWKQLHELYEHETEMLRKELAQREIDRERQKAEWEMKER 349
K+R+ PRFA +FEFEY SRWK L E+ E ++E R I ++K E EM
Sbjct: 198 KEREQPPRFAQPGTFEFEYASRWKALDEM-----EKQQREQVDRNIREAKEKLEAEM--- 249
Query: 350 QAEELKRRDEELM 362
E R + +LM
Sbjct: 250 ---EAARHEHQLM 259
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 214 bits (545), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 117/257 (45%), Positives = 170/257 (66%), Gaps = 9/257 (3%)
Query: 91 IQGPTLDLPP-SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEK 149
++G T+DL +P K F RL++GN+ DITE ++ +LF+ YG+ E+FI+K+K
Sbjct: 1 MEGLTIDLKNFRKPGEKT--FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK 58
Query: 150 MFGFIRMDYKHNADKAKAKLDGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFG 209
FGFIR++ + A+ AK +LD L+G+ L++RFA +A++ V+NL V+NELLE AF
Sbjct: 59 GFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSASLTVRNLPQYVSNELLEEAFS 118
Query: 210 VFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQALRRCAEGCFFLTQSLRPVIVEPLEL 269
VFG +ERA+VIVD+RG +GIVEF+ KPAA +AL RC+EG F LT RPV VEP++
Sbjct: 119 VFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKALDRCSEGSFLLTTFPRPVTVEPMDQ 178
Query: 270 TDEIDGLSERTINKKTPEFYKQRQVGPRFATVNSFEFEYGSRWKQLHELYEHETEMLRKE 329
D+ +GL E+ + K +F+K+R+ PRFA SFE+EY RWK L E+ + + + +
Sbjct: 179 LDDEEGLPEKLVIKNQ-QFHKEREQPPRFAQPGSFEYEYAMRWKALIEMEKQQQDQV--- 234
Query: 330 LAQREIDRERQKAEWEM 346
R I R+K E EM
Sbjct: 235 --DRNIKEAREKLEMEM 249
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 58/81 (71%)
Query: 110 FANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKL 169
F RL++GN+ DITE ++ +LF+ YG+ E+FI+K+K FGFIR++ + A+ AK +L
Sbjct: 12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVEL 71
Query: 170 DGHVLKGRSLKIRFAPINAAI 190
D L+G+ L++RFA +A++
Sbjct: 72 DNMPLRGKQLRVRFACHSASL 92
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 68/137 (49%), Gaps = 2/137 (1%)
Query: 109 KFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAK 168
+F N ++ + + GD+T ++ +L Y E + F++K K F+ + A+ A
Sbjct: 18 QFRNRRKILIRGLPGDVTNQEVHDLLSDY-ELKYCFVDKYKGTAFVTLLNGEQAEAAINA 76
Query: 169 LDGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDER-GNS 227
L+ R L ++ P +A + V NL +T + E FG +ER ++ ER G S
Sbjct: 77 FHQSRLRERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQS 136
Query: 228 KCEGIVEFARKPAAAQA 244
K G E+ +K +AA+A
Sbjct: 137 KGYGFAEYMKKDSAARA 153
Score = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 47/112 (41%), Gaps = 6/112 (5%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
L + N+ +T+ EL +P+G + F+ + K +GF K +A +AK+ L
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 170 DGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIV 221
G L R+L + + + C+ + L F + RA+ V
Sbjct: 158 LGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAV 209
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 68/137 (49%), Gaps = 2/137 (1%)
Query: 109 KFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAK 168
+F N ++ + + GD+T ++ +L Y E + F++K K F+ + A+ A
Sbjct: 18 QFRNRRKILIRGLPGDVTNQEVHDLLSDY-ELKYCFVDKYKGTAFVTLLNGEQAEAAINA 76
Query: 169 LDGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDER-GNS 227
L+ R L ++ P +A + V NL +T + E FG +ER ++ ER G S
Sbjct: 77 FHQSRLRERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQS 136
Query: 228 KCEGIVEFARKPAAAQA 244
K G E+ +K +AA+A
Sbjct: 137 KGYGFAEYMKKDSAARA 153
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 47/112 (41%), Gaps = 6/112 (5%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
L + N+ +T+ EL +P+G + F+ + K +GF K +A +AK+ L
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 170 DGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIV 221
G L R+L + + + C+ + L F + RA+ V
Sbjct: 158 LGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAV 209
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 68/137 (49%), Gaps = 2/137 (1%)
Query: 109 KFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAK 168
+F N ++ + + GD+T ++ +L Y E + F++K K F+ + A+ A
Sbjct: 16 QFRNRRKILIRGLPGDVTNQEVHDLLSDY-ELKYCFVDKYKGTAFVTLLNGEQAEAAINA 74
Query: 169 LDGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDER-GNS 227
L+ R L ++ P +A + V NL +T + E FG +ER ++ ER G S
Sbjct: 75 FHQSRLRERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQS 134
Query: 228 KCEGIVEFARKPAAAQA 244
K G E+ +K +AA+A
Sbjct: 135 KGYGFAEYMKKDSAARA 151
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 47/112 (41%), Gaps = 6/112 (5%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
L + N+ +T+ EL +P+G + F+ + K +GF K +A +AK+ L
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 170 DGHVLKGRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIV 221
G L R+L + + + C+ + L F + RA+ V
Sbjct: 156 LGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAV 207
>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 = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 44/169 (26%), Positives = 82/169 (48%), Gaps = 21/169 (12%)
Query: 93 GPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM-- 150
GP + PS P LY+G++ D+TE + E F P G + + ++ +
Sbjct: 1 GPLGSMNPSAPSYP------MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITR 54
Query: 151 --FGFIRMDYKHNADKAKA--KLDGHVLKGRSLKIRFAPINAAIK--------VKNLTSC 198
G+ ++++ AD +A ++ V+KG+ ++I ++ + +++ +KNL
Sbjct: 55 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKS 114
Query: 199 VTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQALRR 247
+ N+ L F FG+I V+ DE G SK G V F + AA +A+ +
Sbjct: 115 IDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEK 162
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 39/146 (26%), Positives = 76/146 (52%), Gaps = 15/146 (10%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKM----FGFIRMDYKHNADKAKA--KL 169
LY+G++ D+TE + E F P G + + ++ + G+ ++++ AD +A +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 170 DGHVLKGRSLKIRFAPINAAIK--------VKNLTSCVTNELLELAFGVFGDIERAIVIV 221
+ V+KG+ ++I ++ + +++ +KNL + N+ L F FG+I V+
Sbjct: 73 NFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVC 132
Query: 222 DERGNSKCEGIVEFARKPAAAQALRR 247
DE G SK G V F + AA +A+ +
Sbjct: 133 DENG-SKGYGFVHFETQEAAERAIEK 157
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 35/136 (25%), Positives = 72/136 (52%), Gaps = 13/136 (9%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T+ + LF GE + + ++K+ +GF+ +A+KA L+G L+ +
Sbjct: 13 NMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK 72
Query: 178 SLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAIVIVDE-RGNSKCE 230
++K+ +A P +A+I+ V L +T + LE F +G I + ++VD+ G S+
Sbjct: 73 TIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGV 132
Query: 231 GIVEFARKPAAAQALR 246
G + F ++ A +A++
Sbjct: 133 GFIRFDKRIEAEEAIK 148
Score = 35.8 bits (81), Expect = 0.062, Method: Composition-based stats.
Identities = 26/104 (25%), Positives = 53/104 (50%), Gaps = 11/104 (10%)
Query: 89 MAIQGPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGE--TQELFIN 146
+ +Q T+ + + P + I+ AN LY+ + +T+ ++ +LF YG T + ++
Sbjct: 67 LRLQTKTIKVSYARPSSASIRDAN---LYVSGLPKTMTQKELEQLFSQYGRIITSRILVD 123
Query: 147 K----EKMFGFIRMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
+ + GFIR D + A++A L+G G + + ++FA
Sbjct: 124 QVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 167
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/136 (23%), Positives = 74/136 (54%), Gaps = 13/136 (9%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T+++ LF G+ + + ++K+ +GF+ ++ADKA L+G L+ +
Sbjct: 15 NMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 178 SLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAIVIVDE-RGNSKCE 230
++K+ +A P +A+I+ V L ++ + +E F +G I + +++D+ G S+
Sbjct: 75 TIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGV 134
Query: 231 GIVEFARKPAAAQALR 246
G + F ++ A +A++
Sbjct: 135 GFIRFDKRIEAEEAIK 150
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 36/68 (52%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDGH 172
NC +Y G I +T+ + + F P+G+ E+ + EK + F+R +A A ++G
Sbjct: 25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGT 84
Query: 173 VLKGRSLK 180
++G +K
Sbjct: 85 TIEGHVVK 92
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 71/148 (47%), Gaps = 13/148 (8%)
Query: 111 ANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE----KMFGFIRMDYKHNADKAK 166
A+N L + + D T+ ++ LF+ G I ++ FG+ +D+ D +
Sbjct: 12 ASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQR 71
Query: 167 A--KLDGHVLKGRSLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAI 218
A L+G ++ + LK+ +A P +IK V NL +T++ L+ FG +G I +
Sbjct: 72 AIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN 131
Query: 219 VIVDE-RGNSKCEGIVEFARKPAAAQAL 245
++ D+ G + V + ++ A +A+
Sbjct: 132 ILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 51/104 (49%), Gaps = 11/104 (10%)
Query: 89 MAIQGPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE 148
+ ++ L + + P + IK N LY+ N+ IT++ + +F YG + I ++
Sbjct: 79 ITVRNKRLKVSYARPGGESIKDTN---LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD 135
Query: 149 KMFG------FIRMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
K+ G F+R + + A +A + L+ + +G S L +R A
Sbjct: 136 KLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 179
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQEL------FINKEKMFGFIRMDYKHNADKAKAK 168
RL++ N+ +E D+ +LF YG EL K K F F+ + +A KA A+
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 169 LDGHVLKGRSLKI 181
+DG V +GR L +
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 8/90 (8%)
Query: 101 SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGE------TQELFINKEKMFGFI 154
S Q KD +N+ +++G++ +IT DI F P+G+ +++ K K +GF+
Sbjct: 5 SSGQKKDT--SNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFV 62
Query: 155 RMDYKHNADKAKAKLDGHVLKGRSLKIRFA 184
K +A+ A + G L GR ++ +A
Sbjct: 63 SFYNKLDAENAIVHMGGQWLGGRQIRTNWA 92
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 3/75 (4%)
Query: 112 NNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEK---MFGFIRMDYKHNADKAKAK 168
N+CR+Y+GN+ DI DI ++F YG +++ + + F F+ + +A+ A
Sbjct: 21 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYG 80
Query: 169 LDGHVLKGRSLKIRF 183
DG+ G L++ F
Sbjct: 81 RDGYDYDGYRLRVEF 95
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 45/77 (58%), Gaps = 6/77 (7%)
Query: 111 ANNCRLYLGNIGGDITENDIIELFKPYG--ETQELFINKE----KMFGFIRMDYKHNADK 164
A RLY+G++ +ITE+ + +F+P+G E+ +L ++ E K +GFI A K
Sbjct: 24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKK 83
Query: 165 AKAKLDGHVLKGRSLKI 181
A +L+G L GR +K+
Sbjct: 84 ALEQLNGFELAGRPMKV 100
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 72/148 (48%), Gaps = 13/148 (8%)
Query: 111 ANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE----KMFGFIRMDYKHNADKAK 166
A+N L + + D+T+ ++ LF+ G I ++ +G+ +D+ D +
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 167 A--KLDGHVLKGRSLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAI 218
A L+G ++ + LK+ +A P +IK V NL +T++ L+ FG +G I +
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN 120
Query: 219 VIVDE-RGNSKCEGIVEFARKPAAAQAL 245
++ D+ G + V + ++ A +A+
Sbjct: 121 ILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 51/104 (49%), Gaps = 11/104 (10%)
Query: 89 MAIQGPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE 148
+ ++ L + + P + IK N LY+ N+ IT++ + +F YG + I ++
Sbjct: 68 ITVRNKRLKVSYARPGGESIKDTN---LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD 124
Query: 149 KMFG------FIRMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
K+ G F+R + + A +A + L+ + +G S L +R A
Sbjct: 125 KLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 168
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 42.0 bits (97), Expect = 9e-04, Method: Composition-based stats.
Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 8/90 (8%)
Query: 101 SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGE------TQELFINKEKMFGFI 154
S Q KD +N+ +++G++ +IT DI F P+G +++ K K +GF+
Sbjct: 5 SSGQKKDT--SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFV 62
Query: 155 RMDYKHNADKAKAKLDGHVLKGRSLKIRFA 184
K +A+ A ++ G L GR ++ +A
Sbjct: 63 SFFNKWDAENAIQQMGGQWLGGRQIRTNWA 92
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 70/135 (51%), Gaps = 13/135 (9%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T++++ LF GE + + ++K+ +GF+ +A++A L+G L+ +
Sbjct: 13 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 178 SLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAIVIVDE-RGNSKCE 230
++K+ +A P + IK + L +T + +E F FG I + V+VD+ G S+
Sbjct: 73 TIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGV 132
Query: 231 GIVEFARKPAAAQAL 245
+ F ++ A +A+
Sbjct: 133 AFIRFDKRSEAEEAI 147
Score = 35.4 bits (80), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 51/104 (49%), Gaps = 11/104 (10%)
Query: 89 MAIQGPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE 148
+ +Q T+ + + P ++ IK AN LY+ + +T+ D+ ++F +G + +
Sbjct: 67 LRLQSKTIKVSYARPSSEVIKDAN---LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVD 123
Query: 149 KMFG------FIRMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
+ G FIR D + A++A +GH G S + ++FA
Sbjct: 124 QTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFA 167
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 70/135 (51%), Gaps = 13/135 (9%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T++++ LF GE + + ++K+ +GF+ +A++A L+G L+ +
Sbjct: 13 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 178 SLKIRFA-PINAAIK-----VKNLTSCVTNELLELAFGVFGDIERAIVIVDE-RGNSKCE 230
++K+ +A P + IK + L +T + +E F FG I + V+VD+ G S+
Sbjct: 73 TIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGV 132
Query: 231 GIVEFARKPAAAQAL 245
+ F ++ A +A+
Sbjct: 133 AFIRFDKRSEAEEAI 147
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 50/104 (48%), Gaps = 11/104 (10%)
Query: 89 MAIQGPTLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE 148
+ +Q T+ + + P ++ IK AN LY+ + +T+ D+ ++F +G + +
Sbjct: 67 LRLQSKTIKVSYARPSSEVIKDAN---LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVD 123
Query: 149 KMFG------FIRMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
+ G FIR D + A++A +GH G S + + FA
Sbjct: 124 QTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVXFA 167
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 74/160 (46%), Gaps = 24/160 (15%)
Query: 110 FANNCRLYLGNIGGDITENDIIELFKPYGETQELFIN------KEKMFGFIRMDYKHNAD 163
A CR+Y+G+I ++ E+ I + F P+G + + ++ K K F F+ + A
Sbjct: 10 LAIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQ 69
Query: 164 KAKAKLDGHVLKGRSLKI-RFAPINAA----------------IKVKNLTSCVTNELLEL 206
A +++ +L GR++K+ R + I A I V ++ ++++ ++
Sbjct: 70 LALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 129
Query: 207 AFGVFGDIERAIVIVD-ERGNSKCEGIVEFARKPAAAQAL 245
F FG I+ + D G K G +E+ + ++ A+
Sbjct: 130 VFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 15/152 (9%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFINKE------KMFGFIRMDYKHNAD--- 163
+C++++G + D TE+++ E F YG +L I K+ + FGF+ + + D
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 164 KAKAKLDGHVLK-GRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVD 222
K + LDG V+ R++ I V + V + E F +G I A +++D
Sbjct: 63 KTQHILDGKVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLD 122
Query: 223 -ERGNSKCEGIVEFARKPAAAQALRRCAEGCF 253
+ G S+ G V + +A A+ R + F
Sbjct: 123 KDTGQSRGFGFVTY----DSADAVDRVCQNKF 150
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 22/84 (26%), Positives = 44/84 (52%), Gaps = 6/84 (7%)
Query: 106 KDIKFANNCRLYLGNIGGDITENDIIELFKPYGE--TQELFINKE----KMFGFIRMDYK 159
K I+ C L++ ++ + T+ D+ F P+G + ++FI+K+ K FGF+ D
Sbjct: 33 KQIEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNP 92
Query: 160 HNADKAKAKLDGHVLKGRSLKIRF 183
+A A ++G + + LK++
Sbjct: 93 DSAQVAIKAMNGFQVGTKRLKVQL 116
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 6/72 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKE------KMFGFIRMDYKHNADKAKAKL 169
LY+G++ +ITE+ + +F+P+G+ + + K+ K +GFI A +A +L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 170 DGHVLKGRSLKI 181
+G L GR +++
Sbjct: 68 NGFELAGRPMRV 79
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 70/160 (43%), Gaps = 24/160 (15%)
Query: 110 FANNCRLYLGNIGGDITENDIIELFKPYGETQEL------FINKEKMFGFIRMDYKHNAD 163
A CR+Y+G+I ++ E+ I + F P+G + + K K F F+ + A
Sbjct: 9 LAIXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQ 68
Query: 164 KAKAKLDGHVLKGRSLKI-RFAPINAA----------------IKVKNLTSCVTNELLEL 206
A + + L GR++K+ R + I A I V ++ ++++ ++
Sbjct: 69 LALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 128
Query: 207 AFGVFGDIERAIVIVD-ERGNSKCEGIVEFARKPAAAQAL 245
F FG I+ + D G K G +E+ + ++ A+
Sbjct: 129 VFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 74/160 (46%), Gaps = 24/160 (15%)
Query: 110 FANNCRLYLGNIGGDITENDIIELFKPYGETQELFIN------KEKMFGFIRMDYKHNAD 163
A R+Y+G+I ++ E+ I + F P+G + + ++ K K F F+ + A
Sbjct: 25 LAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQ 84
Query: 164 KAKAKLDGHVLKGRSLKI-RFAPINAA----------------IKVKNLTSCVTNELLEL 206
A +++ +L GR++K+ R + I A I V ++ ++++ ++
Sbjct: 85 LALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 144
Query: 207 AFGVFGDIERAIVIVD-ERGNSKCEGIVEFARKPAAAQAL 245
F FG I+ A + D G K G +E+ + ++ A+
Sbjct: 145 VFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAV 184
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 40/73 (54%), Gaps = 6/73 (8%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAK 168
R+Y+ ++ D++++DI +F+ +G+ + + K K +GFI + ++ A +
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 169 LDGHVLKGRSLKI 181
++ L G+ L++
Sbjct: 187 MNLFDLGGQYLRV 199
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 42/71 (59%), Gaps = 4/71 (5%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGET--QELFINK--EKMFGFIRMDYKHNADKAKAKLD 170
RL++ NI + D+ ++F +G+ E+ N+ K FGF+ + +AD+A+ KL
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 76
Query: 171 GHVLKGRSLKI 181
G V++GR +++
Sbjct: 77 GTVVEGRKIEV 87
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 42/71 (59%), Gaps = 4/71 (5%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGET--QELFINK--EKMFGFIRMDYKHNADKAKAKLD 170
RL++ NI + D+ ++F +G+ E+ N+ K FGF+ + +AD+A+ KL
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 90
Query: 171 GHVLKGRSLKI 181
G V++GR +++
Sbjct: 91 GTVVEGRKIEV 101
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 48/106 (45%), Gaps = 21/106 (19%)
Query: 115 RLYLGNIGGDITENDIIELFK-----------PYGETQELFINKEKMFGFIRMDYKHNAD 163
RLY+GNI ITE +++ F P + IN++K F F+
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 164 KAKAKLDGHVLKGRSLKIR----FAPI-----NAAIKVKNLTSCVT 200
+A A DG + +G+SLKIR + P+ N ++ V + S V
Sbjct: 66 QAMA-FDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVV 110
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 38/79 (48%), Gaps = 12/79 (15%)
Query: 115 RLYLGNIGGDITENDIIELFK-----------PYGETQELFINKEKMFGFIRMDYKHNAD 163
RLY+GNI ITE +++ F P + IN++K F F+
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62
Query: 164 KAKAKLDGHVLKGRSLKIR 182
+A A DG + +G+SLKIR
Sbjct: 63 QAMA-FDGIIFQGQSLKIR 80
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 38/79 (48%), Gaps = 12/79 (15%)
Query: 115 RLYLGNIGGDITENDIIELFK-----------PYGETQELFINKEKMFGFIRMDYKHNAD 163
RLY+GNI ITE +++ F P + IN++K F F+
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 164 KAKAKLDGHVLKGRSLKIR 182
+A A DG + +G+SLKIR
Sbjct: 68 QAMA-FDGIIFQGQSLKIR 85
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.1 bits (87), Expect = 0.012, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 112 NNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKA 165
+N + + N+ D E D+ ELF+P+G +++ K+K F FI + +A +A
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
Query: 166 KAKLDG 171
A + G
Sbjct: 74 IAGVSG 79
Score = 32.7 bits (73), Expect = 0.49, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 176 GRSLKIRFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDE-RGNSKCEGIVE 234
G S R A NA I+V NL+ L+ F FG I R + D+ G SK +
Sbjct: 4 GSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFIS 63
Query: 235 FARKPAAAQAL 245
F R+ AA+A+
Sbjct: 64 FHRREDAARAI 74
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 19/149 (12%)
Query: 115 RLYLGNIGGDITENDIIELFK-----------PYGETQELFINKEKMFGFIRMDYKHNAD 163
RLY+GNI ITE +++ F P + IN++K F F+
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 164 KAKAKLDGHVLKGRSLKIR----FAPINAAIK--VKNLTSCVTNELLELAFGVFGDIERA 217
+A A DG + +G+SLKIR + P+ A K + L + + ++ ++ FG ++
Sbjct: 68 QAMA-FDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF 126
Query: 218 IVIVDE-RGNSKCEGIVEFARKPAAAQAL 245
++ D G SK E+ QA+
Sbjct: 127 NLVKDSATGLSKGYAFCEYVDINVTDQAI 155
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 19/149 (12%)
Query: 115 RLYLGNIGGDITENDIIELFK-----------PYGETQELFINKEKMFGFIRMDYKHNAD 163
RLY+GNI ITE +++ F P + IN++K F F+
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 164 KAKAKLDGHVLKGRSLKIR----FAPINAAIK--VKNLTSCVTNELLELAFGVFGDIERA 217
+A A DG + +G+SLKIR + P+ A K + L + + ++ ++ FG ++
Sbjct: 66 QAMA-FDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF 124
Query: 218 IVIVDE-RGNSKCEGIVEFARKPAAAQAL 245
++ D G SK E+ QA+
Sbjct: 125 NLVKDSATGLSKGYAFCEYVDINVTDQAI 153
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 37.4 bits (85), Expect = 0.020, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKL 169
L + N+ + + + +F+ YG +++I +++ F F+R K +A+ A +
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 170 DGHVLKGRSLKIRFA 184
DG VL GR L+++ A
Sbjct: 110 DGAVLDGRELRVQMA 124
>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 = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 101 SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM---FGFIRMD 157
+E Q K +K +C LY+GN+ TE I ELF G+ +++ + +KM GF ++
Sbjct: 8 NEEQEKLLK--KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVE 65
Query: 158 YKHNADKAKA 167
Y AD A
Sbjct: 66 YYSRADAENA 75
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKL 169
L + N+ + + + +F+ YG +++I +++ F F+R K +A+ A +
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 170 DGHVLKGRSLKIRFA 184
DG VL GR L+++ A
Sbjct: 133 DGAVLDGRELRVQMA 147
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 37.0 bits (84), Expect = 0.026, Method: Composition-based stats.
Identities = 38/144 (26%), Positives = 64/144 (44%), Gaps = 14/144 (9%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI-----NKEKMFGFIRMDYKHNADKAKAKLD 170
LY+GN+ ITE+ + + F+ G + I NK + F+ H+A+ A L+
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 171 GHVLKGRSLKIRFAPINAA--------IKVKNLTSCVTNELLELAFGVFGDIERAIVIVD 222
G ++ +KI +A + + V +L V +E L AF F V+ D
Sbjct: 63 GKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWD 122
Query: 223 -ERGNSKCEGIVEFARKPAAAQAL 245
+ G+S+ G V F + A A+
Sbjct: 123 MQTGSSRGYGFVSFTSQDDAQNAM 146
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 190 IKVKNLTSCVTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQALRR 247
I +KNL + N+ L F FG+I V+ DE G SK G V F + AA +A+ +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEK 70
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 36.6 bits (83), Expect = 0.032, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKE------KMFGFIRMDYKHNADKAKAKL 169
L + N+ + + + +F+ YG +++I +E + F F+R + +A A+A +
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 170 DGHVLKGRSLKIRFA 184
DG L GR L+++ A
Sbjct: 76 DGAELDGRELRVQVA 90
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.6 bits (83), Expect = 0.034, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 111 ANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLD 170
N ++++GN+ T ++ LF+ G E + K+ + F+ M+ + +A A A+L+
Sbjct: 7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--YAFVHMEKEADAKAAIAQLN 64
Query: 171 GHVLKGRSLKIRFA 184
G +KG+ + + +
Sbjct: 65 GKEVKGKRINVELS 78
>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 = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 99 PPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM----FGFI 154
+E Q K +K +C LY+GN+ TE I ELF G+ +++ + +KM GF
Sbjct: 27 GDNEEQEKLLK--KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFC 84
Query: 155 RMDYKHNADKAKA 167
++Y AD A
Sbjct: 85 FVEYYSRADAENA 97
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 36.2 bits (82), Expect = 0.040, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAK-LDGHVL 174
LY+G +G ITE D+ F +GE + + + + + FI+ + A+ A K + ++
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIV 74
Query: 175 KGRSLKIRFA 184
GR L +++
Sbjct: 75 NGRRLNVKWG 84
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 35.8 bits (81), Expect = 0.055, Method: Composition-based stats.
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 190 IKVKNLTSCVTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQALRR 247
I +KNL + N+ L F FG+I V+ DE G SK G V F + AA +A+ +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEK 64
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.8 bits (81), Expect = 0.064, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDGHVL 174
+L++GN+ + TE +I LF+ YG+ E I K +GF+ ++ K A+ A L + L
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--YGFVHIEDKTAAEDAIRNLHHYKL 67
Query: 175 KGRSLKI 181
G ++ +
Sbjct: 68 HGVNINV 74
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 115 RLYLGNIG-GDITENDIIELFKPYGETQELFINKEKMFGFIRMD 157
RL++GN+ ++++ D+ +F PYG + IN + FGFI+ D
Sbjct: 4 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--INIKNAFGFIQFD 45
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 35.4 bits (80), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 114 CRLYLGNIG-GDITENDIIELFKPYGETQELFINKEKMFGFIRMD 157
RL++GN+ ++++ D+ +F PYG + IN + FGFI+ D
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--INIKNAFGFIQFD 65
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 35.4 bits (80), Expect = 0.083, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKM---------FGFIRMDYKHNADKAK 166
L++ N+ TE + +F G + I+K+K FGF+ A KA
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 167 AKLDGHVLKGRSLKIRFA 184
+L GH + G L++R +
Sbjct: 68 KQLQGHTVDGHKLEVRIS 85
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 115 RLYLGNIG-GDITENDIIELFKPYGETQELFINKEKMFGFIRMD 157
RL++GN+ ++++ D+ +F PYG + IN + FGFI+ D
Sbjct: 12 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--INIKNAFGFIQFD 53
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 35.4 bits (80), Expect = 0.084, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM-FGFIRMDYKHNADKAKAKLDG 171
+C++Y+GN+G + + ++ F YG + +++ + F F+ + +A A +LDG
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDG 132
Query: 172 HVLKGRSLKIRFA 184
L G +++ +
Sbjct: 133 RTLCGCRVRVELS 145
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 35.0 bits (79), Expect = 0.085, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAK 168
+L++G + D E + ++F YG+ E+ + K++ FGF+ + +A A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 169 LDGHVLKGRSLKI 181
++G + GR +++
Sbjct: 74 MNGKSVDGRQIRV 86
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 35.0 bits (79), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 115 RLYLGNIG-GDITENDIIELFKPYGETQELFINKEKMFGFIRMD 157
RL++GN+ ++++ D+ +F PYG + IN + FGFI+ D
Sbjct: 24 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--INIKNAFGFIQFD 65
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.0 bits (79), Expect = 0.097, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 45/90 (50%), Gaps = 3/90 (3%)
Query: 96 LDLPPSEPQNKDIKFANNCRLYLGNIGGD-ITENDIIELFKPYGETQELFINKEKMFGFI 154
L L S NK+ + N R+++GN+ + ++D+ +F YG ++K + F+
Sbjct: 10 LKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKG--YAFV 67
Query: 155 RMDYKHNADKAKAKLDGHVLKGRSLKIRFA 184
+ + +A A +G VL G++L I A
Sbjct: 68 QYSNERHARAAVLGENGRVLAGQTLDINMA 97
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM-FGFIRMDYKHNADKAKAKLDG 171
+C++Y+GN+G + + ++ F YG + +++ + F F+ + +A A LDG
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDG 132
Query: 172 HVLKGRSLKIRFA 184
L G +++ +
Sbjct: 133 RTLCGCRVRVELS 145
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKE-KMFGFI 154
+++G GD+TE+++ E F YG+ ++FI K + F F+
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFV 47
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAK 166
NC L + + TE D+ E+F YG ++ I + + F F+ + +A +AK
Sbjct: 46 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105
Query: 167 AKLDGHVLKGRSLKIRFA 184
+ +G L GR +++ F+
Sbjct: 106 ERANGMELDGRRIRVDFS 123
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAK 166
NC L + + TE D+ E+F YG ++ I + + F F+ + +A +AK
Sbjct: 12 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 71
Query: 167 AKLDGHVLKGRSLKIRFA 184
+ +G L GR +++ F+
Sbjct: 72 ERANGMELDGRRIRVDFS 89
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAK 166
NC L + + TE D+ E+F YG ++ I + + F F+ + +A +AK
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74
Query: 167 AKLDGHVLKGRSLKIRFA 184
+ +G L GR +++ F+
Sbjct: 75 ERANGMELDGRRIRVDFS 92
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 45/182 (24%), Positives = 76/182 (41%), Gaps = 32/182 (17%)
Query: 95 TLDLPPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKE------ 148
TLD P +P IK +++G + +E D+ ELF+ YG E+ + ++
Sbjct: 4 TLDHP-DQPDLDAIK------MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPP 56
Query: 149 --KMFGFIRMDYKHNADKAKAKL-DGHVLKGRSLKIRFAPI----NAAIKVKNL------ 195
K F+ + A +A+ L + VL G I+ P N A++ + L
Sbjct: 57 QSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMIS 116
Query: 196 TSCVTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQALR-----RCAE 250
C N+ + + F FG IE ++ G S+ V F + A A++ + E
Sbjct: 117 KKCTEND-IRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTME 175
Query: 251 GC 252
GC
Sbjct: 176 GC 177
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 113 NCRLYLGNIGGDITE-NDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDG 171
N R+++GN+ + + +D+ +F YG+ ++K F F++ + NA A A DG
Sbjct: 15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKG--FAFVQYVNERNARAAVAGEDG 72
Query: 172 HVLKGRSLKIRFA 184
++ G+ L I A
Sbjct: 73 RMIAGQVLDINLA 85
>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 = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 42/74 (56%), Gaps = 6/74 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGE--TQELFINKE----KMFGFIRMDYKHNADKAKAKL 169
L++ ++ + + D++++F P+G + ++FI+K+ K FGF+ D +A A +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 170 DGHVLKGRSLKIRF 183
+G + + LK++
Sbjct: 88 NGFQIGMKRLKVQL 101
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 190 IKVKNLTSCVTNELLELAFGVFGDIERAIVIVDER-GNSKCEGIVEFARKPAAAQALR 246
I V L T+ L F FGDIE A+VI D + G S+ G V A + AA +A +
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 7/72 (9%)
Query: 116 LYLGNIGGDITENDIIELFKPYGET--QELFINKE----KMFGFIRMDYKHNADKAKAKL 169
+Y+GN+ T + ELF +G+ +L ++E K FGF+ M + + +A AKL
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAKL 62
Query: 170 DGHVLKGRSLKI 181
D GR++++
Sbjct: 63 DNTDFMGRTIRV 74
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 112 NNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDG 171
+N RL++ D+ E+++ E+F P+G +E+ I F F+ + +A KA ++ G
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--FAFVEFEEAESAAKAIEEVHG 87
Query: 172 HVLKGRSLKIRFAPINA 188
+ L++ ++ + A
Sbjct: 88 KSFANQPLEVVYSKLPA 104
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 30/91 (32%), Positives = 41/91 (45%), Gaps = 5/91 (5%)
Query: 95 TLDLPPS-EPQNKD--IKFA--NNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEK 149
T+ LPP PQ D I+ A Y+GNI TE D+I LF+ +G + EK
Sbjct: 4 TIGLPPQVNPQAVDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEK 63
Query: 150 MFGFIRMDYKHNADKAKAKLDGHVLKGRSLK 180
FI+ D A L +GR+L+
Sbjct: 64 GCCFIKYDTHEQAAVCIVALANFPFQGRNLR 94
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 112 NNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDG 171
+N RL++ D+ E+++ E+F P+G +E+ I F F+ + +A KA ++ G
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--NGFAFVEFEEAESAAKAIEEVHG 60
Query: 172 HVLKGRSLKIRFA 184
+ L++ ++
Sbjct: 61 KSFANQPLEVVYS 73
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 69/162 (42%), Gaps = 25/162 (15%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKE--------KMFGFIRMDYKHNADKAK 166
++++G + +E D+ ELF+ YG E+ + ++ K F+ + A +A+
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 167 AKL-DGHVLKGRSLKIRFAPI----NAAIKVKNL------TSCVTNELLELAFGVFGDIE 215
L + VL G I+ P N A++ + L C N+ + + F FG IE
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTEND-IRVMFSSFGQIE 123
Query: 216 RAIVIVDERGNSKCEGIVEFARKPAAAQALR-----RCAEGC 252
++ G S+ V F + A A++ + EGC
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGC 165
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 33.5 bits (75), Expect = 0.25, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 44/75 (58%), Gaps = 7/75 (9%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T+++ LF G+ + + ++K+ +GF+ ++ADKA L+G L+ +
Sbjct: 15 NMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 178 SLKIRFA-PINAAIK 191
++K+ +A P +A+I+
Sbjct: 75 TIKVSYARPSSASIR 89
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 11/83 (13%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPY----GETQELFIN-------KEKMFGFIRMDYKHN 161
NCR+Y+ N+ + E D+ +F Y ETQ + + + K FI + +
Sbjct: 45 NCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKA 104
Query: 162 ADKAKAKLDGHVLKGRSLKIRFA 184
A KA + +G+VL G+ + ++FA
Sbjct: 105 AAKALKEANGYVLFGKPMVVQFA 127
>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTM|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTN|A Chain A, Crystal Structure Of Gtp-Bound Human Gimap2, Amino Acid
Residues 1-234
Length = 234
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 138 GETQELFINKEKMFGFIRMDYKHNAD-KAKAKLDGHVLKGR--SLKIRFAPINAAIKVKN 194
G T LF +KE + G MDY H++D KA +KL GR + R N +VK
Sbjct: 139 GHTIVLFTHKEDLNGGSLMDYMHDSDNKALSKLVA-ACGGRICAFNNRAEGSNQDDQVKE 197
Query: 195 LTSCVTNELLE 205
L C+ + L+E
Sbjct: 198 LMDCIEDLLME 208
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 32.7 bits (73), Expect = 0.52, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 6/75 (8%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAK 166
NC L + + TE D+ E+F YG ++ I + + F F+ + +A +AK
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74
Query: 167 AKLDGHVLKGRSLKI 181
+ +G L GR +++
Sbjct: 75 ERANGMELDGRRIRV 89
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 68/162 (41%), Gaps = 25/162 (15%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKE--------KMFGFIRMDYKHNADKAK 166
+ ++G + +E D+ ELF+ YG E+ + ++ K F+ + A +A+
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 167 AKL-DGHVLKGRSLKIRFAPI----NAAIKVKNL------TSCVTNELLELAFGVFGDIE 215
L + VL G I+ P N A++ + L C N+ + + F FG IE
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTEND-IRVXFSSFGQIE 123
Query: 216 RAIVIVDERGNSKCEGIVEFARKPAAAQALR-----RCAEGC 252
++ G S+ V F + A A++ + EGC
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXHQAQTXEGC 165
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 32.3 bits (72), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 7/40 (17%)
Query: 192 VKNLTSCVTNELLELAFGVFGDIER-------AIVIVDER 224
V+NL + VT E+LE AF FG +ER A + DER
Sbjct: 16 VRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDER 55
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 32.3 bits (72), Expect = 0.61, Method: Composition-based stats.
Identities = 15/72 (20%), Positives = 40/72 (55%), Gaps = 7/72 (9%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKM-------FGFIRMDYKHNADKAKA 167
++++G + ++T++ I+E+F YG+ + + + E+M + ++ + A+KA
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 168 KLDGHVLKGRSL 179
+DG + G+ +
Sbjct: 66 HMDGGQIDGQEI 77
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.3 bits (72), Expect = 0.63, Method: Composition-based stats.
Identities = 17/71 (23%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKM-FGFIRMDYKHNADKAKAKLDGHV 173
++Y+GN+G + ++ F YG + ++I + F F+ + +A+ A LDG V
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61
Query: 174 LKGRSLKIRFA 184
+ G +++ +
Sbjct: 62 ICGSRVRVELS 72
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 113 NCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFG------FIRMDYKHNADKAK 166
N LYL N+ +TE D++ LF + E + I M G FI K A +A
Sbjct: 25 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL 84
Query: 167 AKLDGHVLKGRSLKIRFA 184
++G+ L G+ L I F
Sbjct: 85 HLVNGYKLYGKILVIEFG 102
>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
pdb|2XTO|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
Length = 240
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 43/88 (48%), Gaps = 9/88 (10%)
Query: 138 GETQELFINKEKMFGFIRMDYKHNAD-KAKAKLDGHVLKGR--SLKIRFAPINAAIKVKN 194
G T LF +KE + G MDY H++D KA +KL GR + R N +VK
Sbjct: 119 GHTIVLFTHKEDLNGGSLMDYMHDSDNKALSKLVA-ACGGRICAFNNRAEGSNQDDQVKE 177
Query: 195 LTSCVTNELLE-----LAFGVFGDIERA 217
L C+ + L+E G++ I+R+
Sbjct: 178 LMDCIEDLLMEKNGDHYTNGLYSLIQRS 205
>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|C Chain C, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|D Chain D, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
Length = 209
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 138 GETQELFINKEKMFGFIRMDYKHNAD-KAKAKLDGHVLKGR--SLKIRFAPINAAIKVKN 194
G T LF +KE + G MDY H++D KA +KL GR + R N +VK
Sbjct: 122 GHTIVLFTHKEDLNGGSLMDYMHDSDNKALSKLVA-ACGGRICAFNNRAEGSNQDDQVKE 180
Query: 195 LTSCVTNELLE 205
L C+ + L+E
Sbjct: 181 LMDCIEDLLME 191
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 32.0 bits (71), Expect = 0.78, Method: Composition-based stats.
Identities = 21/84 (25%), Positives = 41/84 (48%), Gaps = 4/84 (4%)
Query: 101 SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKH 160
S P+ + + N +Y G D+T + F P+G +L ++ + F+ +
Sbjct: 29 SFPERRAPRKGNTLYVY----GEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKME 84
Query: 161 NADKAKAKLDGHVLKGRSLKIRFA 184
+AD+A A+L+G ++ LK+ A
Sbjct: 85 SADQAVAELNGTQVESVQLKVNIA 108
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 32.0 bits (71), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDGHVL 174
+L++GNI T ++ F+ YG E I K+ + F+ M+ +A +A LD
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--YAFVHMERAEDAVEAIRGLDNTEF 69
Query: 175 KGRSLKIRFA 184
+G+ + ++ +
Sbjct: 70 QGKRMHVQLS 79
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 46/92 (50%), Gaps = 11/92 (11%)
Query: 101 SEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFG------FI 154
+ P + IK N LY+ N+ IT++ + +F YG + I ++K+ G F+
Sbjct: 4 ARPGGESIKDTN---LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 60
Query: 155 RMDYKHNADKAKAKLDGHVLKGRS--LKIRFA 184
R + + A +A + L+ + +G S L +R A
Sbjct: 61 RYNKREEAQEAISALNNVIPEGGSQPLSVRLA 92
>pdb|2AD9|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd1 Complexed With Cucucu Rna
Length = 119
Score = 31.6 bits (70), Expect = 0.95, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 124 DITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDG--HVLKGRSLKI 181
D+TE ++I L P+G+ L + K K FI M+ + A+ VL+G+ + I
Sbjct: 42 DVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYI 101
Query: 182 RFA 184
+F+
Sbjct: 102 QFS 104
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 33/63 (52%)
Query: 122 GGDITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDGHVLKGRSLKI 181
G D+T + F P+G +L ++ + F+ + +AD+A A+L+G ++ LK+
Sbjct: 22 GEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKV 81
Query: 182 RFA 184
A
Sbjct: 82 NIA 84
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 182 RFAPINAAIKVKNLTSCVTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAA 241
R+ +N + VKNL + +E L AF FG I A V++ E G SK G V F+ A
Sbjct: 12 RYQVVN--LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPEEA 68
Query: 242 AQAL 245
+A+
Sbjct: 69 TKAV 72
>pdb|1SJQ|A Chain A, Nmr Structure Of Rrm1 From Human Polypyrimidine Tract
Binding Protein Isoform 1 (Ptb1)
Length = 105
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 124 DITENDIIELFKPYGETQELFINKEKMFGFIRMDYKHNADKAKAKLDG--HVLKGRSLKI 181
D+TE ++I L P+G+ L + K K FI M+ + A+ VL+G+ + I
Sbjct: 27 DVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYI 86
Query: 182 RFA 184
+F+
Sbjct: 87 QFS 89
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGE---TQELF---INKEKMFGFIRMDYKHNADKAKAKL 169
LY+ + T+ D+++L +PYG+ T+ + NK K +GF+ D A KA L
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 170 DGHVLKGRSLK 180
++ + K
Sbjct: 68 KASGVQAQMAK 78
>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 = 1.9, Method: Composition-based stats.
Identities = 17/80 (21%), Positives = 39/80 (48%), Gaps = 7/80 (8%)
Query: 111 ANNCRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADK 164
++ C++++G + T+ + E F +GE +E + ++ + FGF+ + DK
Sbjct: 23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDK 82
Query: 165 AKAKLDGHVLKGRSLKIRFA 184
A+ H L +++ + A
Sbjct: 83 VLAQ-SRHELDSKTIDPKVA 101
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 192 VKNLTSCVTNELLELAFGVFGDIERAIVIVDERGNSKCEGIVEFARKPAAAQAL 245
V+NL + VT E+LE +F FG +ER + D V F + AA +A+
Sbjct: 20 VRNLATTVTEEILEKSFSEFGKLERVKKLKD-------YAFVHFEDRGAAVKAM 66
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
LY+G + ++ + + F P+G+ ++ I K + F F+ + +A A +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR++++ A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 187 NAAIKVKNLTS-CVTNELLELAFGVFGDIERAIVIVDERGNSKCE 230
N+ + V NL VT + L + FGV+GD++R ++ +++ N+ +
Sbjct: 3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQ 47
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 15/67 (22%), Positives = 38/67 (56%), Gaps = 6/67 (8%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
++T++++ LF GE + + ++K+ +GF+ +A++A L+G L+ +
Sbjct: 15 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 74
Query: 178 SLKIRFA 184
++K+ +A
Sbjct: 75 TIKVSYA 81
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 114 CRLYLGNIGGDITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKA 167
C++++G + T+ + E F +GE +E + ++ + FGF+ + DK A
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
Query: 168 KLDGHVLKGRSLKIRFA 184
+ H L +++ + A
Sbjct: 61 Q-SRHELDSKTIDPKVA 76
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 187 NAAIKVKNLTS-CVTNELLELAFGVFGDIERAIVIVDERGNSKCE 230
N+ + V NL VT + L + FGV+GD++R ++ +++ N+ +
Sbjct: 34 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQ 78
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKE-----KMFGFIRMDYKHNADKAKAKLD 170
+++GN+ + E + ELF G ++ I K+ K FGF+ + + A A L+
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN 78
Query: 171 GHVLKGRSLKI 181
G L GR + +
Sbjct: 79 GIRLYGRPINV 89
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 29.6 bits (65), Expect = 4.1, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
+Y+ N+ +T ND+ +F YG+ ++ I K K FI K +A +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR +K A
Sbjct: 79 NNKQLFGRVIKASIA 93
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 170 DGHVLKGRSLKIRFA 184
+G L G+ + + +
Sbjct: 86 NGQDLMGQPISVDWC 100
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 170 DGHVLKGRSLKIRFA 184
+G L G+ + + +
Sbjct: 85 NGQDLMGQPISVDWC 99
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 29.3 bits (64), Expect = 5.4, Method: Composition-based stats.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
LY+G + ++ + + F P+G+ ++ I K + F F+ + +A A +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR++++ A
Sbjct: 75 NESELFGRTIRVNLA 89
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 170 DGHVLKGRSLKIRFA 184
+G L G+ + + +
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 99 PPSEPQNKDIKFANNCRLYLGNIGGDITENDIIELFKPYGETQEL------FINKEKMFG 152
PP ++ K + +Y+GN+ T D+ F G + F K +
Sbjct: 22 PPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYA 81
Query: 153 FIRMDYKHNADKAKAKLDGHVLKGRSLKI 181
+I +++ D A A +D V +GR++K+
Sbjct: 82 YIEFAERNSVDAAVA-MDETVFRGRTIKV 109
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKM----FGFIRMDYKHNADKAKAKLDG 171
LY+GN+ D+TE I++LF G + + E + F+ +A A A ++G
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNG 77
Query: 172 HVLKGRSLKIRFAPINAAIK 191
+ G+ +K+ +A ++ K
Sbjct: 78 RKILGKEVKVNWATTPSSQK 97
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 28.9 bits (63), Expect = 6.2, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 115 RLYLGNIGGDITENDIIELFKPYGETQELFINKEKMFG------FIRMDYKHNADKAKAK 168
+L++G I + E D+ LF+ +G EL + K+++ G F+ + +A KA++
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 169 L-DGHVLKGRSLKIRFAP 185
L + L G + I+ P
Sbjct: 77 LHEQKTLPGMNRPIQVKP 94
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
LY+G + ++ + + F P+G+ ++ I K + F F+ + +A A +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR++++ A
Sbjct: 70 NESELFGRTIRVNLA 84
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
+++GNI + TE + ++F G + K K +GF + A A L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 170 DGHVLKGRSLKI 181
+G GR+L++
Sbjct: 71 NGREFSGRALRV 82
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
LY+G + ++ + + F P+G+ ++ I K + F F+ + +A A +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR++++ A
Sbjct: 68 NESELFGRTIRVNLA 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 170 DGHVLKGRSLKIRFA 184
+G L G+ + + +
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 28.9 bits (63), Expect = 6.6, Method: Composition-based stats.
Identities = 15/67 (22%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 124 DITENDIIELFKPYGETQELFINKEKM------FGFIRMDYKHNADKAKAKLDGHVLKGR 177
+ T++++ LF GE + + ++K+ +GF+ +A++A L+G L+ +
Sbjct: 30 NXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 89
Query: 178 SLKIRFA 184
++K+ +A
Sbjct: 90 TIKVSYA 96
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 170 DGHVLKGRSLKIRFA 184
+G L G+ + + +
Sbjct: 72 NGQDLMGQPISVDWC 86
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 28.9 bits (63), Expect = 7.3, Method: Composition-based stats.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFI------NKEKMFGFIRMDYKHNADKAKAKL 169
LY+G + ++ + + F P+G+ ++ I K + F F+ + +A A +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 170 DGHVLKGRSLKIRFA 184
+ L GR++++ A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 116 LYLGNIGGDITENDIIELFKPYGETQELFINKEKMFGFIR----MDYK--HNADKAKAKL 169
L++ + + TE DI + F YGE + + +N ++ G+++ ++Y+ A A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 170 DGHVLKGRSLKIRFAPI 186
+G L G+ + + + +
Sbjct: 70 NGQDLMGQPISVDWCFV 86
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,583,655
Number of Sequences: 62578
Number of extensions: 416780
Number of successful extensions: 1384
Number of sequences better than 100.0: 156
Number of HSP's better than 100.0 without gapping: 55
Number of HSP's successfully gapped in prelim test: 101
Number of HSP's that attempted gapping in prelim test: 1242
Number of HSP's gapped (non-prelim): 204
length of query: 503
length of database: 14,973,337
effective HSP length: 103
effective length of query: 400
effective length of database: 8,527,803
effective search space: 3411121200
effective search space used: 3411121200
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)