RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3994
(282 letters)
>3d9j_A RNA-binding protein 16; SCAF8, RNA polymerase II CTD interacting
domain, arm repeats phospho-CTD, phosphoprotein,
transcription; 1.60A {Homo sapiens} PDB: 3d9k_A* 3d9l_A*
3d9m_A* 3d9n_A* 3d9p_A* 3d9i_A 3d9o_A* 2diw_A
Length = 145
Score = 156 bits (396), Expect = 2e-48
Identities = 103/143 (72%), Positives = 119/143 (83%), Gaps = 2/143 (1%)
Query: 1 MDVIKTFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKV 60
M+ +KTFN EL SL D KPPISKAK+T IT++AI+AIKFYKHVVQSVEKFI KCKPEYKV
Sbjct: 1 MEAVKTFNSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKV 60
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKN 119
P LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+RVLNLWQKN
Sbjct: 61 PGLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVRVLNLWQKN 120
Query: 120 EVFTPDIIHPLFDMAD-PNHPIH 141
VF +II PL DMA H H
Sbjct: 121 NVFKSEIIQPLLDMAAALEHHHH 143
>3clj_A Protein NRD1; CTD-interacting domain, nucleus, phosphoprotein, RNA
polymer binding protein, RNA binding protein; 2.10A
{Saccharomyces cerevisiae}
Length = 157
Score = 131 bits (330), Expect = 3e-38
Identities = 25/141 (17%), Positives = 53/141 (37%), Gaps = 12/141 (8%)
Query: 4 IKTFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKVPAL 63
+ F L S D K IS ++I +T A+ I ++ + + C +K+ +L
Sbjct: 3 FQNFVATLESFKDLKSGISGSRIKKLTTYALDHIDIESKIISLIIDYSRLCPDSHKLGSL 62
Query: 64 YVIDSLVRQSRHQFQDKDVFGP-----------RFARNLKATFQHLYQC-PPEDKSKIIR 111
Y+IDS+ R + + ++ + K KI
Sbjct: 63 YIIDSIGRAYLDETRSNSNSSSNKPGTCAHAINTLGEVIQELLSDAIAKSNQDHKEKIRM 122
Query: 112 VLNLWQKNEVFTPDIIHPLFD 132
+L++W ++ +F ++ +
Sbjct: 123 LLDIWDRSGLFQKSYLNAIRS 143
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm
repeats, transcription; 2.10A {Saccharomyces cerevisiae}
SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Length = 144
Score = 103 bits (258), Expect = 9e-28
Identities = 33/136 (24%), Positives = 57/136 (41%), Gaps = 16/136 (11%)
Query: 1 MDVIKTFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKV 60
++K FN L L PI IT +T+ A I ++ V ++E I KC P+ K+
Sbjct: 6 EVIVKDFNSILEELTFNSRPI----ITTLTKLAEENISCAQYFVDAIESRIEKCMPKQKL 61
Query: 61 PALYVIDSLVRQSRHQFQDKDVFGPRFARNLKATFQHLYQCPPE-DKSKIIRVLNLWQKN 119
A Y +DS+ + + F+RNL ++ Y ++K+I + LW
Sbjct: 62 YAFYALDSICKNVGSP------YTIYFSRNLFNLYKRTYLLVDNTTRTKLINMFKLWLNP 115
Query: 120 -----EVFTPDIIHPL 130
+F + +
Sbjct: 116 NDTGLPLFEGSALEKI 131
>4fld_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural
genomics consortium, SGC, protein binding; 2.00A {Homo
sapiens}
Length = 135
Score = 97.7 bits (243), Expect = 1e-25
Identities = 26/127 (20%), Positives = 53/127 (41%), Gaps = 9/127 (7%)
Query: 5 KTFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKVPALY 64
++LS L +++ + ++ I K +V + + K K K+ LY
Sbjct: 7 SALEKKLSELSNSQQ-----SVQTLSLWLIHHRKHAGPIVSVWHRELRKAKSNRKLTFLY 61
Query: 65 VIDSLVRQSRHQFQDKDVFGPRFARNLKATFQHLY-QCPPEDKSKIIRVLNLWQKNEVFT 123
+ + +++ S+ + F F L F H+ + K + R+LN+WQ+ V+
Sbjct: 62 LANDVIQNSKRK---GPEFTREFESVLVDAFSHVAREADEGCKKPLERLLNIWQERSVYG 118
Query: 124 PDIIHPL 130
+ I L
Sbjct: 119 GEFIQQL 125
>4flb_A Regulation of nuclear PRE-mRNA domain-containing; structural
genomics consortium, SGC, protein binding; 1.80A {Homo
sapiens}
Length = 132
Score = 93.9 bits (233), Expect = 3e-24
Identities = 18/126 (14%), Positives = 49/126 (38%), Gaps = 9/126 (7%)
Query: 5 KTFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKVPALY 64
+ +++ S+ +T I I K + +V K++ + +++ Y
Sbjct: 8 SSLDRKFQSVTNTMESIQGLSSWCIENK-----KHHSTIVYHWMKWLRRSAYPHRLNLFY 62
Query: 65 VIDSLVRQSRHQFQDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKNEVFTP 124
+ + +++ + ++ +F FA L + P + R+ +W+ V+
Sbjct: 63 LANDVIQNCKR--KNAIIFRESFADVLPEAAALVK--DPSVSKSVERIFKIWEDRNVYPE 118
Query: 125 DIIHPL 130
++I L
Sbjct: 119 EMIVAL 124
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 90.1 bits (224), Expect = 4e-23
Identities = 19/72 (26%), Positives = 33/72 (45%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
TT +IG++ E +L F +G ++ P +GC F+ + + AA + L N
Sbjct: 27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANF 86
Query: 218 KLQGKTITLAWA 229
QG+ + W
Sbjct: 87 PFQGRNLRTGWG 98
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 85
Score = 88.5 bits (220), Expect = 9e-23
Identities = 22/80 (27%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 151 NGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKA 210
+ E+ TTL++G L + E +L + F ++G++ +I ++ + CAF+ RQ A A
Sbjct: 5 SSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVA 64
Query: 211 LYKLKN-TKLQGKTITLAWA 229
K N + G+ + + W
Sbjct: 65 AEKSFNKLIVNGRRLNVKWG 84
>2km4_A Regulator of TY1 transposition protein 103; CTD-interacting domain,
RNA polymerase II binding protein, phosphoprotein; NMR
{Saccharomyces cerevisiae} PDB: 2l0i_A*
Length = 142
Score = 86.6 bits (214), Expect = 2e-21
Identities = 26/141 (18%), Positives = 63/141 (44%), Gaps = 11/141 (7%)
Query: 6 TFNQELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKFII--KCKPEYKVPAL 63
F +L++L D++ IS A + + + V + +++++ K+ L
Sbjct: 7 QFTTKLNTLEDSQESISSAS-----KWLLLQYRDAPKVAEMWKEYMLRPSVNTRRKLLGL 61
Query: 64 YVIDSLVRQSRHQFQDKDVFGPRFARNLKATFQHLYQ-CPPEDKSKIIRVLNLWQKNEVF 122
Y+++ +V+Q++ Q F F + + Q P + K K+ RV+N+ ++ +F
Sbjct: 62 YLMNHVVQQAKGQK--IIQFQDSFGKVAAEVLGRINQEFPRDLKKKLSRVVNILKERNIF 119
Query: 123 TPDIIHPLFD-MADPNHPIHR 142
+ +++ + +A H
Sbjct: 120 SKQVVNDIERSLAAALEHHHH 140
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related
protein, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 83.9 bits (208), Expect = 9e-21
Identities = 16/72 (22%), Positives = 38/72 (52%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
+ T++ G ++ + ++ + TF +G ++ I + P +G +FV + + AA A+ + T
Sbjct: 25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGT 84
Query: 218 KLQGKTITLAWA 229
++G + W
Sbjct: 85 TIEGHVVKCYWG 96
>1x5p_A Negative elongation factor E; structure genomics, RRM domain,
PARP14, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 97
Score = 82.3 bits (204), Expect = 2e-20
Identities = 19/78 (24%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
TL++ + L F +G+++ +++ PPR CAFV + + A +A+ +L T+
Sbjct: 16 NTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQ 73
Query: 219 LQGKTITLAWAPGKGMKD 236
++ + + A + M D
Sbjct: 74 VESVQLKVNIARKQPMLD 91
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition
motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 99
Score = 81.2 bits (201), Expect = 8e-20
Identities = 20/75 (26%), Positives = 37/75 (49%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
+ L++G+L + EEE+ F +YG + + +G F+ + R A A +L N
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNM 74
Query: 218 KLQGKTITLAWAPGK 232
L+GK + + +A
Sbjct: 75 PLRGKQLRVRFACHS 89
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 81.4 bits (201), Expect = 1e-19
Identities = 19/84 (22%), Positives = 29/84 (34%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
T + +L E+ +TF +G + + L A V +A KA L +
Sbjct: 10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYS 69
Query: 218 KLQGKTITLAWAPGKGMKDKDWKD 241
K + L WAP K
Sbjct: 70 KFHHVPLYLEWAPIGVFGAAPQKK 93
>2bz2_A Negative elongation factor E; NELF E, RNA recognition motif,
alternative splicing, nuclear protein, phosphorylation,
repeat, repressor; NMR {Homo sapiens} SCOP: d.58.7.1
PDB: 2jx2_A
Length = 121
Score = 81.3 bits (201), Expect = 1e-19
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 2/80 (2%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
TL++ + L F +G+++ +++ PPR CAFV + + A +A+ +L T+
Sbjct: 40 NTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQ 97
Query: 219 LQGKTITLAWAPGKGMKDKD 238
++ + + A + M D
Sbjct: 98 VESVQLKVNIARKQPMLDAA 117
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 79.3 bits (196), Expect = 5e-19
Identities = 21/110 (19%), Positives = 43/110 (39%), Gaps = 7/110 (6%)
Query: 133 MADPNHPIHRE-----LAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVS 187
M +H H + +T L++ VQE EL++ FG +G +
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKE 60
Query: 188 INLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGKGMKDK 237
+ + G AFV + AAKA+ ++ + + + ++ + +
Sbjct: 61 VKI--LNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPAKRYR 108
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 78.9 bits (195), Expect = 6e-19
Identities = 18/72 (25%), Positives = 28/72 (38%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
L++ +L EE + F + R AFV + R+DA +A+ L
Sbjct: 15 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGK 74
Query: 218 KLQGKTITLAWA 229
L G I + A
Sbjct: 75 VLDGSPIEVTLA 86
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Length = 103
Score = 78.1 bits (193), Expect = 1e-18
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 2/80 (2%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
L++ +L+ V EE L F ++G + + + + AF+ + R A KA+ ++
Sbjct: 12 KVLFVRNLANTVTEEILEKAFSQFGKLERVKKL--KDYAFIHFDERDGAVKAMEEMNGKD 69
Query: 219 LQGKTITLAWAPGKGMKDKD 238
L+G+ I + +A K K+
Sbjct: 70 LEGENIEIVFAKPPDQKRKE 89
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 93
Score = 74.6 bits (184), Expect = 2e-17
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKL-KNT 217
L+IG+LS V ++L FG+ ++ ++ G AFV + A +A+ L
Sbjct: 9 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKV 68
Query: 218 KLQGKTITLAWAPGKGMK 235
+L GK + + ++ K ++
Sbjct: 69 ELHGKIMEVDYSVSKKLR 86
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 74.2 bits (183), Expect = 3e-17
Identities = 16/69 (23%), Positives = 28/69 (40%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
+T LW+G L L+ F +G + +I+ + A++ A A K++
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGF 76
Query: 218 KLQGKTITL 226
L G L
Sbjct: 77 PLGGPDRRL 85
>1b7f_A Protein (SXL-lethal protein), RNA
(5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing
regulation, RNP domain, RNA complex; 2.60A {Drosophila
melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A*
1sxl_A 2sxl_A
Length = 168
Score = 76.1 bits (188), Expect = 4e-17
Identities = 24/117 (20%), Positives = 47/117 (40%), Gaps = 17/117 (14%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+T L + +L + + + EL F G + + ++ G AFV D+ +A+
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLED 268
L ++ K + +++A G KD + V + L + I D L+
Sbjct: 63 KVLNGITVRNKRLKVSYARPGGESIKDTNLY--VTN---------LPRTITDDQLDT 108
Score = 67.2 bits (165), Expect = 7e-14
Identities = 28/90 (31%), Positives = 52/90 (57%), Gaps = 8/90 (8%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCM 201
AR G E++ T L++ +L + + +++L FG+YG +V N++ PRG AFV
Sbjct: 79 YARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 138
Query: 202 NRRQDAAKALYKLKNTKLQG--KTITLAWA 229
N+R++A +A+ L N +G + +++ A
Sbjct: 139 NKREEAQEAISALNNVIPEGGSQPLSVRLA 168
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 92
Score = 73.0 bits (180), Expect = 8e-17
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 2/84 (2%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAA 208
+G ST L +G++S +EL F EYG V+ +++ + AFV M R +DA
Sbjct: 1 GSSGSSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV--KDYAFVHMERAEDAV 58
Query: 209 KALYKLKNTKLQGKTITLAWAPGK 232
+A+ L NT+ QGK + + + +
Sbjct: 59 EAIRGLDNTEFQGKRMHVQLSTSR 82
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 107
Score = 73.5 bits (181), Expect = 8e-17
Identities = 20/88 (22%), Positives = 39/88 (44%), Gaps = 8/88 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-------PPRGCAFVCMNRRQDAAKA 210
++ + + ++ + E+ + F +G++ ++ L RG FV +QDA KA
Sbjct: 15 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74
Query: 211 LYKLKN-TKLQGKTITLAWAPGKGMKDK 237
L + T L G+ + L WA +
Sbjct: 75 FNALCHSTHLYGRRLVLEWADSEVTVQS 102
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex,
AU-rich element, transcription/RNA complex; 1.80A {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H
1d8z_A 1d9a_A 3hi9_A
Length = 167
Score = 74.9 bits (185), Expect = 9e-17
Identities = 30/117 (25%), Positives = 47/117 (40%), Gaps = 17/117 (14%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T L + +L + + +EE FG G++ S L+ G FV +DA KA+
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLED 268
L +LQ KTI +++A +D + V L K + LE
Sbjct: 62 NTLNGLRLQTKTIKVSYARPSSASIRDANLY--VSG---------LPKTMTQKELEQ 107
Score = 61.0 bits (149), Expect = 9e-12
Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 8/90 (8%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCM 201
AR ++ L++ L K + ++EL F +YG +++ ++ RG F+
Sbjct: 78 YARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
Query: 202 NRRQDAAKALYKLKNTKLQG--KTITLAWA 229
++R +A +A+ L K G + IT+ +A
Sbjct: 138 DKRIEAEEAIKGLNGQKPSGATEPITVKFA 167
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 76.8 bits (188), Expect = 9e-17
Identities = 19/126 (15%), Positives = 38/126 (30%), Gaps = 11/126 (8%)
Query: 117 QKNEVFTPDIIHPLFDMADPNHPIHRELAEIQARNGVENMCSTTLWIGHLS--------- 167
+ ++ + + D + E G + TL++G +
Sbjct: 95 DEEDIGKLALRTEVLD--CFGREKFADYREDMGGIGSFRKKNKTLYVGGIDGALNSKHLK 152
Query: 168 KLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLA 227
E + F GD+ I + + C FV + +A A + N L +
Sbjct: 153 PAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEW 212
Query: 228 WAPGKG 233
+G
Sbjct: 213 DDRREG 218
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain,
RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 71.9 bits (177), Expect = 2e-16
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 4/85 (4%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP----RGCAFVCMNRRQDAAKALYK 213
TL++G+LS+ V E + F + G S +I FV +DAA AL
Sbjct: 15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAA 74
Query: 214 LKNTKLQGKTITLAWAPGKGMKDKD 238
+ K+ GK + + WA +
Sbjct: 75 MNGRKILGKEVKVNWATTPSSQKSG 99
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 71.1 bits (175), Expect = 3e-16
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
+ +++G++S +EL F G V+ +++ + AFV M + DA A+ +L
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRVIECDVV--KDYAFVHMEKEADAKAAIAQLNGK 66
Query: 218 KLQGKTITLAWAPGK 232
+++GK I + +
Sbjct: 67 EVKGKRINVELSTKG 81
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 115
Score = 71.6 bits (176), Expect = 4e-16
Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L++ +LS V E +L F + + + RG AF+ ++ A +AL
Sbjct: 25 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL 84
Query: 212 YKLKNTKLQGKTITLAWA 229
+ + KL GK + + +
Sbjct: 85 HLVNGYKLYGKILVIEFG 102
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B
3fey_B 1h6k_X
Length = 156
Score = 72.9 bits (179), Expect = 4e-16
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S TL++G+LS EE++ + F + GD+ I + G FV R DA A+
Sbjct: 39 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
Query: 212 YKLKNTKLQGKTITLAWAPGK 232
+ T+L + I W G
Sbjct: 99 RYINGTRLDDRIIRTDWDAGF 119
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 69.9 bits (172), Expect = 1e-15
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKAL 211
TL + +L+ + L F +YG V + + PRG AFV + R+DA A
Sbjct: 13 MITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAE 72
Query: 212 YKLKNTKLQGKTITLAWA 229
+ +L G+ + + A
Sbjct: 73 AAMDGAELDGRELRVQVA 90
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 69.5 bits (171), Expect = 1e-15
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 155 NMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKL 214
+ L+IG+L + E+E+ F +YG V+ ++I + FV + + A A+ L
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--KNYGFVHIEDKTAAEDAIRNL 62
Query: 215 KNTKLQGKTITLAWAPGK 232
+ KL G I + + K
Sbjct: 63 HHYKLHGVNINVEASKNK 80
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken
structural genomics/proteomics initiative, RSGI; NMR
{Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A
Length = 110
Score = 69.7 bits (171), Expect = 2e-15
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 158 STTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKN 216
++ ++IG+L+ LV++ ++ F +YG V ++ +G AFV + + A A+
Sbjct: 27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--HKGYAFVQYSNERHARAAVLGENG 84
Query: 217 TKLQGKTITLAWA 229
L G+T+ + A
Sbjct: 85 RVLAGQTLDINMA 97
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 69.1 bits (169), Expect = 3e-15
Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 3/81 (3%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDV-VSINLIPPRGCAFVCMNRRQDAAKALYKLKN 216
+ +++G+L + + +L E G V + + PR AF+ A +A+ L+
Sbjct: 19 AADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCLQG 78
Query: 217 TKLQGKTITLAWAPGKGMKDK 237
+L T+ +A A + +DK
Sbjct: 79 LRLGTDTLRVALA--RQQRDK 97
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 69.2 bits (170), Expect = 3e-15
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ T+ + +LS+ +E +L + F +G + I L +G AF+ +RR+DAA+A+
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Query: 212 YKLKNTKLQGKTITLAWA 229
+ + + WA
Sbjct: 75 AGVSGFGYDHLILNVEWA 92
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 68.8 bits (169), Expect = 3e-15
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++G L++ V ++ L F +GD+ I + RG AFV +DAA A+
Sbjct: 12 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 71
Query: 212 YKLKNTKLQGKTITLAWA 229
+ ++L G+TI + A
Sbjct: 72 DNMNESELFGRTIRVNLA 89
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 72.0 bits (177), Expect = 5e-15
Identities = 18/88 (20%), Positives = 36/88 (40%)
Query: 143 ELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMN 202
++ L++G+L + EE+ F YG+ + + RG F+ +
Sbjct: 7 DIKSFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLE 66
Query: 203 RRQDAAKALYKLKNTKLQGKTITLAWAP 230
R A A +L T L+ + + + +A
Sbjct: 67 SRTLAEIAKAELDGTILKSRPLRIRFAT 94
Score = 56.2 bits (136), Expect = 1e-09
Identities = 17/89 (19%), Positives = 31/89 (34%), Gaps = 9/89 (10%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
L + +LS +V E L F ++G V ++ G FV + A KAL
Sbjct: 96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155
Query: 213 KLKNTKL----QGKTITLAWAPGKGMKDK 237
+ + + + + +D
Sbjct: 156 RCGDGAFLLTTTPRPVIVEPMEQFDDEDG 184
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49)
(SAP 49) (SF3B50)...; structure genomics,RRM
domain,splicing factor 3B; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 105
Score = 68.4 bits (168), Expect = 5e-15
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T+++G L + V E L + F + G VV+ ++ +G FV +DA A+
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 212 YKLKNTKLQGKTITLAWA 229
+ KL GK I + A
Sbjct: 75 KIMDMIKLYGKPIRVNKA 92
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP,
RBD, poly(U) binding, tandem, acetylation, cytopla
nucleus; 2.70A {Saccharomyces cerevisiae}
Length = 166
Score = 69.9 bits (172), Expect = 6e-15
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALYKL 214
L++G+L K + E+ L F G + +I ++ AFV ++ DA AL L
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTL 61
Query: 215 KNTKLQGKTITLAWAPGKGMKDKD 238
+++ + + WA D
Sbjct: 62 NGKQIENNIVKINWAFQSQQSSSD 85
Score = 57.2 bits (139), Expect = 3e-10
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYK 213
L++G L+ V +E L + F ++ +S +++ RG FV + DA A+
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 214 LKNTKLQGKTITLAWA 229
++ L G+ + + WA
Sbjct: 149 MQGQDLNGRPLRINWA 164
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 67.9 bits (166), Expect = 6e-15
Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 3/78 (3%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI---PPRGCAFVCMNRRQDAAKALYKL 214
L I ++ +Q E L +YG V S + V + + A +AL KL
Sbjct: 15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKL 74
Query: 215 KNTKLQGKTITLAWAPGK 232
+L+ T+ +A+ P +
Sbjct: 75 NGFQLENFTLKVAYIPDE 92
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA
splicing, mRNA transport, nonsense-mediated mRNA decay,
nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*
Length = 126
Score = 68.6 bits (168), Expect = 7e-15
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++ + + EE++ D F EYG++ +I+L +G V ++A A+
Sbjct: 22 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81
Query: 212 YKLKNTKLQGKTITLAWA 229
L L G+ I++ W
Sbjct: 82 EGLNGQDLMGQPISVDWC 99
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 69.0 bits (169), Expect = 8e-15
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCM 201
+G L++G L++ V ++ L F +GD+ I + RG AFV
Sbjct: 53 SGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 112
Query: 202 NRRQDAAKALYKLKNTKLQGKTITLAWA 229
+DAA A+ + ++L G+TI + A
Sbjct: 113 ELAEDAAAAIDNMNESELFGRTIRVNLA 140
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 68.1 bits (167), Expect = 8e-15
Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI----PPRGCAFVCMNRRQDAAKALYK 213
L + ++ ++ +L FG++G ++ + +I +G FV DA +A K
Sbjct: 29 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREK 88
Query: 214 LKNTKLQGKTITLAWAPGKGM 234
L T ++G+ I + A + M
Sbjct: 89 LHGTVVEGRKIEVNNATARVM 109
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger,
CYP33, MLL, RNA binding protein, ALT splicing, mRNA
processing, mRNA splicing; 1.85A {Homo sapiens} PDB:
2kyx_A 3lpy_A*
Length = 85
Score = 67.2 bits (165), Expect = 8e-15
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++G L++ V ++ L F +GD+ I + RG AFV +DAA A+
Sbjct: 7 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 66
Query: 212 YKLKNTKLQGKTITLAWA 229
+ ++L G+TI + A
Sbjct: 67 DNMNESELFGRTIRVNLA 84
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 67.8 bits (166), Expect = 9e-15
Identities = 16/79 (20%), Positives = 28/79 (35%), Gaps = 6/79 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L+ V+E L D +YG+V + ++ G A V + A + +
Sbjct: 6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETV 65
Query: 212 YKLKNTKLQGKTITLAWAP 230
L T + G I
Sbjct: 66 KNLHLTSVMGNIIHAQLDI 84
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT
arginine/serine-rich 2, S35, splicing factor SC35,; RRM
domain, cell WALL; NMR {Streptococcus SP}
Length = 158
Score = 69.1 bits (169), Expect = 1e-14
Identities = 24/108 (22%), Positives = 41/108 (37%), Gaps = 8/108 (7%)
Query: 128 HPLFDMADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVS 187
+D A + VE M S L + +L+ + L F +YG V
Sbjct: 42 EWTYDDATKTFTVTEGSHHHHHHMDVEGMTS--LKVDNLTYRTSPDTLRRVFEKYGRVGD 99
Query: 188 INLIP------PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
+ + RG AFV + ++DA A+ + L G+ + + A
Sbjct: 100 VYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 147
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 67.3 bits (165), Expect = 1e-14
Identities = 19/84 (22%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYK 213
L + ++ ++ +L FG++G ++ + +I +G FV DA +A K
Sbjct: 15 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREK 74
Query: 214 LKNTKLQGKTITLAWAPGKGMKDK 237
L T ++G+ I + A + M +
Sbjct: 75 LHGTVVEGRKIEVNNATARVMTNS 98
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo
sapiens} SCOP: d.58.7.1
Length = 106
Score = 67.3 bits (165), Expect = 1e-14
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++ + + EE++ D F EYG++ +I+L +G V ++A A+
Sbjct: 23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82
Query: 212 YKLKNTKLQGKTITLAWA 229
L L G+ I++ W
Sbjct: 83 EGLNGQDLMGQPISVDWC 100
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.54A {Homo sapiens}
Length = 95
Score = 66.9 bits (164), Expect = 1e-14
Identities = 18/77 (23%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
T+++G+L V+EE L + F + G + + + P+ FVC + + A+
Sbjct: 16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIA 75
Query: 213 KLKNTKLQGKTITLAWA 229
L +L G+ I ++
Sbjct: 76 LLNGIRLYGRPINVSGP 92
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription,
splicing, RNA processing, nonsense mediated D NMD, HDAC,
histone deacetylation; 1.90A {Homo sapiens}
Length = 88
Score = 66.4 bits (163), Expect = 2e-14
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 156 MCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-------PPRGCAFVCMNRRQDAA 208
M T + IG L++ V ++ + + F YG + I++ +G A+V +A
Sbjct: 2 MKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAE 61
Query: 209 KALYKLKNTKLQGKTIT 225
KAL + ++ G+ IT
Sbjct: 62 KALKHMDGGQIDGQEIT 78
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing
factor, RNA protein complex, SMN, binding protein-RNA
complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Length = 129
Score = 67.4 bits (165), Expect = 2e-14
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L + LS E +L + F +YG + ++++ RG AFV DA +A
Sbjct: 46 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105
Query: 212 YKLKNTKLQGKTITLAWA 229
+ +L G+ I + ++
Sbjct: 106 ERANGMELDGRRIRVDFS 123
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 95
Score = 66.4 bits (163), Expect = 2e-14
Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S+ L++G L + E+ L F +G + +I L+ +G F+ + + A +AL
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 212 YKLKNTKLQGKTITLAWA 229
+L +L G+ + +
Sbjct: 65 EQLNGFELAGRPMRVGHV 82
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2,
alternate splicing factor)...; structure genomics, SURP
domain, splicing factor SF2; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 66.6 bits (163), Expect = 3e-14
Identities = 16/75 (21%), Positives = 33/75 (44%), Gaps = 3/75 (4%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP---PRGCAFVCMNRRQDAAKALYKL 214
+++G+L ++ +++ D F +YG + I+L AFV +DA A+Y
Sbjct: 22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR 81
Query: 215 KNTKLQGKTITLAWA 229
G + + +
Sbjct: 82 DGYDYDGYRLRVEFP 96
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 67.5 bits (165), Expect = 3e-14
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T+L + +L+ + L F +YG V + + RG AFV + ++DA A+
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 212 YKLKNTKLQGKTITLAWA 229
+ L G+ + + A
Sbjct: 107 DAMDGAVLDGRELRVQMA 124
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1;
RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 94
Score = 66.1 bits (162), Expect = 3e-14
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+T+++ +L + +L F +YG VV + ++ +G AF+ + A
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75
Query: 212 YKLKNTKLQGKTITLAWA 229
+ N +L G+ I + A
Sbjct: 76 RAINNKQLFGRVIKASIA 93
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 66.1 bits (162), Expect = 3e-14
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 8/84 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALY 212
L+I L +EEL + +G V + L+ P+G A+V A++A+
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVM 76
Query: 213 KLKNTKLQGKTITLAWA---PGKG 233
K+ ++ I +A + P G
Sbjct: 77 KMDGMTIKENIIKVAISNSGPSSG 100
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar
mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 67.9 bits (166), Expect = 4e-14
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 156 MCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAK 209
+ L++ + + QE+E+ + F +YG++ +I+L +G A V + A
Sbjct: 70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALA 129
Query: 210 ALYKLKNTKLQGKTITLAWAPGKG 233
A L ++ G+TI + W KG
Sbjct: 130 AKEALNGAEIMGQTIQVDWCFVKG 153
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 95
Score = 65.7 bits (161), Expect = 5e-14
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L + LS E +L + F +YG + ++++ RG AFV DA +A
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74
Query: 212 YKLKNTKLQGKTITLAWA 229
+ +L G+ I ++
Sbjct: 75 ERANGMELDGRRIRVSGP 92
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein
complex, EXON junct complex, signaling protein; 1.85A
{Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B*
2j0s_D* 2xb2_D*
Length = 110
Score = 65.8 bits (161), Expect = 5e-14
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++ + + QE+E+ + F +YG++ +I+L +G A V + A A
Sbjct: 26 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 85
Query: 212 YKLKNTKLQGKTITLAWA 229
L ++ G+TI + W
Sbjct: 86 EALNGAEIMGQTIQVDWC 103
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 66.2 bits (162), Expect = 5e-14
Identities = 23/105 (21%), Positives = 41/105 (39%), Gaps = 6/105 (5%)
Query: 133 MADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP 192
DP+ H +L + G L + +L V + ++ + F E+G + +
Sbjct: 11 GRDPDKWQH-DLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDY 69
Query: 193 -----PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGK 232
G A V RR DA KA+ + K L G+ + + +
Sbjct: 70 DRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 114
>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition
motif, RRM, RNA binding domain, RBD, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 65.8 bits (161), Expect = 6e-14
Identities = 14/77 (18%), Positives = 32/77 (41%), Gaps = 5/77 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
+T+++ +L V ++L + F G VV +++ RG V + +A +A+
Sbjct: 15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAIS 74
Query: 213 KLKNTKLQGKTITLAWA 229
L + + +
Sbjct: 75 MFNGQLLFDRPMHVKMD 91
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 99
Score = 65.3 bits (160), Expect = 7e-14
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S L++ +LS EE+L F YG + ++ P+G AFV + A KA
Sbjct: 8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAY 67
Query: 212 YKLKNTKLQGKTITLAWA 229
++ QG+ + + +
Sbjct: 68 AEVDGQVFQGRMLHVLPS 85
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA
binding protein, structure, protein-RNA complex, RNA
stem-loop, structural protein/RNA complex; NMR {Homo
sapiens}
Length = 116
Score = 65.8 bits (161), Expect = 7e-14
Identities = 26/104 (25%), Positives = 39/104 (37%), Gaps = 5/104 (4%)
Query: 153 VENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDA 207
VE L+IG L++ E+ L FG++G + + LI RG AF+ DA
Sbjct: 2 VEADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADA 61
Query: 208 AKALYKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSY 251
A + L GK I + A + + S
Sbjct: 62 KNAAKDMNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSP 105
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 98
Score = 65.0 bits (159), Expect = 7e-14
Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 9/81 (11%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI---------PPRGCAFVCMNRRQDAA 208
S+ L+I +L+ EE L F + G + S + G FV + + A
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 209 KALYKLKNTKLQGKTITLAWA 229
KAL +L+ + G + + +
Sbjct: 65 KALKQLQGHTVDGHKLEVRIS 85
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex,
mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB:
2x1b_A 2x1a_A 2km8_B
Length = 96
Score = 64.9 bits (159), Expect = 8e-14
Identities = 14/78 (17%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S +++G + EE++ D G V+++ ++ +G AF+ + +A A+
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 212 YKLKNTKLQGKTITLAWA 229
L +L + + ++
Sbjct: 62 RNLNGYQLGSRFLKCGYS 79
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding
protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi}
SCOP: d.58.7.1
Length = 139
Score = 65.9 bits (161), Expect = 1e-13
Identities = 19/87 (21%), Positives = 33/87 (37%), Gaps = 6/87 (6%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMN 202
+ E L + ++ V E +L F YG + S+ ++ RG FV
Sbjct: 33 TQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQ 92
Query: 203 RRQDAAKALYKLKNTKLQGKTITLAWA 229
A +A+ L + K + +A A
Sbjct: 93 SGSSAQQAIAGLNGFNILNKRLKVALA 119
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 64.6 bits (158), Expect = 1e-13
Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-PRGCAFVCMNRRQDAAKALYKLKNTKL 219
+++G+L + EL F YG + ++ + P G AFV +DA A+ L +
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVI 62
Query: 220 QGKTITLAWAPGKG 233
G + + + G
Sbjct: 63 CGSRVRVELSTGMP 76
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 101
Score = 64.2 bits (157), Expect = 1e-13
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 10/85 (11%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S TL + +LS EE L + F + + +P +G AF+ +DA +AL
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKD 236
+++G+ I L +G +
Sbjct: 71 NSCNKREIEGRAIRLELQGPRGSPN 95
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 64.2 bits (157), Expect = 2e-13
Identities = 18/79 (22%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDT----FGEYGDVVSINLIP---PRGCAFVCMNRRQDAAKA 210
+ T++I +L++ ++++EL + F +G ++ I + RG AFV A A
Sbjct: 8 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNA 67
Query: 211 LYKLKNTKLQGKTITLAWA 229
L ++ K + + +A
Sbjct: 68 LRSMQGFPFYDKPMRIQYA 86
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 63.8 bits (156), Expect = 2e-13
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++G LS E+ L F +YG + + ++ RG FV DA A+
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Query: 212 YKLKNTKLQGKTITLAWA 229
+ + G+ I + A
Sbjct: 72 MAMNGKSVDGRQIRVDQA 89
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA
splicing, adenine, mRNA processing, nucleus,
phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo
sapiens} PDB: 2f9d_A 2f9j_A 2fho_B
Length = 115
Score = 64.3 bits (157), Expect = 2e-13
Identities = 20/83 (24%), Positives = 35/83 (42%), Gaps = 3/83 (3%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP---PRGCAFVCMNRRQDAAKALYKL 214
+ L+I +L + EE+ D FG+YG + I + RG A+V DA A+ L
Sbjct: 8 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 215 KNTKLQGKTITLAWAPGKGMKDK 237
+ + + + + K
Sbjct: 68 SGFNVSNRYLVVLYYNANRAFQK 90
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A
2dno_A
Length = 105
Score = 63.8 bits (156), Expect = 3e-13
Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
L++G L+K EE++ F +G + ++ +GCAFV + +A A++
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 213 KLKNTKL---QGKTITLAWA 229
L ++ ++ + +A
Sbjct: 75 ALHGSQTMPGASSSLVVKFA 94
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif,
C-terminal helix, N-terminal helix, RNA binding protein;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 63.4 bits (155), Expect = 3e-13
Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
++++G++ EE+L D F E G VVS L+ P+G F ++ A A+
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDKD 238
L + G+ + + A + K++
Sbjct: 68 RNLNGREFSGRALRVDNAASEKNKEEL 94
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure
genomics, RRM domain, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 63.8 bits (156), Expect = 3e-13
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 5/77 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALY 212
T L+I +L + E+EL + +G V+S ++ RG F M + +
Sbjct: 25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIG 84
Query: 213 KLKNTKLQGKTITLAWA 229
++ A
Sbjct: 85 HFNGKFIKTPPGVSAPT 101
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
recognition motif, vincu alpha-actinin, nucleus, RNA
binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
Length = 284
Score = 66.9 bits (164), Expect = 4e-13
Identities = 13/81 (16%), Positives = 30/81 (37%), Gaps = 6/81 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L + +L + +++ + +G + L+ +G F ++ AA+A
Sbjct: 95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAK 154
Query: 212 YKLKNTKLQGKTITLAWAPGK 232
L L +T+ + W
Sbjct: 155 SDLLGKPLGPRTLYVHWTDAG 175
Score = 66.9 bits (164), Expect = 5e-13
Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
+ I L V +E+ D +Y + + +G AFV + + A A+ +
Sbjct: 22 RRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQS 80
Query: 218 KLQGKTITLAWAP 230
+L+ + +++ P
Sbjct: 81 RLRERELSVQLQP 93
Score = 64.2 bits (157), Expect = 3e-12
Identities = 11/78 (14%), Positives = 22/78 (28%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLV-QEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKAL 211
S L + L + L L +G A + + A +A
Sbjct: 184 SRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQ 243
Query: 212 YKLKNTKLQGKTITLAWA 229
+ L G + +++
Sbjct: 244 QQADGLSLGGSHLRVSFC 261
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 64.9 bits (159), Expect = 5e-13
Identities = 19/87 (21%), Positives = 44/87 (50%), Gaps = 1/87 (1%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-PPRGCAFVCMNRRQD 206
+ R+ + + TL +LS + E+EL + F + ++ ++ +G A++ D
Sbjct: 89 KGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEAD 148
Query: 207 AAKALYKLKNTKLQGKTITLAWAPGKG 233
A K L + + ++ G++++L + KG
Sbjct: 149 AEKNLEEKQGAEIDGRSVSLYYTGEKG 175
Score = 61.9 bits (151), Expect = 6e-12
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 6/86 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP-----RGCAFVCMNRRQDAAKALY 212
L+IG+L+ EL E + ++ R +V +D KAL
Sbjct: 13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL- 71
Query: 213 KLKNTKLQGKTITLAWAPGKGMKDKD 238
+L K+ G I L G+ K
Sbjct: 72 ELTGLKVFGNEIKLEKPKGRDSKKVR 97
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural
genomi center for structural genomics, JCSG, protein
structure INI PSI-biology; 2.54A {Homo sapiens} PDB:
1no8_A
Length = 107
Score = 63.1 bits (154), Expect = 5e-13
Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
L + +L V + ++ + F E+G + + G A V R+ DA KA+
Sbjct: 29 GGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMK 88
Query: 213 KLKNTKLQGKTITLAWAP 230
+ L G+ + +
Sbjct: 89 QYNGVPLDGRPMNIQLVT 106
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation
factors PAIP1 and PAIP2, translation-RNA complex; 2.00A
{Homo sapiens} PDB: 1cvj_A*
Length = 213
Score = 65.8 bits (161), Expect = 5e-13
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 6/88 (6%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCM 201
+ +L++G L V E L + F G ++SI + G A+V
Sbjct: 5 SMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNF 64
Query: 202 NRRQDAAKALYKLKNTKLQGKTITLAWA 229
+ DA +AL + ++GK + + W+
Sbjct: 65 QQPADAERALDTMNFDVIKGKPVRIMWS 92
Score = 58.8 bits (143), Expect = 1e-10
Identities = 16/90 (17%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYKL 214
++I +L K + + L DTF +G+++S ++ +G FV ++ A +A+ K+
Sbjct: 104 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 163
Query: 215 KNTKLQGKTITLAWAPGKGMKDKDWKDFWE 244
L + + + + ++ + +
Sbjct: 164 NGMLLNDRKVFVGRFKSRKEREAELGARAK 193
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 63.0 bits (154), Expect = 5e-13
Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI----PPRGCAFVCMNRRQDAAKALYK 213
L++ +L + +E L F +G + S ++ +G FVC + ++A KA+ +
Sbjct: 15 VVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTE 74
Query: 214 LKNTKLQGKTITLAWA 229
+ + K + +A A
Sbjct: 75 MNGRIVATKPLYVALA 90
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 63.8 bits (155), Expect = 5e-13
Identities = 14/91 (15%), Positives = 37/91 (40%), Gaps = 9/91 (9%)
Query: 158 STTLWIGHLSKLVQEEEL----SDTFGEYGDVVSINLI---PPRGCAFVCMNRRQDAAKA 210
S + I +++ V +E+L GD++ I + G A++ ++ A
Sbjct: 29 SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAF 88
Query: 211 LYKLKNTKLQGKTITLAWAPGKGMKDKDWKD 241
+ + QG + + ++ + + + +D
Sbjct: 89 VEAFQGYPFQGNPLVITFS--ETPQSQVAED 117
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 62.2 bits (152), Expect = 6e-13
Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYK 213
+ +++ +L + L D F E G V+ ++ +GC V + A +A
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRM 67
Query: 214 LKNTKLQGKTIT 225
+ KL G+ I
Sbjct: 68 MNGMKLSGREID 79
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor, snRNP,
spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP:
d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 66.5 bits (163), Expect = 7e-13
Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 153 VENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQD 206
V ++ TLW+ + + + D + V +P R A++ + ++D
Sbjct: 112 VSHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKED 171
Query: 207 AAKALYKLKNTKLQGKTITLAWA 229
A + KL K++G T+ +
Sbjct: 172 ARYCVEKLNGLKIEGYTLVTKVS 194
Score = 65.4 bits (160), Expect = 1e-12
Identities = 22/107 (20%), Positives = 47/107 (43%), Gaps = 12/107 (11%)
Query: 137 NHPIHRELA---EIQARNGVENMCSTTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIP 192
+ + +++ E R + + I +LS +L+ E L ++F +G + IN+
Sbjct: 186 GYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPA 245
Query: 193 -------PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGK 232
CAF+ + A +AL ++ + L + I+++ A K
Sbjct: 246 GQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSLADKK 291
Score = 54.6 bits (132), Expect = 6e-09
Identities = 12/75 (16%), Positives = 29/75 (38%), Gaps = 5/75 (6%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP----RGCAFVCMNRRQDAAKALYKL 214
TT+ + +L K + ++ F G ++ +++ A + R A A+ K
Sbjct: 42 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKT 101
Query: 215 KNTKLQGKTITLAWA 229
+ + I ++
Sbjct: 102 -HKVVGQNEIIVSHL 115
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wi6_A
Length = 88
Score = 62.0 bits (151), Expect = 7e-13
Identities = 13/77 (16%), Positives = 31/77 (40%), Gaps = 1/77 (1%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
S+ + + +L + +E+ D +Y + + + AFV + + A A+
Sbjct: 5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQY 63
Query: 218 KLQGKTITLAWAPGKGM 234
+GK + + P +
Sbjct: 64 SFRGKDLIVQLQPTDAL 80
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 62.7 bits (153), Expect = 7e-13
Identities = 20/84 (23%), Positives = 38/84 (45%), Gaps = 12/84 (14%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T++I +LS +EE L + ++GD+ + ++ +GCAF ++ A K L
Sbjct: 15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
Query: 212 ------YKLKNTKLQGKTITLAWA 229
+ KL G+ + + A
Sbjct: 75 AAASLEAEGGGLKLDGRQLKVDLA 98
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 64.5 bits (157), Expect = 8e-13
Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 5/96 (5%)
Query: 142 RELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGC 196
+L + G L + +L V + ++ + F E+G + + G
Sbjct: 72 HDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGT 131
Query: 197 AFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGK 232
A V RR DA KA+ + K L G+ + + +
Sbjct: 132 ADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 167
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 62.5 bits (152), Expect = 8e-13
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 10/91 (10%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP--------RGCAFVCMNRRQDAAK 209
+ L+IG + K+ + EE+ + + + V ++ RG AFV + AA
Sbjct: 8 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAM 67
Query: 210 ALYKL--KNTKLQGKTITLAWAPGKGMKDKD 238
A KL +L G I + WA + D+D
Sbjct: 68 ARRKLMPGRIQLWGHQIAVDWAEPEIDVDED 98
>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD,
RNP, poly(U) binding, nucleus, RNA-binding, binding
protein; 1.60A {Saccharomyces cerevisiae}
Length = 83
Score = 61.7 bits (151), Expect = 9e-13
Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L++G L+ V +E L + F ++ +S +++ RG FV + DA A+
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Query: 212 YKLKNTKLQGKTITLAWAPGK 232
++ L G+ + + WA
Sbjct: 61 DSMQGQDLNGRPLRINWAAKL 81
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A
Length = 229
Score = 65.0 bits (158), Expect = 1e-12
Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 2/92 (2%)
Query: 148 QARNGVENMCSTTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIP-PRGCAFVCMNRRQ 205
A G+ ++ L + +L+ + V + L FG YGDV + ++ + A V M
Sbjct: 24 IAIPGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGN 83
Query: 206 DAAKALYKLKNTKLQGKTITLAWAPGKGMKDK 237
A A+ L KL GK I + + + ++
Sbjct: 84 QAQLAMSHLNGHKLHGKPIRITLSKHQNVQLP 115
Score = 61.6 bits (149), Expect = 2e-11
Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 3/96 (3%)
Query: 137 NHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP--R 194
N P+HR S TL + ++ V EE+L F G VV R
Sbjct: 130 NSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR 189
Query: 195 GCAFVCMNRRQDAAKALYKLKNTKL-QGKTITLAWA 229
A + M ++A +AL L N L + + ++++
Sbjct: 190 KMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS 225
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA,
spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1
d.58.7.1
Length = 198
Score = 64.1 bits (156), Expect = 1e-12
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 158 STTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIP-PRGCAFVCMNRRQDAAKALYKLK 215
++ L + +L+ + V + L FG YGDV + ++ + A V M A A+ L
Sbjct: 3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLN 62
Query: 216 NTKLQGKTITLAWAPGKG 233
KL GK I + + +
Sbjct: 63 GHKLHGKPIRITLSKHQN 80
Score = 60.3 bits (146), Expect = 3e-11
Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 3/96 (3%)
Query: 137 NHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP--R 194
N P+HR S TL + ++ V EE+L F G VV R
Sbjct: 99 NSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR 158
Query: 195 GCAFVCMNRRQDAAKALYKLKNTKL-QGKTITLAWA 229
A + M ++A +AL L N L + + ++++
Sbjct: 159 KMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS 194
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and
splicing factor,...; protein-RNA complex RRM alpha-beta
sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR
{Streptococcus SP} PDB: 2i38_A
Length = 150
Score = 63.0 bits (153), Expect = 1e-12
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 7/103 (6%)
Query: 131 FDMADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINL 190
F + + +H H R+ C +++G+L + EL FG YG + S+ +
Sbjct: 52 FTVTEGSHHHHHH----MHRDSCPLDCK--VYVGNLGNNGNKTELERAFGYYGPLRSVWV 105
Query: 191 IP-PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGK 232
P G AFV +DAA A+ +L L G + + + G+
Sbjct: 106 ARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGE 148
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 62.3 bits (151), Expect = 1e-12
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 7/86 (8%)
Query: 151 NGVENMCSTT--LWI--GHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQD 206
G+E + T L + G L V +L + G V ++ + P + +F ++
Sbjct: 16 EGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEE 75
Query: 207 AAKALYKLKNTKL---QGKTITLAWA 229
+ +A L ++ G+ ITL
Sbjct: 76 SKRAYVTLNGKEVVDDLGQKITLYLN 101
>1x4e_A RNA binding motif, single-stranded interacting protein 2;
structural genomics, RRM domain, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 85
Score = 61.0 bits (149), Expect = 1e-12
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S+ L+I L +++L YG +VS I +G FV + A KA+
Sbjct: 5 SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
Query: 212 YKLKNTKLQGKTI 224
LK + +Q +
Sbjct: 65 TALKASGVQAQMA 77
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper),
RRM2 domain, solution structure, structural genomics,
PSI-2; NMR {Homo sapiens}
Length = 108
Score = 61.9 bits (151), Expect = 1e-12
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L++G L + E+ L F +G + SI L+ +G F+ + + A KAL
Sbjct: 26 PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKAL 85
Query: 212 YKLKNTKLQGKTITLAWA 229
+L +L G+ + +
Sbjct: 86 EQLNGFELAGRPMKVGHV 103
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} PDB: 2dgq_A
Length = 106
Score = 61.2 bits (149), Expect = 2e-12
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCM 201
+G+++ + L+IG + + + E++L F E+G + + ++ +GCAF+
Sbjct: 3 SGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
Query: 202 NRRQDAAKALYKLKNTKL---QGKTITLAWAPGKG 233
R+ A KA L K + I + A +
Sbjct: 63 CERESALKAQSALHEQKTLPGMNRPIQVKPADSES 97
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 63.9 bits (156), Expect = 2e-12
Identities = 15/107 (14%), Positives = 39/107 (36%), Gaps = 7/107 (6%)
Query: 135 DPNHPIHR-ELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP- 192
P + + I + E +++ + + + ++++ F +G + S L
Sbjct: 101 KVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARD 160
Query: 193 -----PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGKGM 234
+G F+ + Q + A+ + L G+ + + A M
Sbjct: 161 PTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPM 207
Score = 63.1 bits (154), Expect = 4e-12
Identities = 23/137 (16%), Positives = 52/137 (37%), Gaps = 18/137 (13%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMN 202
A+ + +++G + + E+ + F +G + SI++ +G AFV
Sbjct: 19 AQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYE 78
Query: 203 RRQDAAKALYKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDR-----L 257
+ A AL ++ + L G+ I + G E ++R +
Sbjct: 79 VPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEAR-----AFNRIYVASV 133
Query: 258 SKEIDYDYLEDGGVFDE 274
+++ D ++ VF+
Sbjct: 134 HQDLSDDDIKS--VFEA 148
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 60.7 bits (148), Expect = 3e-12
Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 3/82 (3%)
Query: 158 STTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKN 216
+ L+IG+L K V +E+L F YG ++ IN+ F+ + Q A+
Sbjct: 10 KSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIECESQ 67
Query: 217 TKLQGKTITLAWAPGKGMKDKD 238
GK + L + D
Sbjct: 68 EMNFGKKLILEVSSSNARPQFD 89
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA
binding protein-RNA complex; 1.85A {Homo sapiens} PDB:
3nna_A 3nnc_A 2dhs_A 3nnh_A
Length = 175
Score = 62.6 bits (153), Expect = 3e-12
Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 9/93 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP--------RGCAFVCMNRRQDAAK 209
+ +++G + + E++L + F +YG V IN++ +GC FV R+ A +
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 210 ALYKLKNTKLQGKTITLAWA-PGKGMKDKDWKD 241
A L N K+ P K+ +D
Sbjct: 63 AQNALHNMKVLPGMHHPIQMKPADSEKNNAVED 95
Score = 59.5 bits (145), Expect = 4e-11
Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 11/101 (10%)
Query: 137 NHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI----- 191
+HPI + A+ + N VE+ L+IG +SK E ++ F +G + ++
Sbjct: 77 HHPIQMKPADSEKNNAVED---RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDG 133
Query: 192 PPRGCAFVCMNRRQDAAKALYKLKNTKL---QGKTITLAWA 229
RGCAFV R A A+ + + + + +A
Sbjct: 134 LSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFA 174
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
Length = 104
Score = 61.0 bits (148), Expect = 3e-12
Identities = 11/74 (14%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLK 215
S + + L + V E +L + ++G + + ++P + A V A + +
Sbjct: 15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADV 74
Query: 216 NTKLQGKTITLAWA 229
+ G+ ++
Sbjct: 75 PVYIAGQQAFFNYS 88
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 108
Score = 61.0 bits (148), Expect = 3e-12
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKL 219
+ + L ++L D E GDV + + G V R++D A+ KL NTK
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYAD-VYRDGTGVVEFVRKEDMTYAVRKLDNTKF 75
Query: 220 QGKTITLAWA 229
+ A+
Sbjct: 76 RSHEGETAYI 85
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription
termination, RNA processi recognition, RRM; HET: CAF;
1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Length = 97
Score = 60.4 bits (147), Expect = 3e-12
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 3/79 (3%)
Query: 155 NMCSTTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYK 213
+ + L+IG+L K V +E+L F YG ++ IN+ F+ + Q A+
Sbjct: 19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIEX 76
Query: 214 LKNTKLQGKTITLAWAPGK 232
GK + L +
Sbjct: 77 ESQEMNFGKKLILEVSSSN 95
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 96
Score = 60.4 bits (147), Expect = 4e-12
Identities = 18/77 (23%), Positives = 40/77 (51%), Gaps = 1/77 (1%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSIN-LIPPRGCAFVCMNRRQDAAKALYKLKN 216
+ TL +LS + E+EL + F + ++ ++ +G A++ DA K L + +
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQG 75
Query: 217 TKLQGKTITLAWAPGKG 233
++ G++++L + KG
Sbjct: 76 AEIDGRSVSLYYTGEKG 92
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain,
structural genomics, NPPSFA; NMR {Mus musculus} PDB:
2rne_A 2dh7_A
Length = 115
Score = 60.4 bits (147), Expect = 5e-12
Identities = 22/100 (22%), Positives = 39/100 (39%), Gaps = 6/100 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+++G LS + E++ F +G + ++ +G FV + DA A+
Sbjct: 15 HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 74
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSY 251
++ L G+ I WA K K + Q G S
Sbjct: 75 QQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQSGPSS 114
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1 PDB: 2rq4_A 2rqc_A
Length = 115
Score = 60.4 bits (147), Expect = 5e-12
Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 6/79 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
L+I HL + +++L F +G+VVS + + FV + A A+ +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 215 KNTKLQGKTITLAWAPGKG 233
++ K + + K
Sbjct: 88 NGFQIGMKRLKVQLKRSKN 106
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing,
transcription, RNA binding protein, mRNA processing; NMR
{Homo sapiens} PDB: 2yh1_A
Length = 198
Score = 62.4 bits (152), Expect = 5e-12
Identities = 15/78 (19%), Positives = 33/78 (42%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L+IG L + ++++ + +G + + NL+ +G AF +A+
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 212 YKLKNTKLQGKTITLAWA 229
L +L K + + A
Sbjct: 174 AGLNGMQLGDKKLLVQRA 191
Score = 50.0 bits (120), Expect = 1e-07
Identities = 12/83 (14%), Positives = 30/83 (36%), Gaps = 12/83 (14%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP-----------RGCAFVCMNRRQD 206
+ L++G++ + EE + D F + + P + AF+ +
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 207 AAKALYKLKNTKLQGKTITLAWA 229
+A+ QG+++ +
Sbjct: 64 TTQAM-AFDGIIFQGQSLKIRRP 85
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 119
Score = 59.9 bits (145), Expect = 8e-12
Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 2/74 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLK 215
S + I L V E E+ +G V ++ ++ + AF+ MN + A + Y
Sbjct: 31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSV 90
Query: 216 NTKLQGKTITLAWA 229
L+G+ I + ++
Sbjct: 91 TPVLRGQPIYIQFS 104
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation,
RNA-binding, EIF4G-binding translation; 1.90A {Homo
sapiens} PDB: 4f26_A 2k8g_A
Length = 115
Score = 59.6 bits (145), Expect = 1e-11
Identities = 17/85 (20%), Positives = 41/85 (48%), Gaps = 4/85 (4%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYK 213
S ++I +L K + + L DTF +G+++S ++ +G FV ++ A +A+ K
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEK 64
Query: 214 LKNTKLQGKTITLAWAPGKGMKDKD 238
+ L + + + + ++ +
Sbjct: 65 MNGMLLNDRKVFVGRFKSRKEREAE 89
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 59.1 bits (143), Expect = 1e-11
Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 2/83 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLK 215
S + I L V E E+ +G V ++ ++ + AF+ MN + A + Y
Sbjct: 16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSV 75
Query: 216 NTKLQGKTITLAWAPGKGMKDKD 238
L+G+ I + ++ K +K
Sbjct: 76 TPVLRGQPIYIQFSNHKELKTDS 98
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 102
Score = 58.8 bits (143), Expect = 2e-11
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 9/82 (10%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S TL++ LS+ EE L ++F V ++ +G FV N +DA A
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFDG---SVRARIVTDRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 212 YKLKNTKLQGKTITLAWAPGKG 233
+++ ++ G +TL WA KG
Sbjct: 72 EAMEDGEIDGNKVTLDWAKPKG 93
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 58.6 bits (142), Expect = 2e-11
Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 2/74 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLK 215
S + I L V E +L + E+G + + ++P + A V A A+
Sbjct: 21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADN 80
Query: 216 NTKLQGKTITLAWA 229
+ G + ++
Sbjct: 81 QIYIAGHPAFVNYS 94
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 58.9 bits (143), Expect = 2e-11
Identities = 15/78 (19%), Positives = 32/78 (41%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
L+I HL + + +L+ TF +G+V+S + + FV + A A+
Sbjct: 40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99
Query: 212 YKLKNTKLQGKTITLAWA 229
+ ++ K + +
Sbjct: 100 KAMNGFQVGTKRLKVQLK 117
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA
splicing factor, RNA recognition motif, RNA binding
protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A
Length = 172
Score = 60.3 bits (147), Expect = 2e-11
Identities = 15/78 (19%), Positives = 33/78 (42%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ L+IG L + ++++ + +G + + NL+ +G AF +A+
Sbjct: 94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Query: 212 YKLKNTKLQGKTITLAWA 229
L +L K + + A
Sbjct: 154 AGLNGMQLGDKKLLVQRA 171
Score = 50.7 bits (122), Expect = 5e-08
Identities = 15/106 (14%), Positives = 34/106 (32%), Gaps = 17/106 (16%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP-----------RGCAFVCMNRRQD 206
+ L++G++ + EE + D F + + P + AF+ +
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 207 AAKALYKLKNTKLQGKTITLAWAPGKGMKDKDWKDF-----WEVQD 247
+A+ QG+++ + K F + D
Sbjct: 64 TTQAM-AFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLND 108
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 101
Score = 58.3 bits (141), Expect = 3e-11
Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLK 215
S L I L V E E+ +G V +I ++ + AF+ + + A + Y
Sbjct: 15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAV 74
Query: 216 NTKLQGKTITLAWA 229
L+ + I + ++
Sbjct: 75 TPHLRNQPIYIQYS 88
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A
Length = 282
Score = 61.8 bits (149), Expect = 3e-11
Identities = 18/79 (22%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 158 STTLWIGHLSKLVQEEEL----SDTFGEYGDVVSINLI---PPRGCAFVCMNRRQDAAKA 210
+ T++I +L++ ++++EL F ++G ++ I + RG AFV A A
Sbjct: 9 NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNA 68
Query: 211 LYKLKNTKLQGKTITLAWA 229
L ++ K + + +A
Sbjct: 69 LRSMQGFPFYDKPMRIQYA 87
Score = 55.3 bits (132), Expect = 5e-09
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR-GCAFVCMNRRQDAAKALYKLKNTK 218
L++ +L + E LS F ++ + L+P R AFV + A A L+ K
Sbjct: 209 ILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFK 268
Query: 219 L-QGKTITLAWA 229
+ Q + +++A
Sbjct: 269 ITQNNAMKISFA 280
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase,
SR protein, PRE-mRNA splicing, at binding, chromosome
partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP:
d.58.7.1 PDB: 2o3d_A 1wg4_A
Length = 115
Score = 58.3 bits (141), Expect = 3e-11
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKL 219
+ + L ++L D E GDV + + G V R++D A+ KL NTK
Sbjct: 18 RVVVSGLPPSGSWQDLKDHMREAGDVCYAD-VYRDGTGVVEFVRKEDMTYAVRKLDNTKF 76
Query: 220 QGKTITLAWA 229
+ A+
Sbjct: 77 RSHEGETAYI 86
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A
Length = 205
Score = 60.5 bits (146), Expect = 4e-11
Identities = 15/88 (17%), Positives = 31/88 (35%), Gaps = 2/88 (2%)
Query: 158 STTLWIGHLS-KLVQEEELSDTFGEYGDVVSINLIPP-RGCAFVCMNRRQDAAKALYKLK 215
S L + L + + + + F YG+V + + G A V M +A+ L
Sbjct: 4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLN 63
Query: 216 NTKLQGKTITLAWAPGKGMKDKDWKDFW 243
N + G+ + + + +
Sbjct: 64 NNFMFGQKMNVCVSKQPAIMPGQSYGLE 91
Score = 53.6 bits (128), Expect = 8e-09
Identities = 14/97 (14%), Positives = 27/97 (27%), Gaps = 6/97 (6%)
Query: 136 PNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP--- 192
+R QA S L + V EE + E G ++
Sbjct: 101 SESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSG 160
Query: 193 ---PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITL 226
+ + + DA + L L + +++
Sbjct: 161 KSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPY 197
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 99
Score = 57.3 bits (139), Expect = 4e-11
Identities = 25/87 (28%), Positives = 36/87 (41%), Gaps = 11/87 (12%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYG-DVVSINLIP------PRGCAFVCMNRRQDAAKA 210
+ +LW+G L + E +S F G V+S+ +I P G FV A K
Sbjct: 9 AASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKC 68
Query: 211 LYKLKNTKLQG----KTITLAWAPGKG 233
L+K+ L G K L +A G
Sbjct: 69 LHKINGKPLPGATPAKRFKLNYATYSG 95
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural
genomics, joint center for struc genomics, JCSG, protein
structure initiative; HET: PGE; 1.95A {Homo sapiens}
PDB: 3b4d_A 3b4m_A
Length = 89
Score = 56.8 bits (138), Expect = 6e-11
Identities = 16/84 (19%), Positives = 37/84 (44%), Gaps = 11/84 (13%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ ++++G++ EEL F G V + ++ P+G A++ + ++ +L
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 212 YKLKNTKLQGKTITLAWA----PG 231
L + +G+ I + PG
Sbjct: 66 -ALDESLFRGRQIKVIPKRTNRPG 88
>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 96
Score = 56.8 bits (138), Expect = 7e-11
Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 7/79 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKA 210
S+ ++IG+L + E+ L DTF +G ++ I +G AF+ + A
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAA 64
Query: 211 LYKLKNTKLQGKTITLAWA 229
+ + L + IT+++A
Sbjct: 65 IEAMNGQYLCNRPITVSYA 83
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 58.4 bits (141), Expect = 7e-11
Identities = 18/104 (17%), Positives = 34/104 (32%), Gaps = 8/104 (7%)
Query: 134 ADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYG--DVVSINLI 191
+P+ + + I +++G S +++L G DVV +
Sbjct: 31 QEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFA 90
Query: 192 P------PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
+G A V + K L L L G+ + + A
Sbjct: 91 ENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA 134
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein;
2.50A {Homo sapiens}
Length = 143
Score = 57.9 bits (140), Expect = 8e-11
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 11/83 (13%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP-----------RGCAFVCMNRRQD 206
+ +++ +L+K VQE++L FG Y D S +G AF+ + +
Sbjct: 45 NCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKA 104
Query: 207 AAKALYKLKNTKLQGKTITLAWA 229
AAKAL + L GK + + +A
Sbjct: 105 AAKALKEANGYVLFGKPMVVQFA 127
>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding
proteins, RNA binding protein/SS-DNA binding protein
complex; NMR {Helicobacter pylori}
Length = 90
Score = 56.4 bits (137), Expect = 1e-10
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 7/72 (9%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYK 213
+++G+L E++ + F ++G V ++ LI P+G FV M + ++A+ K
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAK 61
Query: 214 LKNTKLQGKTIT 225
L NT G+TI
Sbjct: 62 LDNTDFMGRTIR 73
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 56.2 bits (136), Expect = 1e-10
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 12/84 (14%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYG--DVVSINLIP------PRGCAFVCMNRRQDAAK 209
T+ + +++ + + Y V +I LI RG AFV ++ DA++
Sbjct: 9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQ 68
Query: 210 ALYKLKNT----KLQGKTITLAWA 229
L L++ K+ GKTI + +A
Sbjct: 69 LLQILQSLHPPLKIDGKTIGVDFA 92
>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A)
binding, structural genomics, protein structure
initiative, PSI-2; NMR {Xenopus laevis}
Length = 124
Score = 57.0 bits (138), Expect = 1e-10
Identities = 17/90 (18%), Positives = 37/90 (41%), Gaps = 11/90 (12%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
++++G++ ++L F G + I ++ P+G A++ R A+
Sbjct: 36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95
Query: 212 YKLKNTKLQGKTITLAWA----PGKGMKDK 237
+ T +G+TI + PG D+
Sbjct: 96 -AMDETVFRGRTIKVLPKRTNMPGISSTDR 124
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain,
poly(A) site recognition, RNA, nuclear, RNA BIND
protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Length = 90
Score = 56.1 bits (136), Expect = 1e-10
Identities = 16/77 (20%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYG--DVVSINLIP------PRGCAFVCMNRRQDAAKALY 212
L+IG+L+ +E+L++ G D++ I +G A V + + K +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 213 KLKNTKLQGKTITLAWA 229
L +L G+ + +
Sbjct: 64 LLPKRELHGQNPVVTPS 80
>2la6_A RNA-binding protein FUS; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative, RNA recognition; NMR {Homo sapiens}
Length = 99
Score = 55.8 bits (135), Expect = 2e-10
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 14/86 (16%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVS--------INLIP------PRGCAFVCMNR 203
+ T+++ L + V E ++D F + G + + INL +G A V +
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72
Query: 204 RQDAAKALYKLKNTKLQGKTITLAWA 229
A A+ + G I +++A
Sbjct: 73 PPSAKAAIDWFDGKEFSGNPIKVSFA 98
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 58.2 bits (140), Expect = 3e-10
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 8/86 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYG--DVVSINLIP------PRGCAFVCMNRRQDAAK 209
L+IG+L+ +E+L++ G D++ I +G A V + + K
Sbjct: 68 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKK 127
Query: 210 ALYKLKNTKLQGKTITLAWAPGKGMK 235
+ L +L G+ + + +
Sbjct: 128 LMDLLPKRELHGQNPVVTPVNKQFLS 153
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 101
Score = 55.3 bits (134), Expect = 3e-10
Identities = 21/90 (23%), Positives = 33/90 (36%), Gaps = 6/90 (6%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMN 202
G E+ L+IG+L+ EL E + ++ R +V
Sbjct: 7 DPVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFE 66
Query: 203 RRQDAAKALYKLKNTKLQGKTITLAWAPGK 232
+D KAL +L K+ G I L G+
Sbjct: 67 SAEDLEKAL-ELTGLKVFGNEIKLEKPKGR 95
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 55.5 bits (134), Expect = 3e-10
Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 14/91 (15%)
Query: 153 VENMCSTTLWIGHLSKLVQEEELSDTFGEYGDV--------VSINLIP------PRGCAF 198
+N + T+++ L + V E ++D F + G + INL +G A
Sbjct: 2 QDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 61
Query: 199 VCMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
V + A A+ + G I +++A
Sbjct: 62 VSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA 92
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 113
Score = 55.5 bits (134), Expect = 4e-10
Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 14/86 (16%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDV--------VSINLIP------PRGCAFVCMNR 203
++ +++ L+ V ++L+D F + G V I++ P+G A V
Sbjct: 15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 204 RQDAAKALYKLKNTKLQGKTITLAWA 229
A A+ QG + ++ A
Sbjct: 75 PPTAKAAVEWFDGKDFQGSKLKVSLA 100
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA
binding domain, RBD, RNA splicing, apoptosis,
phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Length = 87
Score = 54.5 bits (132), Expect = 4e-10
Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 6/75 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
+++G LS + ++ F +G + ++ +G FV + DA A+ ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 215 KNTKLQGKTITLAWA 229
L G+ I WA
Sbjct: 69 GGQWLGGRQIRTNWA 83
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding
domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 98
Score = 53.5 bits (129), Expect = 1e-09
Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T + + ++ V +E+ D F Y + + P G A V R +A A+
Sbjct: 15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAV 74
Query: 212 YKLKNTKLQGKTITLAWA 229
L + + + + L
Sbjct: 75 IDLNDRPIGSRKVKLVLG 92
>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA
recognition motif, RRM, RNA binding domain, RBD, RNP,
structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 53.4 bits (129), Expect = 1e-09
Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 9/88 (10%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKA 210
T ++G+L V EE + + F + ++ L +G + A
Sbjct: 15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSA 73
Query: 211 LYKLKNTKLQGKTITLAWAPGKGMKDKD 238
L L L K I + A KD
Sbjct: 74 L-SLNEESLGNKRIRVDVADQAQDKDSG 100
>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A
{Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A
Length = 102
Score = 53.0 bits (128), Expect = 2e-09
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 7/77 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
T+++G + + E E+ F YG V + +I +G FV D K +
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE 68
Query: 213 KLKNTKLQGKTITLAWA 229
N GK + L A
Sbjct: 69 SQIN--FHGKKLKLGPA 83
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 53.1 bits (128), Expect = 2e-09
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ T++ L+ ++ +L D F G V + +I +G A+V Q A+
Sbjct: 25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84
Query: 212 YKLKNTKLQGKTIT 225
L +L G I
Sbjct: 85 -GLTGQRLLGVPII 97
>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.00A {Homo sapiens} PDB:
2ek6_A
Length = 95
Score = 52.7 bits (127), Expect = 2e-09
Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
T + + ++ V +E+ D F Y + + P G A V R +A A+
Sbjct: 15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAV 74
Query: 212 YKLKNTKLQGKTITLAWA 229
L + + + + L+
Sbjct: 75 IDLNDRPIGSRKVKLSGP 92
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome biogenesis,
RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A
Length = 111
Score = 52.9 bits (127), Expect = 3e-09
Identities = 16/99 (16%), Positives = 37/99 (37%), Gaps = 5/99 (5%)
Query: 133 MADPNHPIHRELAEIQARNGVENMCST--TLWIGHLSKLVQEEELSDTFGEYGDVVS--- 187
M +H H + + + + + + + +L + ++L D E +
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSS 60
Query: 188 INLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITL 226
+N G + + +AL +L N + +G IT+
Sbjct: 61 VNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITV 99
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif,
RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 111
Score = 52.9 bits (127), Expect = 3e-09
Identities = 17/90 (18%), Positives = 40/90 (44%), Gaps = 12/90 (13%)
Query: 152 GVENMCSTTLWIGHLSKLVQEEEL---SDTFGEYGDVVSINLIP---------PRGCAFV 199
V + +++ LS+ + + E+ + FG++G + + + P A+V
Sbjct: 9 SVRVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYV 68
Query: 200 CMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
R +DA +A+ + N + G+T+ +
Sbjct: 69 TYIRSEDALRAIQCVNNVVVDGRTLKASLG 98
>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein
biosynthesis, RNA recognition motif, RNA binding domain,
RRM, RBD, RNP; NMR {Homo sapiens}
Length = 100
Score = 51.1 bits (123), Expect = 8e-09
Identities = 15/79 (18%), Positives = 27/79 (34%), Gaps = 9/79 (11%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-------PPRGCAFVCMNRRQDAAKA 210
T ++G+L V EE + + F + ++ L +G + A
Sbjct: 19 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSA 77
Query: 211 LYKLKNTKLQGKTITLAWA 229
L L L + I + A
Sbjct: 78 L-SLNEESLGNRRIRVDVA 95
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 50.7 bits (122), Expect = 1e-08
Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 8/81 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKAL 211
T ++G+L + ++ F + + S+ L+ +G +V + +AL
Sbjct: 15 PYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL 73
Query: 212 YKLKNTKLQGKTITLAWAPGK 232
L +++ + A G+
Sbjct: 74 -TYDGALLGDRSLRVDIAEGR 93
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 51.0 bits (121), Expect = 2e-07
Identities = 22/117 (18%), Positives = 41/117 (35%), Gaps = 6/117 (5%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYK 213
TL++ ++ E +L F YG + I+++ PRG AF+ +D A
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 214 LKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLEDGG 270
K+ G+ + + G+ +K + G D + D
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSGRDDTSRYD 220
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 47.4 bits (113), Expect = 2e-07
Identities = 10/78 (12%), Positives = 31/78 (39%), Gaps = 6/78 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALY 212
+ +++I +++ + + G V++I + +G FV + + A K +
Sbjct: 11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV- 69
Query: 213 KLKNTKLQGKTITLAWAP 230
+ K + + + +
Sbjct: 70 ETPGQKYKETDLLILFKD 87
>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A,
mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila
melanogaster}
Length = 89
Score = 46.2 bits (109), Expect = 4e-07
Identities = 19/73 (26%), Positives = 31/73 (42%)
Query: 152 GVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL 211
G S+ L + +L+ + L ++G +VS + +G A R++A KA
Sbjct: 1 GAMAWGSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQ 60
Query: 212 YKLKNTKLQGKTI 224
L N L TI
Sbjct: 61 MALNNCVLANTTI 73
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 96
Score = 45.8 bits (108), Expect = 6e-07
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 172 EEELSDTFGEYGDVVSINLIPP---RGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAW 228
++ L + F +G V S+ L P + A V M QDA A+ L K+ K I ++
Sbjct: 27 QQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL 86
Query: 229 APGKGMK 235
A G
Sbjct: 87 ATGASGP 93
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 46.4 bits (110), Expect = 7e-07
Identities = 16/86 (18%), Positives = 27/86 (31%), Gaps = 7/86 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+++ L + + + D F + V I G FV D AL
Sbjct: 25 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAAL 84
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDK 237
+ + I + KGM +K
Sbjct: 85 -CRHKQYMGNRFIQVHPITKKGMLEK 109
>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 45.5 bits (108), Expect = 1e-06
Identities = 14/94 (14%), Positives = 30/94 (31%), Gaps = 7/94 (7%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMN 202
+ G N I ++ + + ++ + + G A V
Sbjct: 6 SGEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFK 65
Query: 203 RRQDAAKALYKLKNTKLQGKTITLAWAPGKGMKD 236
DA K+ +L KL G+ + + M++
Sbjct: 66 NEDDARKSE-RLHRKKLNGREAFVHVVTLEDMRE 98
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 48.3 bits (114), Expect = 1e-06
Identities = 40/342 (11%), Positives = 90/342 (26%), Gaps = 117/342 (34%)
Query: 5 KTFNQELSSLYDTKPPISK------AKITAITRSAIRAIKFYKHVV-------------- 44
+ + ++ LY+ +K + R A+ ++ K+V+
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL-RQALLELRPAKNVLIDGVLGSGKTWVAL 168
Query: 45 QSVEKFIIKCKPEYKV------------PALYVIDSLVRQSRHQFQ---DKDVFGPRFAR 89
+ ++CK ++K+ L ++ L+ Q + D
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 90 NLKATFQHLYQCPPEDKSKIIRVLNLWQKN--EVF---------TPDIIHPLFDMADPNH 138
+++A + L + P + ++ +LN+ F T + D
Sbjct: 229 SIQAELRRLLKSKPYENCLLV-LLNVQNAKAWNAFNLSCKILLTTRFK--QVTDFLSAAT 285
Query: 139 PIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAF 198
H L H S + +E+ +Y D +P
Sbjct: 286 TTHISL-------------------DHHSMTLTPDEVKSLLLKYLDC-RPQDLPREVL-- 323
Query: 199 VCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLS 258
+++ +D W D ++ D+L+
Sbjct: 324 ----------------TTNPR---RLSIIAE-----SIRDGLATW---DNWKHVNCDKLT 356
Query: 259 KEID-----------YDYLEDGGVFDEDT-VP------LWLK 282
I+ + VF +P +W
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398
Score = 46.0 bits (108), Expect = 8e-06
Identities = 50/292 (17%), Positives = 88/292 (30%), Gaps = 87/292 (29%)
Query: 9 QELSSLYDTKPPISKAKITAITRSAIRAIKFYKHVVQSVEKF--IIKCKPEYKVPALYVI 66
Q+L T P + I R + +KHV + +K II+ PA Y
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV--NCDKLTTIIESSLNVLEPAEY-- 371
Query: 67 DSLVRQSRHQFQDKDVFGPRFARNLKATFQHL--------YQCPPEDKSKIIR--VLNLW 116
R F VF P + L +K+ + ++
Sbjct: 372 -------RKMFDRLSVF-PP---SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 117 QKNEVFTPDIIHPL-FDM---ADPNHPIHRELAEIQARNGVENMCSTTL----------- 161
K + I + ++ + + +HR + + N + S L
Sbjct: 421 PKESTIS---IPSIYLELKVKLENEYALHRSI--VDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 162 WIG-HLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
IG HL + E + F V ++ F+ Q K+++
Sbjct: 476 HIGHHLKNIEHPERM-TLFRM----VFLDF------RFL----EQ-------KIRHD--- 510
Query: 221 GKTITLAWAPGKGMKD-----KDWKDFWEVQDGVSYIPYDRLSKEIDYDYLE 267
+ AW + + K +K + D Y+RL I D+L
Sbjct: 511 ----STAWNASGSILNTLQQLKFYKPYICDNDPK----YERLVNAIL-DFLP 553
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP
A1, RNA-recognition motif, RNA- binding, UP1, RNA
binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1
d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A
1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A*
1up1_A
Length = 196
Score = 46.1 bits (110), Expect = 3e-06
Identities = 19/96 (19%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 135 DPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI--- 191
+P + RE ++ ++ +++G + + +E L D F +YG + I ++
Sbjct: 85 EPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 140
Query: 192 ---PPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTI 224
RG AFV + K + K + G
Sbjct: 141 GSGKKRGFAFVTFDDHDSVDKIV-IQKYHTVNGHNC 175
Score = 41.9 bits (99), Expect = 7e-05
Identities = 17/84 (20%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
L+IG LS +E L F ++G + ++ RG FV ++ A+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 74
Query: 215 KNTKLQGKTITLAWAPGKGMKDKD 238
+ K+ G+ + A + +
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRP 98
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 44.0 bits (104), Expect = 3e-06
Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 6/66 (9%)
Query: 163 IGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKLKN 216
I V ++ L+ F + G VV++ +G FV DA K +
Sbjct: 17 IPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
Query: 217 TKLQGK 222
+L K
Sbjct: 77 KRLDLK 82
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 43.5 bits (103), Expect = 4e-06
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 2/66 (3%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGC-AFVCMNRRQDAAKALYKLKNTK 218
++++ + V +LS+ F +G V S+ + +G A V M L
Sbjct: 10 SVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVL-SQSQHS 68
Query: 219 LQGKTI 224
L G +
Sbjct: 69 LGGHRL 74
>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA
recognition, alternative conformation binding protein;
HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A
Length = 87
Score = 43.2 bits (102), Expect = 5e-06
Identities = 12/75 (16%), Positives = 30/75 (40%), Gaps = 12/75 (16%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGD-----------VVSINLIPPRGCAFVCMNRRQDAAK 209
L++G++ + EE + D F V+++ + + AF+ + +
Sbjct: 9 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 68
Query: 210 ALYKLKNTKLQGKTI 224
A+ QG+++
Sbjct: 69 AM-AFDGIIFQGQSL 82
>2cqd_A RNA-binding region containing protein 1; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 116
Score = 43.8 bits (104), Expect = 5e-06
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 7/78 (8%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDA 207
++ T +++G L + L F +GD+ +I RG FV M R A
Sbjct: 13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAA 72
Query: 208 AKALYKLKNTKLQGKTIT 225
+A K N + G+
Sbjct: 73 ERAC-KDPNPIIDGRKAN 89
>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 99
Score = 43.0 bits (102), Expect = 7e-06
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 7/71 (9%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
+++G + E EL + F ++G V + +I PRG F+ Q +A+ +
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-NM 71
Query: 215 KNTKLQGKTIT 225
+ GK +
Sbjct: 72 HFHDIMGKKVE 82
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 91
Score = 42.7 bits (101), Expect = 7e-06
Identities = 14/83 (16%), Positives = 30/83 (36%), Gaps = 7/83 (8%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNR 203
+G T+ + V E+ + + V+I ++ G FV +
Sbjct: 1 GSSGSSGTTCHTVKLRGAPFNVTEKNVMEFLAPLK-PVAIRIVRNAHGNKTGYIFVDFSN 59
Query: 204 RQDAAKALYKLKNTKLQGKTITL 226
++ +AL K + G+ I +
Sbjct: 60 EEEVKQAL-KCNREYMGGRYIEV 81
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 42.8 bits (101), Expect = 1e-05
Identities = 8/55 (14%), Positives = 18/55 (32%), Gaps = 4/55 (7%)
Query: 172 EEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYKLKNTKLQGK 222
+ + F ++G + + +G F+ A A+ KL +
Sbjct: 35 KNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 89
>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif,
G-tract, G-quadruplex, alternative splicing, RNA binding
protein; NMR {Homo sapiens} PDB: 2kg1_A
Length = 139
Score = 43.3 bits (102), Expect = 1e-05
Identities = 16/109 (14%), Positives = 32/109 (29%), Gaps = 7/109 (6%)
Query: 132 DMADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI 191
MA + V++ + + L E ++ + F V +++
Sbjct: 20 HMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIE 78
Query: 192 P-----PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGKGMK 235
G A V ++A A+ +Q + I L G
Sbjct: 79 IGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTGAS 126
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding,
RNA processing, mRNA processing, nonsense-mediated mRNA
decay, cleavage; NMR {Saccharomyces cerevisiae} PDB:
2km8_C
Length = 167
Score = 43.3 bits (103), Expect = 1e-05
Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 7/73 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKAL 211
+ +++G + V+ +E + F ++G ++ L+ RG FV + DA +
Sbjct: 87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYD-SADAVDRV 145
Query: 212 YKLKNTKLQGKTI 224
+ K + + I
Sbjct: 146 CQNKFIDFKDRKI 158
Score = 39.4 bits (93), Expect = 4e-04
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 8/91 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
S ++IG L+ E+ L + FG+YG V + ++ RG F+ + + +
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 212 YKLKNTKLQGKTITLAWAPGKGMKDKDWKDF 242
L GK I A + +DK K F
Sbjct: 63 KTQH--ILDGKVIDPKRAIPRDEQDKTGKIF 91
>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project
on protein structural and functional analyses; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 112
Score = 42.2 bits (99), Expect = 1e-05
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 3/70 (4%)
Query: 158 STTLWIGHL-SKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKL 214
+ + +L + + YG + + L+ + AF+ M R+DA +
Sbjct: 25 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLK 84
Query: 215 KNTKLQGKTI 224
K QG+ +
Sbjct: 85 KALWFQGRCV 94
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 41.9 bits (99), Expect = 2e-05
Identities = 16/77 (20%), Positives = 32/77 (41%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDTFGE-YGDVVSINLI-----PPRGCAFVCMNRRQDAAKALYK 213
+L++G L+ V + L + F + Y ++ +G FV + +AL +
Sbjct: 11 SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE 70
Query: 214 LKN-TKLQGKTITLAWA 229
+ L K + L+ A
Sbjct: 71 CQGAVGLGSKPVRLSVA 87
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 41.2 bits (97), Expect = 2e-05
Identities = 8/55 (14%), Positives = 18/55 (32%), Gaps = 4/55 (7%)
Query: 172 EEELSDTFGEYGDVVSINLIP----PRGCAFVCMNRRQDAAKALYKLKNTKLQGK 222
+ + F ++G + + +G F+ A A+ KL +
Sbjct: 21 KNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 75
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM
domain, riken structural genomics/proteomics initiative
RSGI, RNA binding protein; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 88
Score = 40.7 bits (96), Expect = 3e-05
Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 163 IGHLSKLVQEEELSDTFGEYGDVVSINLI-PPRGCAFVCMNRRQDAAKALYKLKNTKLQG 221
+G + + E+EL + F +YGDV+ + + P R AFV Q A ++ ++G
Sbjct: 10 VGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLC--GEDLIIKG 67
Query: 222 KTI 224
++
Sbjct: 68 ISV 70
>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA
recognition motif, G-tract, G-quadruplex, alternative
splicing, RNA binding protein; NMR {Homo sapiens} PDB:
2kg0_A
Length = 126
Score = 41.8 bits (98), Expect = 3e-05
Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 7/75 (9%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKAL 211
+ + L +EE+ F V + +P G AFV ++ A KAL
Sbjct: 42 DGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKAL 101
Query: 212 YKLKNTKLQGKTITL 226
++ + I +
Sbjct: 102 -GKHKERIGHRYIEV 115
>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 109
Score = 40.1 bits (94), Expect = 9e-05
Identities = 13/83 (15%), Positives = 29/83 (34%), Gaps = 7/83 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
+ + + E ++ D F V +++L+ G V QD +AL
Sbjct: 16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL- 73
Query: 213 KLKNTKLQGKTITLAWAPGKGMK 235
K + + + ++ A +
Sbjct: 74 KRNRMLMIQRYVEVSPATERQWV 96
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H';
structural genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 102
Score = 39.7 bits (93), Expect = 1e-04
Identities = 12/83 (14%), Positives = 26/83 (31%), Gaps = 7/83 (8%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKALY 212
+ + L E ++ + F + +++ G A V +DA A+
Sbjct: 15 GHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAM- 72
Query: 213 KLKNTKLQGKTITLAWAPGKGMK 235
+Q + + L G
Sbjct: 73 AKDKANMQHRYVELFLNSTAGTS 95
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions,
RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus
musculus}
Length = 89
Score = 39.1 bits (92), Expect = 1e-04
Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-PPRGCAFVCMNRRQDAAKALY 212
+ + +++G ++ + EEL F +YG+VV + + P R AFV + A
Sbjct: 7 HHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSLC- 65
Query: 213 KLKNTKLQGKTI 224
++ ++G ++
Sbjct: 66 -GEDLIIKGISV 76
>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM
domain, riken structural genomics/proteomics initiative,
RSGI; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 39.3 bits (92), Expect = 1e-04
Identities = 17/91 (18%), Positives = 33/91 (36%), Gaps = 7/91 (7%)
Query: 151 NGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRR 204
N + + + L +EE+ F V + +P G AFV +
Sbjct: 8 NSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQ 67
Query: 205 QDAAKALYKLKNTKLQGKTITLAWAPGKGMK 235
+ A KAL K ++ + I + + ++
Sbjct: 68 EIAEKAL-KKHKERIGHRYIEIFKSSRAEVR 97
>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA
complex, RRM, RBD, RNA binding protein- complex; NMR
{Mus musculus}
Length = 109
Score = 39.2 bits (92), Expect = 2e-04
Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 9/97 (9%)
Query: 134 ADPNHPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP- 192
+ +H H + + + ++IG LS +E L + FG++G+V ++
Sbjct: 3 SSHHHHHHSSGLVPRGSHMGSS--GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD 60
Query: 193 -----PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTI 224
RG FV + K L +L KTI
Sbjct: 61 PLTKRSRGFGFVTFMDQAGVDKVL-AQSRHELDSKTI 96
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 38.2 bits (90), Expect = 2e-04
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 7/68 (10%)
Query: 163 IGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKLKN 216
+G LS E++ F ++G V L+ RG FV K ++
Sbjct: 4 VGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-EIHF 62
Query: 217 TKLQGKTI 224
++ K +
Sbjct: 63 HEINNKMV 70
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project
on protein structural and functional analyses; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 102
Score = 38.7 bits (90), Expect = 2e-04
Identities = 12/66 (18%), Positives = 24/66 (36%), Gaps = 6/66 (9%)
Query: 165 HLSKL----VQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKAL--YKLKNTK 218
H+ +L +G + + ++ AF+ M +DA A+ Y
Sbjct: 19 HIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPAL 78
Query: 219 LQGKTI 224
+ GK +
Sbjct: 79 VFGKPV 84
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A
Length = 87
Score = 37.9 bits (89), Expect = 3e-04
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
+++G LS +++L D F ++G+VV + RG F+ K L
Sbjct: 14 MFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVL-DQ 72
Query: 215 KNTKLQGKTI 224
K +L G+ I
Sbjct: 73 KEHRLDGRVI 82
>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 105
Score = 38.4 bits (90), Expect = 3e-04
Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 7/70 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
L++G L +E L F +YG+VV ++ RG FV L
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVL-AS 77
Query: 215 KNTKLQGKTI 224
+ L G+ I
Sbjct: 78 RPHTLDGRNI 87
>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding
protein, hnRNP, telomere, DNA-binding protein, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wtb_A 1x0f_A
Length = 75
Score = 37.5 bits (88), Expect = 4e-04
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 7/68 (10%)
Query: 163 IGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKLKN 216
+G LS EE++ + FG +G+V SI L RG F+ + K + + K
Sbjct: 4 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM-EKKY 62
Query: 217 TKLQGKTI 224
+
Sbjct: 63 HNVGLSKC 70
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 38.0 bits (89), Expect = 5e-04
Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
L + L E++L + F +G+V+ + + +G FV + K +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM-SQ 76
Query: 215 KNTKLQGKTI 224
++ + G+
Sbjct: 77 RHM-IDGRWC 85
>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics,
RRM domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 116
Score = 38.0 bits (89), Expect = 5e-04
Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 7/70 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
L+IG LS EE L + + ++G + ++ RG FV + + A+
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM-AA 88
Query: 215 KNTKLQGKTI 224
+ + G+ +
Sbjct: 89 RPHSIDGRVV 98
>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif,
systemic lupus erythematosus, phosphoprotein, RNA
maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1
PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A
Length = 193
Score = 39.4 bits (91), Expect = 5e-04
Identities = 10/97 (10%), Positives = 34/97 (35%), Gaps = 6/97 (6%)
Query: 138 HPIHRELAEIQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP---- 193
+ ++ + +++I +++ + + G V++I +
Sbjct: 89 RRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKA 148
Query: 194 -RGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
+G FV + + A K + + K + + + +
Sbjct: 149 FKGSIFVVFDSIESAKKFV-ETPGQKYKETDLLILFK 184
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 77
Score = 36.7 bits (86), Expect = 6e-04
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
++IG LS +E L + FG++G+V ++ RG FV + K L
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-AQ 61
Query: 215 KNTKLQGKTI 224
+L KTI
Sbjct: 62 SRHELDSKTI 71
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 37.0 bits (85), Expect = 0.001
Identities = 14/79 (17%), Positives = 22/79 (27%), Gaps = 3/79 (3%)
Query: 151 NGVENMCSTTLWIG--HLSKLVQEEELSDTFGEYGDVVSINLIPPRG-CAFVCMNRRQDA 207
+ + L + + + + L G V I + G A V A
Sbjct: 16 TDDPSGGNKVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCA 75
Query: 208 AKALYKLKNTKLQGKTITL 226
KA L + TL
Sbjct: 76 QKAKAALNGADIYAGCCTL 94
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 37.3 bits (86), Expect = 0.001
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 4/73 (5%)
Query: 158 STTLW--IGHLSKLVQEEELSDTFGEYGDVVSINLIP--PRGCAFVCMNRRQDAAKALYK 213
S L + +L V + L F ++G V+ I + A + A A
Sbjct: 26 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLS 85
Query: 214 LKNTKLQGKTITL 226
L + TL
Sbjct: 86 LDGQNIYNACCTL 98
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 38.5 bits (89), Expect = 0.002
Identities = 47/248 (18%), Positives = 82/248 (33%), Gaps = 60/248 (24%)
Query: 9 QELSSLYDTKPPISKAKITAIT-------RSAIRAIKFYKHVVQSVEKFIIKCKPEYKVP 61
+EL LY T + I R+ + A K + + + +++ P P
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN-ILEWLE--NPS-NTP 226
Query: 62 ALYVIDS---------LVRQSRHQFQDKDVFG--P-RFARNLKATFQHLYQCPPED--KS 107
+ S ++ Q H + G P LK H + +
Sbjct: 227 DKDYLLSIPISCPLIGVI-QLAHYVVTAKLLGFTPGELRSYLKGATGHS-----QGLVTA 280
Query: 108 KIIRVLNLWQKNEVF---TPDIIHPLFDM------ADPNHPIHRELAEIQARNGVENMCS 158
I + W E F I LF + A PN + + E N E + S
Sbjct: 281 VAIAETDSW---ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN-EGVPS 336
Query: 159 TTLWIGHLSKLVQEEELSDTFGEY---GDVVSINLI-PPRGCAFVCMNRRQDA--AKALY 212
L I +L++ Q ++ + + G V I+L+ + V + ++LY
Sbjct: 337 PMLSISNLTQ-EQVQDYVNKTNSHLPAGKQVEISLVNGAK--NLVV------SGPPQSLY 387
Query: 213 KLKNTKLQ 220
L N L+
Sbjct: 388 GL-NLTLR 394
Score = 34.6 bits (79), Expect = 0.033
Identities = 44/275 (16%), Positives = 81/275 (29%), Gaps = 91/275 (33%)
Query: 5 KTFNQELSSLYDT----KPPISKAKITAITRSAIRAIKFYKHVVQSVEKFIIKCKPEYKV 60
+ FN+ L + P + A++ KF +V VE P
Sbjct: 35 EQFNKILPEPTEGFAADDEPTTPAELVG---------KFLGYVSSLVE-------PSKVG 78
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIR--VLNLWQ 117
V++ + + + + + D+ L A ++I+ +
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDI------HALAAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 118 KNEVFTPDIIHPLFDMADPNHPIHRELAEI------QARNGVENMCSTTLWIGHLSKLVQ 171
F LF + A++ Q G +T +
Sbjct: 133 AKRPFDKKSNSALFRAVGEGN------AQLVAIFGGQ---G-----NTDDYF-------- 170
Query: 172 EEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWAPG 231
EEL D + Y +V +LI + +A+ L +L T L + +
Sbjct: 171 -EELRDLYQTYHVLVG-DLI-------------KFSAETLSELIRTTLDAEKVF-----T 210
Query: 232 KGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYL 266
+G+ +W + S P D DYL
Sbjct: 211 QGLNILEW------LENPSNTP--------DKDYL 231
Score = 32.7 bits (74), Expect = 0.16
Identities = 17/104 (16%), Positives = 33/104 (31%), Gaps = 44/104 (42%)
Query: 87 FARNLKATFQHLYQCPPEDKSKIIRVLNLWQKNEVFTPDIIHPLFDMADPNHPIHRELAE 146
A L+ F + P E +E P P EL
Sbjct: 29 IASQLQEQFNKILPEPTE---------GFAADDE---------------PTTPA--ELV- 61
Query: 147 IQARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINL 190
+ ++G++S LV+ ++ G++ V+++ L
Sbjct: 62 --GK-----------FLGYVSSLVEPSKV----GQFDQVLNLCL 88
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
2adb_A
Length = 164
Score = 37.0 bits (85), Expect = 0.002
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 4/73 (5%)
Query: 158 STTLW--IGHLSKLVQEEELSDTFGEYGDVVSINLIP--PRGCAFVCMNRRQDAAKALYK 213
S L + +L V + L F ++G V+ I + A + A A
Sbjct: 44 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLS 103
Query: 214 LKNTKLQGKTITL 226
L + TL
Sbjct: 104 LDGQNIYNACCTL 116
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 36.0 bits (83), Expect = 0.003
Identities = 17/97 (17%), Positives = 32/97 (32%), Gaps = 10/97 (10%)
Query: 148 QARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVV----SINLIP-----PRGCAF 198
+ + + + L EE+ FG++ + I + P G AF
Sbjct: 13 EVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAF 72
Query: 199 VCMNRRQDAAKALYKLKNTKLQGKTITLAWAPGKGMK 235
V + A AL + L + I L + ++
Sbjct: 73 VLFACEEYAQNAL-RKHKDLLGKRYIELFRSTAAEVQ 108
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus
musculus} PDB: 2lq5_A
Length = 114
Score = 35.8 bits (83), Expect = 0.003
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 172 EEELSDTFGEYGDVVSINL--IPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTIT 225
++++ + ++G V+ I + +G +V A A+ L GK IT
Sbjct: 31 KDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFAGKMIT 86
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 35.2 bits (81), Expect = 0.004
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
Query: 172 EEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITL 226
EE ++ +YG+V +N+ G +V R +DA KA+ L N G+ I
Sbjct: 41 EEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHA 100
Query: 227 AWAP 230
+P
Sbjct: 101 ELSP 104
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
PSI-biology, northeast structural genom consortium,
NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
Length = 345
Score = 37.1 bits (85), Expect = 0.005
Identities = 16/103 (15%), Positives = 39/103 (37%), Gaps = 11/103 (10%)
Query: 170 VQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKL---KNTKLQGKTITL 226
V +L + G V ++ + P + +F +++ +A L + G+ ITL
Sbjct: 32 VSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL 91
Query: 227 AWAPGKGMKDKDWKDFWEVQDGVSYIPY-------DRLSKEID 262
+ ++ K+ + + G+ + L + +D
Sbjct: 92 YLNFVEKVQWKELRP-QALPPGLMVVEEIISSEEEKMLLESVD 133
>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA
recognition motif, G-tract, G-quadruplex, alternative,
splicing, RNA binding protein; NMR {Homo sapiens} PDB:
2kfy_A
Length = 136
Score = 35.7 bits (82), Expect = 0.005
Identities = 12/77 (15%), Positives = 24/77 (31%), Gaps = 9/77 (11%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEY---GDVVSINLIP-----PRGCAFVCMNRRQDAAK 209
+ + L E++ + + ++ I G AFV + D
Sbjct: 44 GFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKM 103
Query: 210 ALYKLKNTKLQGKTITL 226
AL K + + I +
Sbjct: 104 ALKK-DRESMGHRYIEV 119
>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus}
Length = 118
Score = 34.9 bits (80), Expect = 0.006
Identities = 13/75 (17%), Positives = 25/75 (33%), Gaps = 9/75 (12%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEY---GDVVSINLIP-----PRGCAFVCMNRRQDAAKAL 211
+ + L E++ + + V ++ I G AFV + D AL
Sbjct: 19 VVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLAL 78
Query: 212 YKLKNTKLQGKTITL 226
K + + I +
Sbjct: 79 -KKDRESMGHRYIEV 92
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 34.7 bits (80), Expect = 0.006
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 172 EEELSDTFGEYGDVVSINLIP--PRGCAFVCMNRRQDAAKALYKLKNTKLQGKTIT 225
E+L ++G + + L P G A V ++A + L G+ IT
Sbjct: 40 REDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQIT 95
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 35.0 bits (80), Expect = 0.007
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 8/59 (13%)
Query: 163 IGHLSKLVQEEELSDTFGEYGDVVSINLI--------PPRGCAFVCMNRRQDAAKALYK 213
+G L + E+E++ +F +G +V PP+G AF+ +
Sbjct: 13 VGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDA 71
>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA
binding protein; NMR {Saccharomyces cerevisiae}
Length = 117
Score = 32.4 bits (73), Expect = 0.049
Identities = 13/44 (29%), Positives = 19/44 (43%)
Query: 181 EYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTI 224
D+ I L+ A + + AAK L L ++ QGK I
Sbjct: 49 NEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVI 92
>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM,
RNA binding domain, ST genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.23A {Homo
sapiens} PDB: 3us5_A 2dny_A
Length = 118
Score = 31.6 bits (72), Expect = 0.087
Identities = 11/78 (14%), Positives = 24/78 (30%), Gaps = 18/78 (23%)
Query: 166 LSKLVQEEELSDTFGE--------YGDVVSINLIPPR----------GCAFVCMNRRQDA 207
L +V +++ D +G V + + + FV + +
Sbjct: 25 LRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASET 84
Query: 208 AKALYKLKNTKLQGKTIT 225
KA+ L G+ +
Sbjct: 85 HKAIQALNGRWFAGRKVV 102
>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding
factor, RNA binding domain, STRU genomics, joint center
for structural genomics, JCSG; NMR {Homo sapiens}
Length = 107
Score = 31.4 bits (71), Expect = 0.095
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 9/65 (13%)
Query: 170 VQEEELSDTFGEY---GDVVSINLIP-----PRGCAFVCMNRRQDAAKALYKLKNTKLQG 221
E++ + F + I+ + RG A + M QD KAL K +
Sbjct: 23 CTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEK-HRMYMGQ 81
Query: 222 KTITL 226
+ + +
Sbjct: 82 RYVEV 86
>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein,
RNA splicing, structural GENO joint center for
structural genomics, JCSG; HET: MSE; 1.80A {Mus
musculus} PDB: 1o0p_A 1opi_A
Length = 105
Score = 31.3 bits (71), Expect = 0.098
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 172 EEELSDTFGEYGDVVSINL--------IPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKT 223
E++ D +YG V SI + +P G FV D KA+ L K +
Sbjct: 29 VEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRV 88
Query: 224 IT 225
+
Sbjct: 89 VV 90
>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 121
Score = 29.6 bits (66), Expect = 0.55
Identities = 13/81 (16%), Positives = 30/81 (37%), Gaps = 2/81 (2%)
Query: 164 GHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKT 223
G L E+L F +G++ I+ + + + A +AL K K+
Sbjct: 25 GDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFK--EKAKEALGKAKDANNGNLQ 82
Query: 224 ITLAWAPGKGMKDKDWKDFWE 244
+ + ++ + K+ +
Sbjct: 83 LRNKEVTWEVLEGEVEKEALK 103
>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB:
2peh_A
Length = 105
Score = 25.9 bits (57), Expect = 6.9
Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 7/61 (11%)
Query: 172 EEELSDTFGEYGDVVSINLIPPR-------GCAFVCMNRRQDAAKALYKLKNTKLQGKTI 224
E E + +YG V + F+ R + A KA+ L G+ +
Sbjct: 27 EVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVV 86
Query: 225 T 225
Sbjct: 87 K 87
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.137 0.424
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,529,340
Number of extensions: 268618
Number of successful extensions: 953
Number of sequences better than 10.0: 1
Number of HSP's gapped: 790
Number of HSP's successfully gapped: 221
Length of query: 282
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 190
Effective length of database: 4,133,061
Effective search space: 785281590
Effective search space used: 785281590
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.1 bits)