RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14559
(405 letters)
>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 = 58.8 bits (143), Expect = 1e-10
Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLK 231
N+ + S EL ++ N + TN+ + V+F + AL+L G +
Sbjct: 20 NLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVF 79
Query: 232 GKTLQMFHSTQSIQKPEAKSNEAAQ 256
G ++ ++KP+ + ++ +
Sbjct: 80 GNEIK-------LEKPKGRDSKKVR 97
Score = 41.4 bits (98), Expect = 1e-04
Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 10/67 (14%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
N+ +++ EL + F+ + + K A +EF +A L + G
Sbjct: 106 NLSFNITEDELKEVFEDALEIRLVS------QDGKSKGIAYIEFKSEADAEKNLEEKQGA 159
Query: 229 NLKGKTL 235
+ G+++
Sbjct: 160 EIDGRSV 166
Score = 28.3 bits (64), Expect = 3.3
Identities = 11/73 (15%), Positives = 25/73 (34%), Gaps = 6/73 (8%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEKCVGISQH 74
+ N+ P + +++ L DL + + +R YV F + + +
Sbjct: 18 IGNLNPNKSVAELKVAISELFAKNDLA---VVDVRT--GTNRKFGYVDFESAEDLEKALE 72
Query: 75 LTNTVFIDRALVV 87
LT + +
Sbjct: 73 LTGLKVFGNEIKL 85
>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 = 56.6 bits (137), Expect = 3e-10
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 158 DTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFS 214
+ E RT+ + + + P++L DFF VG V +R + + ++ + A VEF
Sbjct: 17 NLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIIS-DRNSRRSKGIAYVEFC 75
Query: 215 DQACVIPALKLNGTNLKGKTL 235
+ V A+ L G L G +
Sbjct: 76 EIQSVPLAIGLTGQRLLGVPI 96
Score = 33.1 bits (76), Expect = 0.038
Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 5/75 (6%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEKCVGISQH 74
+A + ++ F +GKV D+R I D +S+ I YV+F + + V ++
Sbjct: 30 CMQLAARIRPRDLEDFFSAVGKVRDVR---IISD-RNSRRSKGIAYVEFCEIQSVPLAIG 85
Query: 75 LTNTVFIDRALVVTP 89
LT + ++V
Sbjct: 86 LTGQRLLGVPIIVQA 100
>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 = 60.4 bits (146), Expect = 5e-10
Identities = 66/421 (15%), Positives = 116/421 (27%), Gaps = 168/421 (39%)
Query: 26 DQMQTLFG-YLGKVEDL------RLYPIARD----------------------------- 49
++++ L+ Y V DL L + R
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 50 -----VSIP----VQ----SRICYV------KFFDEKCVGISQHLTNTVFIDRALVVTPY 90
+S P +Q + + G + H V A+ +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-GATGHSQGLV---TAVAIAET 286
Query: 91 NSGE--IPDEQRALEI------AAQQQGPNSG-EPKLPAHVTNQIEGVPPNQVISTHDPV 141
+S E ++A+ + + PN+ P + EGVP P+
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP--------SPM 338
Query: 142 LVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTR 201
L L Q + + + L P ++V I
Sbjct: 339 LSISNLTQ-EQV-----QDYVNKTNSHL----------PAG-----KQV----EI----- 368
Query: 202 ENDTNKYALVEFSDQACVI--PALKLNGTNLKGKTLQMFHSTQSIQKPEAKSNEAAQREI 259
+LV + V+ P L G NL +++K +A S Q I
Sbjct: 369 -------SLVN-GAKNLVVSGPPQSLYGLNL------------TLRKAKAPSG-LDQSRI 407
Query: 260 EEAMSRVKEAQNM----ISAAIDPVIGILSKDKKKSHSPVRHL--VIVLIVVDVALDLAL 313
S K + +++ P HS L LI D+ + +
Sbjct: 408 P--FSERKLKFSNRFLPVAS---PF-----------HSH--LLVPASDLINKDLVKN-NV 448
Query: 314 EI-GDDLEVVVRDV--GH-VREEDQDHVVDVLCLVIVRDPHVARDVH---APDHASVH-L 365
D+++ V D G +R + + + I+R P V + H L
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGS-ISERIVDCIIRLP-----VKWETTTQFKATHIL 502
Query: 366 D 366
D
Sbjct: 503 D 503
Score = 37.0 bits (85), Expect = 0.013
Identities = 23/135 (17%), Positives = 48/135 (35%), Gaps = 44/135 (32%)
Query: 208 Y-ALVEFSDQACVIP---ALKLNGTNLKGKTLQMF-------HSTQSI-----QKPEAKS 251
Y AL +D V+ +++ +G T+Q+ S + + A
Sbjct: 1767 YAALASLAD---VMSIESLVEV--VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF 1821
Query: 252 NEAAQREIEEAMSR----VKEAQNM--------IS---AAIDPVIGILSKDKKKSHSPVR 296
++ A + + E + + + E N + A+D V +L+ K +
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK----- 1876
Query: 297 HLVIVLIVVDVALDL 311
I +I + +L L
Sbjct: 1877 ---IDIIELQKSLSL 1888
Score = 36.6 bits (84), Expect = 0.019
Identities = 47/313 (15%), Positives = 93/313 (29%), Gaps = 111/313 (35%)
Query: 133 QVISTHDPVLVQHGLPQYP-PLP----ITYDTKKIEEIRRTLVA-----INIEESVSPQE 182
ST P+ + HG ++ +P + E+ + L +E +P E
Sbjct: 2 DAYSTR-PLTLSHGSLEHVLLVPTASFFIASQLQ-EQFNKILPEPTEGFAADDEPTTPAE 59
Query: 183 LVDFFQKVGTVNYIRFCTRENDTN---------KYALVEFSDQACVIPALKLNGTNLKGK 233
LV ++ + + + + L EF + L G ++
Sbjct: 60 LV--------GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY-------LEGNDI--- 101
Query: 234 TLQMFHSTQSIQKPEAKSNEAAQREIEEAMSRVKEAQNMISAAIDPVIGILSKDKKKSHS 293
H+ A + ++E + + + + +I I I KKS+S
Sbjct: 102 -----HA-------------LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS 143
Query: 294 PVRHLVIVLIVVDVALDLALEIG------------------DDLEVVVRDVGHVREEDQD 335
AL A+ G ++L RD+ +
Sbjct: 144 --------------ALFRAVGEGNAQLVAIFGGQGNTDDYFEEL----RDLY---QTYHV 182
Query: 336 HVVDVLCLVIVRDPHVARDVHAPDHASVH----LDVMM-IRNVIVRREVYENVPEVKTRA 390
V D L+ ++ + A L+++ + N N P+
Sbjct: 183 LVGD---LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP-------SNTPDKDYLL 232
Query: 391 SPPLALPRPSLNQ 403
S P++ P + Q
Sbjct: 233 SIPISCPLIGVIQ 245
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 54.7 bits (132), Expect = 8e-10
Identities = 15/101 (14%), Positives = 32/101 (31%), Gaps = 4/101 (3%)
Query: 161 KIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACV 219
K + R++ + ++ ++ + G V I+ + K V F
Sbjct: 6 KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESA 65
Query: 220 IPALKLNGTNLKGKTLQMFHSTQSIQKPEAKSNEAAQREIE 260
++ G K L + K+ E Q ++E
Sbjct: 66 KKFVETPGQKYKETDLLI---LFKDDYFAKKNEERKQNKVE 103
Score = 27.8 bits (62), Expect = 2.3
Identities = 12/82 (14%), Positives = 29/82 (35%), Gaps = 6/82 (7%)
Query: 9 VKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEK 67
VK + V + AT D ++ G+V ++++ R + + +V F +
Sbjct: 9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQM---RRTLH--KAFKGSIFVVFDSIE 63
Query: 68 CVGISQHLTNTVFIDRALVVTP 89
+ + L++
Sbjct: 64 SAKKFVETPGQKYKETDLLILF 85
>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 = 53.0 bits (128), Expect = 3e-09
Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
N+ V+ ++ F ++G + E+ +N Y VEF + AL +NG +
Sbjct: 22 NLSRDVTEVLILQLFSQIGPCKSCKMI-TEHTSNDPYCFVEFYEHRDAAAALAAMNGRKI 80
Query: 231 KGKTLQMFHSTQSIQKPEAKSN 252
GK +++ +T + S+
Sbjct: 81 LGKEVKVNWATTPSSQKSGPSS 102
>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 = 53.6 bits (129), Expect = 3e-09
Identities = 23/92 (25%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 148 PQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTN 206
+ PP P++ + KK + R V N++ + Q+L F G++N I + +
Sbjct: 19 TEGPPQPLSAEEKKEIDKRSVYVG-NVDYGSTAQDLEAHFSSCGSINRITILCDKF--SG 75
Query: 207 K---YALVEFSDQACVIPALKLNGTNLKGKTL 235
YA +EF+++ V A+ ++ T +G+T+
Sbjct: 76 HPKGYAYIEFAERNSVDAAVAMDETVFRGRTI 107
Score = 30.5 bits (69), Expect = 0.36
Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 15/80 (18%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPV-----QSR-ICYVKFFDEKCV 69
V N+ +T ++ F G + ++I + Y++F + V
Sbjct: 41 VGNVDYGSTAQDLEAHFSSCGSIN---------RITILCDKFSGHPKGYAYIEFAERNSV 91
Query: 70 GISQHLTNTVFIDRALVVTP 89
+ + TVF R + V P
Sbjct: 92 DAAVAMDETVFRGRTIKVLP 111
>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 = 52.0 bits (125), Expect = 1e-08
Identities = 16/87 (18%), Positives = 35/87 (40%), Gaps = 2/87 (2%)
Query: 173 NIEESVSPQELVDFFQKVGTV-NYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNL 230
NI S++ +++ F + + N + N ALV+F ++ + +L+ L
Sbjct: 22 NIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKL 81
Query: 231 KGKTLQMFHSTQSIQKPEAKSNEAAQR 257
G+ + T + K+ A +
Sbjct: 82 NGREAFVHVVTLEDMREIEKNPPAQGK 108
>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 = 51.0 bits (123), Expect = 1e-08
Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPALKLNGT 228
N++ + +EL F G+VN + + + +A +EFSD+ V +L L+ +
Sbjct: 13 NVDYGATAEELEAHFHGCGSVNRVTILCDKF--SGHPKGFAYIEFSDKESVRTSLALDES 70
Query: 229 NLKGKTL 235
+G+ +
Sbjct: 71 LFRGRQI 77
Score = 28.6 bits (65), Expect = 0.93
Identities = 19/80 (23%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPV-----QSR-ICYVKFFDEKCV 69
V N+ AT ++++ F G V V+I + Y++F D++ V
Sbjct: 11 VGNVDYGATAEELEAHFHGCGSVN---------RVTILCDKFSGHPKGFAYIEFSDKESV 61
Query: 70 GISQHLTNTVFIDRALVVTP 89
S L ++F R + V P
Sbjct: 62 RTSLALDESLFRGRQIKVIP 81
>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 = 53.4 bits (128), Expect = 2e-08
Identities = 41/243 (16%), Positives = 78/243 (32%), Gaps = 52/243 (21%)
Query: 9 VKTKVVQVANIAPQA-TRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFD-- 65
+ V+ V+N+ P+ T + LFG G V+ +++ ++ V+ D
Sbjct: 1 MGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE--------NALVQMADGN 52
Query: 66 --EKCVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSGEPKLPAHVT 123
+ + HL + + +T + + E + + P H
Sbjct: 53 QAQLAM---SHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNS----PLHRF 105
Query: 124 NQIEGVPPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQEL 183
+ + +PP TL NI SVS ++L
Sbjct: 106 KKPGSKNFQNI---------------FPP-------------SATLHLSNIPPSVSEEDL 137
Query: 184 VDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK-GKTLQMFHST 241
F G V ++ K AL++ + AL L+ +L L++ S
Sbjct: 138 KVLFSSNGGV--VKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK 195
Query: 242 QSI 244
+I
Sbjct: 196 STI 198
Score = 46.8 bits (111), Expect = 2e-06
Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 4/92 (4%)
Query: 175 EESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGK 233
E V+PQ L F G V ++ + + ALV+ +D A+ LNG L GK
Sbjct: 13 PERVTPQSLFILFGVYGDVQRVKILF---NKKENALVQMADGNQAQLAMSHLNGHKLHGK 69
Query: 234 TLQMFHSTQSIQKPEAKSNEAAQREIEEAMSR 265
+++ S + + E + S
Sbjct: 70 PIRITLSKHQNVQLPREGQEDQGLTKDYGNSP 101
>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 = 53.5 bits (128), Expect = 2e-08
Identities = 43/248 (17%), Positives = 79/248 (31%), Gaps = 46/248 (18%)
Query: 1 MAVDTVAPVKTKVVQVANIAPQA-TRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRIC 59
+A+ +A V+ V+N+ P+ T + LFG G V+ +++ ++
Sbjct: 24 IAIPGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN--------A 75
Query: 60 YVKFFDEKCVGIS-QHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSGEPKL 118
V+ D ++ HL + + +T ++ Q
Sbjct: 76 LVQMADGNQAQLAMSHLNGHKLHGKPIRITL----------------SKHQNVQLPREGQ 119
Query: 119 PAHVTNQIEGVPPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESV 178
+ G P Q+ P TL NI SV
Sbjct: 120 EDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSA----------------TLHLSNIPPSV 163
Query: 179 SPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK-GKTLQ 236
S ++L F G V ++ K AL++ + AL L+ +L L+
Sbjct: 164 SEEDLKVLFSSNGGV--VKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLR 221
Query: 237 MFHSTQSI 244
+ S +I
Sbjct: 222 VSFSKSTI 229
Score = 46.5 bits (110), Expect = 4e-06
Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 4/92 (4%)
Query: 175 EESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGK 233
E V+PQ L F G V ++ + + ALV+ +D A+ LNG L GK
Sbjct: 44 PERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSHLNGHKLHGK 100
Query: 234 TLQMFHSTQSIQKPEAKSNEAAQREIEEAMSR 265
+++ S + + E + S
Sbjct: 101 PIRITLSKHQNVQLPREGQEDQGLTKDYGNSP 132
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 50.4 bits (121), Expect = 3e-08
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALKLNGTNLKG 232
V +L ++F G V + D +A+VE D L + +L G
Sbjct: 15 GFPRGVDSAQLSEYFLAFGPVASVVMDK---DKGVFAIVEMGDVGAREAVLSQSQHSLGG 71
Query: 233 KTL 235
L
Sbjct: 72 HRL 74
>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 = 50.3 bits (121), Expect = 3e-08
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLK 231
N+ + S EL ++ N + TN+ + V+F + AL+L G +
Sbjct: 24 NLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVF 83
Query: 232 GKTL 235
G +
Sbjct: 84 GNEI 87
>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 = 51.6 bits (123), Expect = 6e-08
Identities = 26/235 (11%), Positives = 67/235 (28%), Gaps = 49/235 (20%)
Query: 10 KTKVVQVANIAPQA-TRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFD--- 65
+ V+ V + D++ +F G VE ++ V+ D
Sbjct: 3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPG--------AAMVEMADGYA 54
Query: 66 -EKCVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSGEPKLPAHVTN 124
++ + HL N + + V ++Q G+ +
Sbjct: 55 VDRAI---THLNNNFMFGQKMNVCV----------------SKQPAIMPGQSYGLEDGSC 95
Query: 125 QIEGVPPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELV 184
+ ++ P P + + N V+ +
Sbjct: 96 SYKDFSESRNNRFSTPEQ-AAKNRIQHPSNVLH-------------FFNAPLEVTEENFF 141
Query: 185 DFFQKVGTVNY--IRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLKGKTLQ 236
+ ++G ++ + +++ + L+E+ ++ + L LN +K
Sbjct: 142 EICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGP 196
>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 = 49.8 bits (119), Expect = 9e-08
Identities = 15/129 (11%), Positives = 44/129 (34%), Gaps = 2/129 (1%)
Query: 130 PPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQK 189
+ ++ + G Q + + + + ++ +FF
Sbjct: 10 HSSGLVPRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSP 69
Query: 190 VGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKTLQMFHSTQSIQKPE 248
+ V + + A VEF+ + A+ + N++ + +++F ++ +
Sbjct: 70 LNPVR-VHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTTGASNG 128
Query: 249 AKSNEAAQR 257
A S++ Q
Sbjct: 129 AYSSQVMQG 137
>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 = 50.8 bits (122), Expect = 1e-07
Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 14/99 (14%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRE----NDTNK---YALVEFSDQACV 219
R L NI ++ + ++DFF + + N+ +A +EF
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64
Query: 220 IPALKLNGTNLKGKTLQMFHSTQSIQKPEAKSNEAAQRE 258
A+ +G +G++L+ I++P E
Sbjct: 65 TQAMAFDGIIFQGQSLK-------IRRPHDYQPLPGMSE 96
Score = 43.5 bits (103), Expect = 3e-05
Identities = 33/226 (14%), Positives = 63/226 (27%), Gaps = 54/226 (23%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYP--IARDVSIPVQSRICYVKFFDEKCVGISQ 73
V NI T + M F ++ L P V I +++F +
Sbjct: 9 VGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM 68
Query: 74 HLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSGEPKLPAHVTNQIEGVPPNQ 133
+F ++L + +R P G + P+ + GV
Sbjct: 69 AFDGIIFQGQSLKI-----------RR-----PHDYQPLPGMSENPS---VYVPGVVSTV 109
Query: 134 VISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTV 193
V + + + + ++ ++ + G +
Sbjct: 110 VPDSAHKLFIG----------------------------GLPNYLNDDQVKELLTSFGPL 141
Query: 194 NYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGTNLKGKTL 235
+++ T YA E+ D A+ LNG L K L
Sbjct: 142 KAFNL-VKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL 186
>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 = 48.5 bits (116), Expect = 1e-07
Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 3/68 (4%)
Query: 177 SVSPQELVDFFQKVGTV-NYIRFCTRENDTNK-YALVEFSDQACVIPAL-KLNGTNLKGK 233
+VS E++DFF + + E A+V F + A+ LN + +
Sbjct: 26 TVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR 85
Query: 234 TLQMFHST 241
+++ +
Sbjct: 86 KVKLSGPS 93
>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 = 48.3 bits (115), Expect = 2e-07
Identities = 15/79 (18%), Positives = 30/79 (37%), Gaps = 2/79 (2%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNY-IRFCTRENDTNK-YALVEFSDQACVIPALK 224
+ + + +E+V FF + V I A V+F+ Q AL
Sbjct: 43 GFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG 102
Query: 225 LNGTNLKGKTLQMFHSTQS 243
+ + + +++F S+Q
Sbjct: 103 KHKERIGHRYIEVFKSSQE 121
>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 = 47.8 bits (114), Expect = 2e-07
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 177 SVSPQELVDFFQKVGTV-NYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKT 234
S +E+V FF + V N + + A V+F+ Q ALK + + +
Sbjct: 26 GCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRY 85
Query: 235 LQMFHSTQSIQKPEAKSN 252
+++F S+++ + S+
Sbjct: 86 IEIFKSSRAEVRTSGPSS 103
>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 = 48.1 bits (115), Expect = 2e-07
Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 7/109 (6%)
Query: 164 EIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL 223
E+ R L N+ ++ +E+ D F K G + IR +T A V + D A+
Sbjct: 6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV-GNTPETRGTAYVVYEDIFDAKNAV 64
Query: 224 K-LNGTNLKGKTLQMFHSTQSIQKPEAKSNEAAQREIEEAMSRVKEAQN 271
L+G N+ + L + + + ++ EE + +KE
Sbjct: 65 DHLSGFNVSNRYLVVLYY-----NANRAFQKMDTKKKEEQLKLLKEKYG 108
Score = 40.0 bits (94), Expect = 2e-04
Identities = 27/123 (21%), Positives = 54/123 (43%), Gaps = 21/123 (17%)
Query: 6 VAPVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFF 64
+ P +++ + N+ + T ++M +FG G + +R V ++R YV +
Sbjct: 3 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIR-------VGNTPETRGTAYVVYE 55
Query: 65 D----EKCVGISQHLTNTVFIDRALVVTPYNSG------EIPDEQRALEIAAQQQGPNSG 114
D + V HL+ +R LVV YN+ + ++ L++ ++ G N+
Sbjct: 56 DIFDAKNAV---DHLSGFNVSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGINTD 112
Query: 115 EPK 117
PK
Sbjct: 113 PPK 115
>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 = 48.3 bits (116), Expect = 6e-07
Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 5/80 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ ++++ +E F +G + + R+ T + Y V + D A+ LNG
Sbjct: 9 YLPQNMTQEEFRSLFGSIGEIESCKLV-RDKITGQSLGYGFVNYIDPKDAEKAINTLNGL 67
Query: 229 NLKGKTLQMFHSTQSIQKPE 248
L+ KT+++ ++ S
Sbjct: 68 RLQTKTIKVSYARPSSASIR 87
Score = 30.6 bits (70), Expect = 0.58
Identities = 14/69 (20%), Positives = 27/69 (39%), Gaps = 5/69 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ ++++ +EL F + G + R + T + F + A+K LNG
Sbjct: 95 GLPKTMTQKELEQLFSQYGRIITSRIL-VDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQ 153
Query: 229 NLKGKTLQM 237
G T +
Sbjct: 154 KPSGATEPI 162
>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 = 48.0 bits (115), Expect = 7e-07
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 7/76 (9%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRE----NDTNK---YALVEFSDQACV 219
R L NI ++ + ++DFF + + N+ +A +EF
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64
Query: 220 IPALKLNGTNLKGKTL 235
A+ +G +G++L
Sbjct: 65 TQAMAFDGIIFQGQSL 80
Score = 29.9 bits (68), Expect = 1.0
Identities = 13/74 (17%), Positives = 24/74 (32%), Gaps = 2/74 (2%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYP--IARDVSIPVQSRICYVKFFDEKCVGISQ 73
V NI T + M F ++ L P V I +++F +
Sbjct: 9 VGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM 68
Query: 74 HLTNTVFIDRALVV 87
+F ++L +
Sbjct: 69 AFDGIIFQGQSLKI 82
>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 = 46.5 bits (111), Expect = 7e-07
Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
N+ V+ + + +FF+ + +R ++ + + EF D ++ AL LN +
Sbjct: 22 NLPYDVTEESIKEFFRGLNISA-VRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEES 80
Query: 230 LKGKTL 235
L K +
Sbjct: 81 LGNKRI 86
>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 = 46.1 bits (110), Expect = 8e-07
Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 19/98 (19%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
++E VS L + F + G V ++ T + Y VEF + A+K ++
Sbjct: 22 GLDEKVSEPLLWELFLQAGPVVNTHMP-KDRVTGQHQGYGFVEFLSEEDADYAIKIMDMI 80
Query: 229 NLKGKTLQMFHSTQSIQKPEAKSNEAAQREIEEAMSRV 266
L GK + + N+A+ +
Sbjct: 81 KLYGKPI--------------RVNKASAHNKNLSGPSS 104
>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 = 46.8 bits (111), Expect = 8e-07
Identities = 15/84 (17%), Positives = 31/84 (36%), Gaps = 2/84 (2%)
Query: 177 SVSPQELVDFFQKVGTV-NYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKT 234
+ ++DFF+K+ V + I N VEF ++A AL + + +
Sbjct: 36 EAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRF 95
Query: 235 LQMFHSTQSIQKPEAKSNEAAQRE 258
+Q+ T+ + +
Sbjct: 96 IQVHPITKKGMLEKIDMIRKRLQS 119
Score = 29.8 bits (67), Expect = 0.72
Identities = 18/107 (16%), Positives = 35/107 (32%), Gaps = 4/107 (3%)
Query: 8 PVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEK 67
V + + +A + F L VED + + +V+F +E
Sbjct: 22 HEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGK---ATGEGFVEFRNEA 78
Query: 68 CVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSG 114
+ +R + V P + ++ + Q GP+SG
Sbjct: 79 DYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIR-KRLQSGPSSG 124
>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 = 45.7 bits (109), Expect = 9e-07
Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 7/76 (9%)
Query: 177 SVSPQELVDFFQKVGTV-NYIRFCTRENDTNK-YALVEFSDQACVIPAL-KLNGTNLKGK 233
+VS E++DFF + + E A+V F + A+ LN + +
Sbjct: 26 TVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR 85
Query: 234 TLQMFHSTQSIQKPEA 249
+++ + P +
Sbjct: 86 KVKLVLGS----GPSS 97
>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 = 46.5 bits (110), Expect = 1e-06
Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 4/71 (5%)
Query: 177 SVSPQELVDFF---QKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKG 232
S S +++ +F V + F A VE + V ALK + ++
Sbjct: 28 SCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGH 87
Query: 233 KTLQMFHSTQS 243
+ +++F S ++
Sbjct: 88 RYIEVFKSHRT 98
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 46.4 bits (110), Expect = 1e-06
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 177 SVSPQELVDFFQK----VGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLK 231
+ + +E+V FF + G I F T + A V F+ + AL+ + L
Sbjct: 34 TATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLG 93
Query: 232 GKTLQMFHSTQSIQKPEAKSNEAAQR 257
+ +++F ST + + +A
Sbjct: 94 KRYIELFRSTAAEVQQVLNRFSSASG 119
Score = 39.1 bits (91), Expect = 4e-04
Identities = 16/110 (14%), Positives = 37/110 (33%), Gaps = 13/110 (11%)
Query: 10 KTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-----ICYVKFF 64
+V++ + AT +++ FG + + + +V F
Sbjct: 22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGK-----EGILFVTYPDGRPTGDAFVLFA 76
Query: 65 DEKCVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSG 114
E+ + + R + + + E+ Q+ L + GP+SG
Sbjct: 77 CEEYAQNALRKHKDLLGKRYIELFRSTAAEV---QQVLNRFSSASGPSSG 123
>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 = 45.5 bits (108), Expect = 2e-06
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 2/68 (2%)
Query: 177 SVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKTL 235
S ++ DFF + V+ + N LV+F ALK N + + +
Sbjct: 27 SAMENDVRDFFHGLR-VDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYV 85
Query: 236 QMFHSTQS 243
++ +T+
Sbjct: 86 EVSPATER 93
>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 = 45.6 bits (108), Expect = 2e-06
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
+ S S Q+L D ++ G V Y + + +VEF + + A+ KL+ T +
Sbjct: 22 GLPPSGSWQDLKDHMREAGDVCYA-----DVYRDGTGVVEFVRKEDMTYAVRKLDNTKFR 76
Query: 232 GKTLQ 236
+
Sbjct: 77 SHEGE 81
>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 = 45.4 bits (108), Expect = 2e-06
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 5/64 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
I ++ Q + F G + IR + Y+ V FS A+ +NGT ++
Sbjct: 32 GIASGLTDQLMRQTFSPFGQIMEIRVFPEKG----YSFVRFSTHESAAHAIVSVNGTTIE 87
Query: 232 GKTL 235
G +
Sbjct: 88 GHVV 91
Score = 28.8 bits (65), Expect = 1.1
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 9/48 (18%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKF 63
IA T M+ F G++ ++R + + +V+F
Sbjct: 30 CGGIASGLTDQLMRQTFSPFGQIMEIR---------VFPEKGYSFVRF 68
>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 = 45.1 bits (107), Expect = 2e-06
Identities = 10/77 (12%), Positives = 32/77 (41%), Gaps = 2/77 (2%)
Query: 177 SVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKTL 235
+ ++ +FF + + + + A VEF+ + A+ + N++ + +
Sbjct: 26 RATENDIYNFFSPLNPMR-VHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV 84
Query: 236 QMFHSTQSIQKPEAKSN 252
++F ++ + S+
Sbjct: 85 ELFLNSTAGTSGSGPSS 101
>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 = 44.9 bits (107), Expect = 2e-06
Identities = 13/66 (19%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
N+ V+ + + +FF+ + +R ++ + + EF D ++ AL LN +
Sbjct: 26 NLPYDVTEESIKEFFRGLNISA-VRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEES 84
Query: 230 LKGKTL 235
L + +
Sbjct: 85 LGNRRI 90
>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 = 44.8 bits (106), Expect = 3e-06
Identities = 14/85 (16%), Positives = 37/85 (43%), Gaps = 9/85 (10%)
Query: 177 SVSPQELVDFF---QKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKG 232
S + +++++FF + N I F + + AL+E + V AL+ + +
Sbjct: 22 SCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQ 81
Query: 233 KTLQMFHSTQS-----IQKPEAKSN 252
+ ++++ ++ + KS+
Sbjct: 82 RYVEVYEINNEDVDALMKSLQVKSS 106
Score = 27.9 bits (62), Expect = 2.4
Identities = 8/104 (7%), Positives = 27/104 (25%), Gaps = 4/104 (3%)
Query: 8 PVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEK 67
+++ + T + + F + + ++ E+
Sbjct: 8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-GKRRGDALIEMESEQ 66
Query: 68 CVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGP 111
V + R + V N+ ++ ++ + P
Sbjct: 67 DVQKALEKHRMYMGQRYVEVYEINNEDV---DALMKSLQVKSSP 107
>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 = 45.4 bits (107), Expect = 3e-06
Identities = 13/71 (18%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 177 SVSPQELVDFF---QKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKG 232
S S +++ +F + F A VE + V ALK + ++
Sbjct: 55 SCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGH 114
Query: 233 KTLQMFHSTQS 243
+ +++F S ++
Sbjct: 115 RYIEVFKSHRT 125
>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 = 43.8 bits (104), Expect = 4e-06
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 177 SVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLKGKTL 235
+V+ + +++F + V IR + Y V+FS++ V ALK N + G+ +
Sbjct: 21 NVTEKNVMEFLAPLKPVA-IRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYI 79
Query: 236 QMFHSTQS 243
++F
Sbjct: 80 EVFREKSG 87
>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 = 43.8 bits (104), Expect = 4e-06
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNKYALVEFSDQACVIPALK-LNGTNL 230
N+E V + L + F + G + + C RE + V F V A+ LNG L
Sbjct: 23 NLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRL 82
Query: 231 KGKTL 235
G+ +
Sbjct: 83 YGRPI 87
>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 = 46.9 bits (112), Expect = 4e-06
Identities = 8/63 (12%), Positives = 26/63 (41%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALKLNGTNLKG 232
N+ +S + ++ +F+ G + ++ ++A +EF+ + A+ +
Sbjct: 48 NLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQ 107
Query: 233 KTL 235
+
Sbjct: 108 NEI 110
Score = 46.1 bits (110), Expect = 8e-06
Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 3/90 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNY-IRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTN 229
N S + + + D Q + V IR + +T++ +A ++ + + ++ LNG
Sbjct: 124 NFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLK 183
Query: 230 LKGKTLQMFHSTQSIQKPEAKSNEAAQREI 259
++G TL S + S REI
Sbjct: 184 IEGYTLVTKVSNPLEKSKRTDSATLEGREI 213
Score = 40.7 bits (96), Expect = 5e-04
Identities = 12/73 (16%), Positives = 31/73 (42%), Gaps = 4/73 (5%)
Query: 167 RTLVAINIEESVSP-QELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPA 222
R ++ N+ + L + F+ G++ I + + + A + F ++ A
Sbjct: 211 REIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERA 270
Query: 223 LKLNGTNLKGKTL 235
L++N + L + +
Sbjct: 271 LQMNRSLLGNREI 283
Score = 28.4 bits (64), Expect = 4.0
Identities = 10/80 (12%), Positives = 29/80 (36%), Gaps = 7/80 (8%)
Query: 14 VQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEKCVGIS 72
V V N+ ++++ F + G + + +A + ++ ++F +
Sbjct: 44 VLVKNLPKSYNQNKVYKYFKHCGPIIHVD---VADSLK---KNFRFARIEFARYDGALAA 97
Query: 73 QHLTNTVFIDRALVVTPYNS 92
T+ V ++V+
Sbjct: 98 ITKTHKVVGQNEIIVSHLTE 117
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 43.9 bits (104), Expect = 6e-06
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 5/73 (6%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL 223
+ + + ++V L D +K G V + T K A V F+ +
Sbjct: 7 KEVTFARLNDNVRETFLKDMCRKYGEVEEVEIL-LHPRTRKHLGLARVLFTSTRGAKETV 65
Query: 224 -KLNGTNLKGKTL 235
L+ T++ G +
Sbjct: 66 KNLHLTSVMGNII 78
Score = 27.7 bits (62), Expect = 2.4
Identities = 13/87 (14%), Positives = 29/87 (33%), Gaps = 16/87 (18%)
Query: 8 PVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPV--QSR-ICYVKFF 64
+ K V A + ++ + G+VE++ I P + + V F
Sbjct: 3 QIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVE---ILLH---PRTRKHLGLARVLFT 56
Query: 65 D----EKCVGISQHLTNTVFIDRALVV 87
++ V ++L T + +
Sbjct: 57 STRGAKETV---KNLHLTSVMGNIIHA 80
>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 = 6e-06
Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 7/70 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIR------FCTRENDTNK-YALVEFSDQACVIPALKL 225
NI ++ + ++DFF + + + + +K +A +EF A+
Sbjct: 13 NIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAF 72
Query: 226 NGTNLKGKTL 235
+G +G++L
Sbjct: 73 DGIIFQGQSL 82
Score = 27.8 bits (62), Expect = 1.7
Identities = 13/74 (17%), Positives = 24/74 (32%), Gaps = 2/74 (2%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYP--IARDVSIPVQSRICYVKFFDEKCVGISQ 73
V NI T + M F ++ L P V I +++F +
Sbjct: 11 VGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM 70
Query: 74 HLTNTVFIDRALVV 87
+F ++L +
Sbjct: 71 AFDGIIFQGQSLKI 84
>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 = 44.9 bits (107), Expect = 8e-06
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 5/80 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ + ++ +EL F+ +G +N R R+ T YA V+F+ + A+K LNG
Sbjct: 10 YLPQDMTDRELYALFRAIGPINTCRIM-RDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGI 68
Query: 229 NLKGKTLQMFHSTQSIQKPE 248
++ K L++ ++ + +
Sbjct: 69 TVRNKRLKVSYARPGGESIK 88
Score = 30.2 bits (69), Expect = 0.67
Identities = 13/69 (18%), Positives = 29/69 (42%), Gaps = 5/69 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
N+ +++ +L F K G++ R+ T + A V ++ + A+ LN
Sbjct: 96 NLPRTITDDQLDTIFGKYGSIVQKNI-LRDKLTGRPRGVAFVRYNKREEAQEAISALNNV 154
Query: 229 NLKGKTLQM 237
+G + +
Sbjct: 155 IPEGGSQPL 163
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 43.1 bits (102), Expect = 9e-06
Identities = 9/64 (14%), Positives = 21/64 (32%), Gaps = 5/64 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
NI + +L+ FQ G + + + +++ + L +
Sbjct: 34 NIPHFATEADLIPLFQNFGFILDFKHYPEKG----CCFIKYDTHEQAAVCIVALANFPFQ 89
Query: 232 GKTL 235
G+ L
Sbjct: 90 GRNL 93
Score = 29.6 bits (67), Expect = 0.54
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYP 45
+ NI AT + LF G + D + YP
Sbjct: 32 IGNIPHFATEADLIPLFQNFGFILDFKHYP 61
>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 = 45.2 bits (106), Expect = 9e-06
Identities = 10/70 (14%), Positives = 22/70 (31%), Gaps = 1/70 (1%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKL 225
R++ + ++ ++ + G V I+ + K V F ++
Sbjct: 110 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVET 169
Query: 226 NGTNLKGKTL 235
G K L
Sbjct: 170 PGQKYKETDL 179
>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 = 44.4 bits (106), Expect = 9e-06
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK- 224
R L N++++++ L +FQ G + I+ +N+ N YA VE+ AL+
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT 60
Query: 225 LNGTNLKGKTL 235
LNG ++ +
Sbjct: 61 LNGKQIENNIV 71
>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 = 46.8 bits (110), Expect = 1e-05
Identities = 35/295 (11%), Positives = 77/295 (26%), Gaps = 85/295 (28%)
Query: 115 EPKLPAHVTNQIEGVPPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEEIRRTLVAINI 174
E + P+ +T I D + + + ++ + ++R+ L
Sbjct: 101 EQRQPSMMTRMY--------IEQRDRL--YNDNQVFAKYNVS-RLQPYLKLRQAL----- 144
Query: 175 EESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALV----EFSDQACVIPA----LKLN 226
+ P + V +G+ K + C + L L
Sbjct: 145 -LELRPAKNVLIDGVLGS-------------GKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 227 GTNLKGKTLQMFHSTQSIQKPEAKSNEAAQREIEEAMSRVKEAQNMISAAIDPVIGILSK 286
N L+M P S I+ + ++ + + SK
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL---------LKSK 241
Query: 287 DKKKSHSPVRHLVIVLIVVDVALDLALEIGDDLEVVVRDVGHVREEDQDHVVDVLC--LV 344
+ L+V+ + V++ ++ C L+
Sbjct: 242 PYENC----------LLVLL-----------N----VQNAKAWN------AFNLSCKILL 270
Query: 345 IVRDPHVARDVHAPDHASVHLDVMMIRNVIVRREVYE---NVPEVKTRASPPLAL 396
R V + A + H+ + + EV + + + P L
Sbjct: 271 TTRFKQVTDFLSAA--TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Score = 39.5 bits (91), Expect = 0.002
Identities = 43/339 (12%), Positives = 98/339 (28%), Gaps = 109/339 (32%)
Query: 3 VDTVAPVKTKVVQVANIAPQATRDQMQTLFG-YLG-KVEDLRLYPIARDVSIP------- 53
D ++ T + + + + T D++++L YL + +DL + P
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP--REVLTTN-PRRLSIIA 334
Query: 54 --VQSRICYVKFFDEKCVGISQHLTNTV--FID-----------RALVVTPYNSGEIP-- 96
++ + + V + LT + ++ L V P ++ IP
Sbjct: 335 ESIRDGLATWDNWKH--VNCDK-LTTIIESSLNVLEPAEYRKMFDRLSVFPPSA-HIPTI 390
Query: 97 ---------DEQRALEIAAQ-------QQGPNSGEPKLPAHVTNQIE-GVPPNQVISTHD 139
+ + + + ++ P +P+ +E V + H
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI---YLELKVKLENEYALHR 447
Query: 140 PVLVQHGLPQY------PPLP--------ITYDTKKIEE--------------------I 165
++ + +P+ P I + K IE I
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 166 RRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPA 222
R A N S+ L Y + + + A+++F +
Sbjct: 508 RHDSTAWNASGSILN-TLQQL------KFYKPYICDNDPKYERLVNAILDFLPKI----- 555
Query: 223 LKLNGTNL-KGKTLQMFHSTQSIQKPEAKSNEAAQREIE 260
NL K + ++ + E A ++++
Sbjct: 556 ----EENLICSKYTDLLR--IALMAEDEAIFEEAHKQVQ 588
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 42.9 bits (101), Expect = 1e-05
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ +L +++G+V +R + A + + D A A+ L G L
Sbjct: 26 NLPRDARVSDLKRALRELGSVP-LRLTWQGPRR--RAFLHYPDSAAAQQAVSCLQGLRLG 82
Query: 232 GKTLQM 237
TL++
Sbjct: 83 TDTLRV 88
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 45.0 bits (107), Expect = 1e-05
Identities = 15/89 (16%), Positives = 30/89 (33%), Gaps = 3/89 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK-YALVEFSDQACVIPALK-LNGTN 229
+I + + F G + I +K +A VE+ AL+ +N
Sbjct: 35 SIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVM 94
Query: 230 LKGKTLQMFHSTQSIQKPEAKSNEAAQRE 258
L G+ +++ + Q A +
Sbjct: 95 LGGRNIKVGRPSNIGQAQPIIDQLAEEAR 123
Score = 38.4 bits (90), Expect = 0.002
Identities = 13/67 (19%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
++ + +S ++ F+ G + R+ T K Y +E+ A+ +N
Sbjct: 132 SVHQDLSDDDIKSVFEAFGKIKSATL-ARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLF 190
Query: 229 NLKGKTL 235
+L G+ L
Sbjct: 191 DLGGQYL 197
>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 = 42.7 bits (101), Expect = 1e-05
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+I E E+ + F G + I + T YALVE+ + A + LNG
Sbjct: 33 SIHEEAQEDEIQEKFCDYGEIKNIHL-NLDRRTGFSKGYALVEYETHKQALAAKEALNGA 91
Query: 229 NLKGKTLQ 236
+ G+T+Q
Sbjct: 92 EIMGQTIQ 99
Score = 27.6 bits (62), Expect = 2.8
Identities = 8/28 (28%), Positives = 17/28 (60%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V +I +A D++Q F G+++++ L
Sbjct: 31 VTSIHEEAQEDEIQEKFCDYGEIKNIHL 58
>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 = 42.2 bits (100), Expect = 2e-05
Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 12/85 (14%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNG- 227
N+ +V+ +L F YA V++ DQ I A++ L+G
Sbjct: 15 NLSPAVTADDLRQLFGDRKLP-------LAGQVLLKSGYAFVDYPDQNWAIRAIETLSGK 67
Query: 228 TNLKGKTLQMFHSTQSIQKPEAKSN 252
L GK +++ +S + S+
Sbjct: 68 VELHGKIMEVDYSVSKKLRSSGPSS 92
>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 = 44.1 bits (104), Expect = 2e-05
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 5/85 (5%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+I E E+ + F G + I + T YALVE+ + A + LNG
Sbjct: 79 SIHEEAQEDEIQEKFCDYGEIKNIHL-NLDRRTGFSKGYALVEYETHKQALAAKEALNGA 137
Query: 229 NLKGKTLQMFHSTQSIQKPEAKSNE 253
+ G+T+Q+ K KS +
Sbjct: 138 EIMGQTIQVDWCFVKGPKRVKKSEK 162
Score = 28.3 bits (63), Expect = 3.2
Identities = 9/40 (22%), Positives = 21/40 (52%)
Query: 4 DTVAPVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRL 43
V+ ++ V +I +A D++Q F G+++++ L
Sbjct: 65 GPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHL 104
>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 = 42.6 bits (100), Expect = 2e-05
Identities = 16/107 (14%), Positives = 36/107 (33%), Gaps = 7/107 (6%)
Query: 151 PPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYAL 210
P D++ R + + V+ E++ G V + +N A
Sbjct: 16 PRGSHMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKN----QAF 71
Query: 211 VEFSDQACVIPALK---LNGTNLKGKTLQMFHSTQSIQKPEAKSNEA 254
+E + + + L+G+ + + S K ++ N+A
Sbjct: 72 IEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTDSSPNQA 118
Score = 28.0 bits (62), Expect = 2.5
Identities = 7/35 (20%), Positives = 17/35 (48%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYP 45
++V+ + + T ++ +L GKV +L +
Sbjct: 31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 65
>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 = 41.9 bits (99), Expect = 2e-05
Identities = 14/74 (18%), Positives = 30/74 (40%), Gaps = 11/74 (14%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTREN-------DTNK---YALVEFSDQACVIPA 222
+ E+V+ + + D+F+++G + + + +T K A V F D A
Sbjct: 20 GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 79
Query: 223 LK-LNGTNLKGKTL 235
+ +G G +
Sbjct: 80 IDWFDGKEFSGNPI 93
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 42.1 bits (99), Expect = 2e-05
Identities = 19/72 (26%), Positives = 29/72 (40%), Gaps = 2/72 (2%)
Query: 166 RRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-K 224
R L NI + + L + G V +++T V +S + AL K
Sbjct: 15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET-AVVNVTYSSKDQARQALDK 73
Query: 225 LNGTNLKGKTLQ 236
LNG L+ TL+
Sbjct: 74 LNGFQLENFTLK 85
Score = 27.0 bits (60), Expect = 4.4
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 14 VQVANIAPQATRDQMQTLFGYLGKVEDLRL 43
+Q+ NI P + + +L G VE
Sbjct: 18 LQIRNIPPHLQWEVLDSLLVQYGVVESCEQ 47
>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 = 41.9 bits (99), Expect = 2e-05
Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 5/64 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ ++ +E+ F+K G + + + + + A L+ L+
Sbjct: 22 NLPPDITEEEMRKLFEKYGKAGEVFIHKDKG----FGFIRLETRTLAEIAKVELDNMPLR 77
Query: 232 GKTL 235
GK L
Sbjct: 78 GKQL 81
Score = 27.2 bits (61), Expect = 4.0
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V N+ P T ++M+ LF GK ++ +
Sbjct: 20 VGNLPPDITEEEMRKLFEKYGKAGEVFI 47
>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 = 42.4 bits (100), Expect = 2e-05
Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTREN-------DTNK---YALVEFSDQACVIPA 222
+ +SV+ +L DFF++ G V + + +T K A V + D A
Sbjct: 22 GLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAA 81
Query: 223 LK-LNGTNLKGKTLQ 236
++ +G + +G L+
Sbjct: 82 VEWFDGKDFQGSKLK 96
>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 = 42.1 bits (99), Expect = 3e-05
Identities = 17/113 (15%), Positives = 41/113 (36%), Gaps = 13/113 (11%)
Query: 166 RRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-K 224
+ ++A N+ E+ + F + G++ + + A+VEF + A
Sbjct: 10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL----PEGGITAIVEFLEPLEARKAFRH 65
Query: 225 LNGTNLKGKTLQMFHSTQSIQK-PEAKSNEAAQREIEEAMSRVKEAQNMISAA 276
L + L ++ P A Q++ + ++A++ S+
Sbjct: 66 LAYSKFHHVPL-------YLEWAPIGVFGAAPQKKDSQHEQPAEKAESGPSSG 111
Score = 27.1 bits (60), Expect = 4.7
Identities = 18/109 (16%), Positives = 36/109 (33%), Gaps = 22/109 (20%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFD----EKCVGI 71
N+ ++Q F G + V +P V+F + K
Sbjct: 15 AKNLPAGTLAAEIQETFSRFGSLG---------RVLLPEGGITAIVEFLEPLEARKAF-- 63
Query: 72 SQHLTNTVFIDRALVV-----TPYNSGEIPDEQRALEIAAQQQ-GPNSG 114
+HL + F L + + + + + + A + + GP+SG
Sbjct: 64 -RHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAEKAESGPSSG 111
>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 = 41.7 bits (98), Expect = 3e-05
Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 8/80 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK---LNGTN 229
+ ESV +LV+ +K GT+ Y+ + ALVEF + +
Sbjct: 22 GLCESVVEADLVEALEKFGTICYVMMMPFKR----QALVEFENIDSAKECVTFAADVPVY 77
Query: 230 LKGKTLQM-FHSTQSIQKPE 248
+ G+ + +++ I +P
Sbjct: 78 IAGQQAFFNYSTSKRITRPG 97
Score = 31.7 bits (72), Expect = 0.098
Identities = 16/107 (14%), Positives = 29/107 (27%), Gaps = 20/107 (18%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEKCVG 70
+ VV V + + G + + + P R V+F +
Sbjct: 15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP---------FKRQALVEFENIDSAK 65
Query: 71 --ISQHLTNTVFID-RALVVTPYNSGEIPDEQRALEIAAQQQGPNSG 114
++ V+I + S I GP+SG
Sbjct: 66 ECVTFAADVPVYIAGQQAFFNYSTSKRITR--------PGNSGPSSG 104
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 41.4 bits (98), Expect = 3e-05
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 7/67 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
N+ + + L D F + G V Y + K +V+F A +NG
Sbjct: 15 NLPFDFTWKMLKDKFNECGHVLYADIKM---ENGKSKGCGVVKFESPEVAERACRMMNGM 71
Query: 229 NLKGKTL 235
L G+ +
Sbjct: 72 KLSGREI 78
>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 = 41.5 bits (98), Expect = 3e-05
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
+I + ++++D VG V ++ + T + YA +EF D A+ LNG
Sbjct: 9 SIPYDQTEEQILDLCSNVGPVINLKM-MFDPQTGRSKGYAFIEFRDLESSASAVRNLNGY 67
Query: 229 NLKGKTL 235
L + L
Sbjct: 68 QLGSRFL 74
Score = 28.7 bits (65), Expect = 0.92
Identities = 9/33 (27%), Positives = 19/33 (57%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRL 43
++VV + +I T +Q+ L +G V +L++
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKM 34
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 41.8 bits (98), Expect = 3e-05
Identities = 14/91 (15%), Positives = 32/91 (35%), Gaps = 7/91 (7%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-- 224
R + + V+ E++ G V + +N A +E + + +
Sbjct: 17 RVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKN----QAFIEMNTEEAANTMVNYY 72
Query: 225 -LNGTNLKGKTLQMFHSTQSIQKPEAKSNEA 254
L+G+ + + S K ++ N+A
Sbjct: 73 TSVTPVLRGQPIYIQFSNHKELKTDSSPNQA 103
Score = 27.5 bits (61), Expect = 3.2
Identities = 8/47 (17%), Positives = 20/47 (42%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR 57
++V+ + + T ++ +L GKV +L + I + +
Sbjct: 16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTE 62
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome biogenesis,
RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A
Length = 111
Score = 41.7 bits (98), Expect = 3e-05
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 173 NIEESVSPQELVDFFQKVGT-VNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNL 230
N+ E S Q+L D ++ + TR+ D +EF + ++ AL +LN
Sbjct: 35 NLPEGCSWQDLKDLARENSLETTFSSVNTRDFDG--TGALEFPSEEILVEALERLNNIEF 92
Query: 231 KGKTL 235
+G +
Sbjct: 93 RGSVI 97
>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 = 43.4 bits (103), Expect = 4e-05
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
++ V+ L + F G + IR C R+ T + YA V F A AL +N
Sbjct: 22 DLHPDVTEAMLYEKFSPAGPILSIRVC-RDMITRRSLGYAYVNFQQPADAERALDTMNFD 80
Query: 229 NLKGKTL 235
+KGK +
Sbjct: 81 VIKGKPV 87
Score = 32.6 bits (75), Expect = 0.17
Identities = 18/88 (20%), Positives = 33/88 (37%), Gaps = 7/88 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
N+++S+ + L D F G + + D N Y V F Q A+ K+NG
Sbjct: 110 NLDKSIDNKALYDTFSAFGNILSCKVVC---DENGSKGYGFVHFETQEAAERAIEKMNGM 166
Query: 229 NLKGKTLQMFHSTQSIQKPEAKSNEAAQ 256
L + + + ++ A +
Sbjct: 167 LLNDRKVFVGRFKSRKEREAELGARAKE 194
>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 = 41.5 bits (98), Expect = 4e-05
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 5/68 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
N+ V+ ++LV F + R T + A + F ++ AL +NG
Sbjct: 32 NLSPRVTERDLVSLFARFQEKKGPPIQFR-MMTGRMRGQAFITFPNKEIAWQALHLVNGY 90
Query: 229 NLKGKTLQ 236
L GK L
Sbjct: 91 KLYGKILV 98
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo
sapiens} SCOP: d.58.7.1
Length = 106
Score = 41.5 bits (98), Expect = 4e-05
Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ E + +++ D F + G + I + T Y LVE+ A++ LNG
Sbjct: 30 GVHEEATEEDIHDKFAEYGEIKNIHLNL-DRRTGYLKGYTLVEYETYKEAQAAMEGLNGQ 88
Query: 229 NLKGKTLQ 236
+L G+ +
Sbjct: 89 DLMGQPIS 96
Score = 28.0 bits (63), Expect = 2.3
Identities = 6/28 (21%), Positives = 15/28 (53%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V + +AT + + F G+++++ L
Sbjct: 28 VTGVHEEATEEDIHDKFAEYGEIKNIHL 55
>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 = 41.7 bits (98), Expect = 4e-05
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
+ S S Q+L D ++ G V Y + + +VEF + + A+ KL+ T +
Sbjct: 23 GLPPSGSWQDLKDHMREAGDVCYA-----DVYRDGTGVVEFVRKEDMTYAVRKLDNTKFR 77
Query: 232 GKTLQ 236
+
Sbjct: 78 SHEGE 82
>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 = 41.1 bits (97), Expect = 4e-05
Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 5/63 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
+ + S L F + G++ I ++ +A +++ A K+ G L
Sbjct: 24 GLGPNTSLAALAREFDRFGSIRTIDHVKGDS----FAYIQYESLDAAQAACAKMRGFPLG 79
Query: 232 GKT 234
G
Sbjct: 80 GPD 82
>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 = 42.5 bits (100), Expect = 5e-05
Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK-YALVEFSDQACVIPALK-LNGTN 229
N+ + +++ + F K G + I + T + VE+ +A A++ +NGT
Sbjct: 46 NLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTR 105
Query: 230 LKGKTL 235
L + +
Sbjct: 106 LDDRII 111
Score = 29.0 bits (65), Expect = 1.4
Identities = 14/77 (18%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFD----EKCVG 70
V N++ T +Q+ LF G ++ + + D + + C+V+++ E +
Sbjct: 44 VGNLSFYTTEEQIYELFSKSGDIKKII---MGLD-KMKKTACGFCFVEYYSRADAENAM- 98
Query: 71 ISQHLTNTVFIDRALVV 87
+++ T DR +
Sbjct: 99 --RYINGTRLDDRIIRT 113
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 41.1 bits (97), Expect = 5e-05
Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK-YALVEFSDQACVIPALKLNGTNL 230
N+ + ++ F+ + + +R ++ D K + VEF + + AL +G L
Sbjct: 22 NLPFNTVQGDIDAIFKDLSIRS-VRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALL 80
Query: 231 KGKTL 235
++L
Sbjct: 81 GDRSL 85
>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 = 40.5 bits (95), Expect = 6e-05
Identities = 11/73 (15%), Positives = 26/73 (35%), Gaps = 6/73 (8%)
Query: 166 RRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK- 224
++ N+ + + QE+ D + + R A V + A++
Sbjct: 5 SSGILVKNLPQDSNCQEVHDLLKDYDLK--YCYVDRNKR---TAFVTLLNGEQAQNAIQM 59
Query: 225 LNGTNLKGKTLQM 237
+ + +GK L +
Sbjct: 60 FHQYSFRGKDLIV 72
>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 = 40.3 bits (95), Expect = 7e-05
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 7/64 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ + QE+ F++ G V Y V D+ A++ L+ L
Sbjct: 15 NLPREATEQEIRSLFEQYGKVLECDI------IKNYGFVHIEDKTAAEDAIRNLHHYKLH 68
Query: 232 GKTL 235
G +
Sbjct: 69 GVNI 72
Score = 28.3 bits (64), Expect = 1.4
Identities = 8/28 (28%), Positives = 17/28 (60%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
+ N+ +AT ++++LF GKV + +
Sbjct: 13 IGNLPREATEQEIRSLFEQYGKVLECDI 40
>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 = 40.6 bits (95), Expect = 7e-05
Identities = 14/89 (15%), Positives = 32/89 (35%), Gaps = 8/89 (8%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-- 224
R L + V+ E++ G V I +N A +E + + I +
Sbjct: 16 RVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKN----QAFLELATEEAAITMVNYY 71
Query: 225 -LNGTNLKGKTLQMFHST-QSIQKPEAKS 251
+L+ + + + +S + ++ S
Sbjct: 72 SAVTPHLRNQPIYIQYSNHKELKTSGPSS 100
Score = 27.1 bits (60), Expect = 4.5
Identities = 6/35 (17%), Positives = 17/35 (48%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYP 45
++V+ + + + T ++ L GKV ++ +
Sbjct: 15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK 49
>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 = 39.9 bits (94), Expect = 9e-05
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 7/68 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPALK-LNG 227
N+ S++ +L F K G V + ++ T K A + F D+ + +N
Sbjct: 23 NLPFSLTNNDLYRIFSKYGKVVKVTIMKDKD--TRKSKGVAFILFLDKDSAQNCTRAINN 80
Query: 228 TNLKGKTL 235
L G+ +
Sbjct: 81 KQLFGRVI 88
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 40.5 bits (95), Expect = 1e-04
Identities = 17/97 (17%), Positives = 37/97 (38%), Gaps = 11/97 (11%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-------RENDTNK---YALVEFSDQACVIPA 222
+ E+V+ + + D+F+++G + + + +T K A V F D A
Sbjct: 14 GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 73
Query: 223 LK-LNGTNLKGKTLQMFHSTQSIQKPEAKSNEAAQRE 258
+ +G G +++ +T+ N E
Sbjct: 74 IDWFDGKEFSGNPIKVSFATRRADFNRGGGNGRGGLE 110
>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 = 40.0 bits (94), Expect = 1e-04
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK- 224
+TLV N+ S + + L + F+K + + +N +K YA +EF+ AL
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNS 72
Query: 225 LNGTNLKGKTL 235
N ++G+ +
Sbjct: 73 CNKREIEGRAI 83
>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 = 39.6 bits (93), Expect = 1e-04
Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-- 224
TL + ++++ +L + F + G + I R+ A ++F+ + A +
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQ----CAFIQFATRQAAEVAAEKS 68
Query: 225 LNGTNLKGKTLQ 236
N + G+ L
Sbjct: 69 FNKLIVNGRRLN 80
Score = 28.4 bits (64), Expect = 0.92
Identities = 5/53 (9%), Positives = 18/53 (33%), Gaps = 9/53 (16%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEKC 68
V + T ++ F G++ + + + + +++F +
Sbjct: 17 VGGLGDTITETDLRNHFYQFGEIRTIT---------VVQRQQCAFIQFATRQA 60
>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 = 39.6 bits (93), Expect = 1e-04
Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 10/73 (13%)
Query: 167 RTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL 223
RTL+A N+ +++ EL + F+ + + K A +EF +A L
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVS------QDGKSKGIAYIEFKSEADAEKNL 70
Query: 224 K-LNGTNLKGKTL 235
+ G + G+++
Sbjct: 71 EEKQGAEIDGRSV 83
>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 = 40.4 bits (95), Expect = 2e-04
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 7/69 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPALK-LNG 227
+ E + +++ D F + G + I R T Y LVE+ A++ LNG
Sbjct: 29 GVHEEATEEDIHDKFAEYGEIKNIHLNLDRR--TGYLKGYTLVEYETYKEAQAAMEGLNG 86
Query: 228 TNLKGKTLQ 236
+L G+ +
Sbjct: 87 QDLMGQPIS 95
Score = 28.1 bits (63), Expect = 2.2
Identities = 6/28 (21%), Positives = 15/28 (53%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V + +AT + + F G+++++ L
Sbjct: 27 VTGVHEEATEEDIHDKFAEYGEIKNIHL 54
>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 = 39.5 bits (93), Expect = 2e-04
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 5/83 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
NI + ++L D F +VG V R + +T K Y E+ DQ + A++ LNG
Sbjct: 15 NIPYEATEEQLKDIFSEVGPVVSFRLVY-DRETGKPKGYGFCEYQDQETALSAMRNLNGR 73
Query: 229 NLKGKTLQMFHSTQSIQKPEAKS 251
G+ L++ ++ K E KS
Sbjct: 74 EFSGRALRVDNAASEKNKEELKS 96
Score = 26.5 bits (59), Expect = 6.9
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRL 43
+ V V NI +AT +Q++ +F +G V RL
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRL 40
>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 = 40.0 bits (94), Expect = 2e-04
Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
N++ VS ++ + F + GT+ + + A V F +A + A+K G L
Sbjct: 42 NLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPL 101
Query: 231 KGKTL 235
G+ +
Sbjct: 102 DGRPM 106
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 39.2 bits (92), Expect = 2e-04
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
+ S + +EL + + GTV +R T K A VE+ +++ A+ ++G +
Sbjct: 24 GLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTI 83
Query: 231 KGKTL 235
K +
Sbjct: 84 KENII 88
Score = 28.4 bits (64), Expect = 1.3
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
++ + T+++++ + G V+DLRL
Sbjct: 22 ISGLPFSCTKEELEEICKAHGTVKDLRL 49
>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 = 41.5 bits (98), Expect = 2e-04
Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
N+ S++ Q+ + + G++ T + Y E+ + A L G
Sbjct: 102 NLPPSLTQQQFEELVRPFGSLERCFLV-YSERTGQSKGYGFAEYMKKDSAARAKSDLLGK 160
Query: 229 NLKGKTL 235
L +TL
Sbjct: 161 PLGPRTL 167
Score = 38.8 bits (91), Expect = 0.002
Identities = 14/72 (19%), Positives = 28/72 (38%), Gaps = 8/72 (11%)
Query: 166 RRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPAL- 223
RR ++ + V+ QE+ D +++C D K A V + A+
Sbjct: 22 RRKILIRGLPGDVTNQEVHDLLSDYE----LKYC--FVDKYKGTAFVTLLNGEQAEAAIN 75
Query: 224 KLNGTNLKGKTL 235
+ + L+ + L
Sbjct: 76 AFHQSRLREREL 87
>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 = 38.8 bits (91), Expect = 3e-04
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
++ +++ L F+ G + I+ +++T + Y + FSD C AL +LNG
Sbjct: 33 SLHFNITEDMLRGIFEPFGRIESIQLMM-DSETGRSKGYGFITFSDSECAKKALEQLNGF 91
Query: 229 NLKGKTL 235
L G+ +
Sbjct: 92 ELAGRPM 98
>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 = 38.3 bits (90), Expect = 3e-04
Identities = 14/67 (20%), Positives = 28/67 (41%), Gaps = 4/67 (5%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ +V+ +++ F G + I + YA VEF + ALK ++G
Sbjct: 11 RLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGG 70
Query: 229 NLKGKTL 235
+ G+ +
Sbjct: 71 QIDGQEI 77
Score = 26.4 bits (59), Expect = 5.8
Identities = 13/61 (21%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 7 APVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFD 65
+ TKV + + T+D + +F GK++ + + + P S+ YV+F +
Sbjct: 1 SMKPTKVH-IGRLTRNVTKDHIMEIFSTYGKIKMID---MPVERMHPHLSKGYAYVEFEN 56
Query: 66 E 66
Sbjct: 57 P 57
>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 = 40.4 bits (95), Expect = 3e-04
Identities = 20/88 (22%), Positives = 35/88 (39%), Gaps = 7/88 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
I+E L D+F++ G + I T + + K +A V F D V +
Sbjct: 111 GIKEDTEEHHLRDYFEQYGKIEVIEIMT-DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT 169
Query: 230 LKGKTLQMFHSTQSIQKPEAKSNEAAQR 257
+ G +++ K E S ++QR
Sbjct: 170 VNGHNC---EVRKALSKQEMASASSSQR 194
Score = 33.0 bits (76), Expect = 0.096
Identities = 19/86 (22%), Positives = 30/86 (34%), Gaps = 11/86 (12%)
Query: 7 APVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFD 65
A + K + V I ++ F GK+E + + R + R +V F D
Sbjct: 100 AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEI-MTDRGSG---KKRGFAFVTFDD 155
Query: 66 E----KCVGISQHLTN--TVFIDRAL 85
K V H N + +AL
Sbjct: 156 HDSVDKIVIQKYHTVNGHNCEVRKAL 181
Score = 30.0 bits (68), Expect = 0.90
Identities = 11/68 (16%), Positives = 27/68 (39%), Gaps = 8/68 (11%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT--RENDTNK---YALVEFSDQACVIPALKLNG 227
+ + + L F++ GT+ C R+ +T + + V ++ V A+
Sbjct: 20 GLSFETTDESLRSHFEQWGTL---TDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARP 76
Query: 228 TNLKGKTL 235
+ G+ +
Sbjct: 77 HKVDGRVV 84
>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 = 38.3 bits (90), Expect = 4e-04
Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPAL-KLNGT 228
++ +++ L F+ G ++ I ++DT + Y + FSD C AL +LNG
Sbjct: 12 SLHFNITEDMLRGIFEPFGKIDNIVLMK-DSDTGRSKGYGFITFSDSECARRALEQLNGF 70
Query: 229 NLKGKTL 235
L G+ +
Sbjct: 71 ELAGRPM 77
>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 = 40.8 bits (96), Expect = 4e-04
Identities = 11/65 (16%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ ++ ++ F++ G + + D + + + A L+GT LK
Sbjct: 29 NLPTDITEEDFKRLFERYGEPSEVFIN---RDRG-FGFIRLESRTLAEIAKAELDGTILK 84
Query: 232 GKTLQ 236
+ L+
Sbjct: 85 SRPLR 89
Score = 28.5 bits (64), Expect = 3.9
Identities = 15/89 (16%), Positives = 28/89 (31%), Gaps = 7/89 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALKLNGTNLK 231
N+ VS + L F + G V + VEF+ + AL+
Sbjct: 103 NLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE----RCG 158
Query: 232 GKTLQMFHSTQSI--QKPEAKSNEAAQRE 258
+ + + + + E +E E
Sbjct: 159 DGAFLLTTTPRPVIVEPMEQFDDEDGLPE 187
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 38.4 bits (90), Expect = 4e-04
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 7/64 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
V EL + F G + ++ N +A VEF + A+ +++G +
Sbjct: 38 PFPLDVQESELNEIFGPFGPMKEVKI------LNGFAFVEFEEAESAAKAIEEVHGKSFA 91
Query: 232 GKTL 235
+ L
Sbjct: 92 NQPL 95
>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 = 38.5 bits (90), Expect = 4e-04
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 2/64 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ + +++ D F K G + I R +A VEF D A+ +G +
Sbjct: 29 NLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG-GPPFAFVEFEDPRDAEDAVYGRDGYDYD 87
Query: 232 GKTL 235
G L
Sbjct: 88 GYRL 91
Score = 26.9 bits (60), Expect = 5.4
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V N+ P ++ +F G + D+ L
Sbjct: 27 VGNLPPDIRTKDIEDVFYKYGAIRDIDL 54
>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 = 38.5 bits (90), Expect = 5e-04
Identities = 19/93 (20%), Positives = 34/93 (36%), Gaps = 14/93 (15%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK----- 224
N+ + L + Q+ G + Y+R DT A +F Q L
Sbjct: 22 NLSFDSEEEALGEVLQQFGDLKYVRVVL-HPDTEHSKGCAFAQFMTQEAAQKCLAAASLE 80
Query: 225 --LNGTNLKGKTLQMFHSTQSIQKPEAKSNEAA 255
G L G+ L++ ++ + EA S ++
Sbjct: 81 AEGGGLKLDGRQLKV---DLAVTRDEAASGPSS 110
>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 = 38.0 bits (89), Expect = 5e-04
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 7/64 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
NI + + QEL F++ G V YA V + A++ L+ T +
Sbjct: 17 NISPTCTNQELRAKFEEYGPVIECDI------VKDYAFVHMERAEDAVEAIRGLDNTEFQ 70
Query: 232 GKTL 235
GK +
Sbjct: 71 GKRM 74
Score = 27.6 bits (62), Expect = 2.0
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V NI+P T +++ F G V + +
Sbjct: 15 VGNISPTCTNQELRAKFEEYGPVIECDI 42
>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 = 38.0 bits (89), Expect = 6e-04
Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
N++ VS ++ + F + GT+ + + A V F +A + A+K NG L
Sbjct: 36 NLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPL 95
Query: 231 KGKTL 235
G+ +
Sbjct: 96 DGRPM 100
>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 = 37.5 bits (88), Expect = 6e-04
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ E V + L F G + I+ + +T K +A VEF A+ +N +
Sbjct: 14 GLAEEVDDKVLHAAFIPFGDITDIQIPL-DYETEKHRGFAFVEFELAEDAAAAIDNMNES 72
Query: 229 NLKGKTL 235
L G+T+
Sbjct: 73 ELFGRTI 79
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 37.8 bits (88), Expect = 7e-04
Identities = 19/97 (19%), Positives = 35/97 (36%), Gaps = 7/97 (7%)
Query: 148 PQYPPLPITYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK 207
+ YD + + + V +LV+ Q+ G ++Y+ ++
Sbjct: 3 HHHHHHMENYDDPHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKR---- 58
Query: 208 YALVEFSDQACVIPALK---LNGTNLKGKTLQMFHST 241
ALVEF D A+ N + G + +ST
Sbjct: 59 QALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYST 95
Score = 27.4 bits (61), Expect = 2.9
Identities = 13/88 (14%), Positives = 27/88 (30%), Gaps = 12/88 (13%)
Query: 11 TKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEKCVG 70
+ VV + + + G + + + P + R V+F D
Sbjct: 21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP---------KKRQALVEFEDVLGAC 71
Query: 71 --ISQHLTNTVFID-RALVVTPYNSGEI 95
++ N ++I V S +I
Sbjct: 72 NAVNYAADNQIYIAGHPAFVNYSTSQKI 99
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 39.1 bits (91), Expect = 8e-04
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPAL-KLNGTNL 230
N++ VS ++ + F + GT+ + + A V F +A + A+ + G L
Sbjct: 95 NLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPL 154
Query: 231 KGKTL 235
G+ +
Sbjct: 155 DGRPM 159
>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 = 37.2 bits (87), Expect = 9e-04
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 7/64 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ + + QEL F++ G V YA V +A A+ LNG +K
Sbjct: 16 NVSAACTSQELRSLFERRGRVIECDV------VKDYAFVHMEKEADAKAAIAQLNGKEVK 69
Query: 232 GKTL 235
GK +
Sbjct: 70 GKRI 73
Score = 26.4 bits (59), Expect = 5.1
Identities = 7/28 (25%), Positives = 16/28 (57%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRL 43
V N++ T ++++LF G+V + +
Sbjct: 14 VGNVSAACTSQELRSLFERRGRVIECDV 41
>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 = 37.2 bits (87), Expect = 0.001
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 6/70 (8%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-----YALVEFSDQACVIPALK-LN 226
N+ S + + L F KVG + ++N + VE+ ALK L
Sbjct: 12 NLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQ 71
Query: 227 GTNLKGKTLQ 236
G + G L+
Sbjct: 72 GHTVDGHKLE 81
>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 = 38.7 bits (91), Expect = 0.001
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
I V P+E +FF + GT+ + + DT + + V + V + +
Sbjct: 94 GIGPDVRPKEFEEFFSQWGTIIDAQL-MLDKDTGQSRGFGFVTYDSADAVDRVCQNKFID 152
Query: 230 LKGKTL 235
K + +
Sbjct: 153 FKDRKI 158
Score = 29.4 bits (67), Expect = 1.3
Identities = 18/91 (19%), Positives = 30/91 (32%), Gaps = 11/91 (12%)
Query: 2 AVDTVAPVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICY 60
A+ KT + V I P + + F G + D +L + +D QSR +
Sbjct: 78 AIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQL-MLDKDTG---QSRGFGF 133
Query: 61 VKFFDE----KCVGISQHLTN--TVFIDRAL 85
V + + + I RA
Sbjct: 134 VTYDSADAVDRVCQNKFIDFKDRKIEIKRAE 164
>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 = 37.3 bits (87), Expect = 0.001
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 5/68 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK--LNG 227
NI + +E+ + F G + +R + T + V+F + A +
Sbjct: 22 NIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHS 81
Query: 228 TNLKGKTL 235
T+L G+ L
Sbjct: 82 THLYGRRL 89
Score = 36.1 bits (84), Expect = 0.003
Identities = 23/105 (21%), Positives = 43/105 (40%), Gaps = 23/105 (21%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFD----EKCVG 70
V NI QA + +++ LF G+++ +R + + ++ R +V F +K
Sbjct: 20 VRNIPFQANQREIRELFSTFGELKTVR---LPKKMTGTGAHRGFGFVDFITKQDAKKAF- 75
Query: 71 ISQHLTNTVFID-RALVVTPYNSGEIPDEQRALEIAAQQQGPNSG 114
L ++ + R LV+ + A Q GP+SG
Sbjct: 76 --NALCHSTHLYGRRLVL-----------EWADSEVTVQSGPSSG 107
>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 = 37.4 bits (87), Expect = 0.001
Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 7/61 (11%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGKT 234
V ++ F K G V YA V++S++ A+ NG L G+T
Sbjct: 38 ALVKKSDVETIFSKYGRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQT 91
Query: 235 L 235
L
Sbjct: 92 L 92
>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 = 36.9 bits (86), Expect = 0.001
Identities = 13/64 (20%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ +V+ + L F + G + ++ YA + F ++ + A++ +NG +L+
Sbjct: 18 NLANTVTEEILEKAFSQFGKLERVKK------LKDYAFIHFDERDGAVKAMEEMNGKDLE 71
Query: 232 GKTL 235
G+ +
Sbjct: 72 GENI 75
Score = 28.0 bits (63), Expect = 2.1
Identities = 25/118 (21%), Positives = 48/118 (40%), Gaps = 25/118 (21%)
Query: 4 DTVAPVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKF 63
+ K KV+ V N+A T + ++ F GK+E ++ +D ++ F
Sbjct: 4 GSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVK---KLKD--------YAFIHF 52
Query: 64 FD----EKCVGISQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQ---GPNSG 114
+ K + + + + + + PD++R E AQ+Q GP+SG
Sbjct: 53 DERDGAVKAM---EEMNGKDLEGENIEI---VFAKPPDQKRK-ERKAQRQAASGPSSG 103
>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 = 36.8 bits (86), Expect = 0.002
Identities = 14/67 (20%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
N+ + S ++L F G ++ + + ++ T K +A V F + A ++G
Sbjct: 15 NLSYTSSEEDLEKLFSAYGPLSELHYPI-DSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQ 73
Query: 229 NLKGKTL 235
+G+ L
Sbjct: 74 VFQGRML 80
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 36.5 bits (85), Expect = 0.003
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
NI +L F + G + + E + + V F + A A KL+GT ++
Sbjct: 36 NIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE 95
Query: 232 GKTL 235
G+ +
Sbjct: 96 GRKI 99
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 36.1 bits (84), Expect = 0.003
Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N+ EL F G + + + +A VEF D A++ L+G +
Sbjct: 7 NLGTGAGKGELERAFSYYGPLRTVWIA---RNPPGFAFVEFEDPRDAEDAVRGLDGKVIC 63
Query: 232 GKTL 235
G +
Sbjct: 64 GSRV 67
Score = 28.8 bits (65), Expect = 1.1
Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 10/53 (18%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEK 67
V N+ A + +++ F Y G + R V I +V+F D +
Sbjct: 5 VGNLGTGAGKGELERAFSYYGPL---------RTVWIARNPPGFAFVEFEDPR 48
>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 = 36.0 bits (84), Expect = 0.003
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 7/68 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPALK-LNG 227
N+ SP L F+K G V + T +A V F D+ A ++G
Sbjct: 20 NLTYRTSPDSLRRVFEKYGRVGDVYIPREPH--TKAPRGFAFVRFHDRRDAQDAEAAMDG 77
Query: 228 TNLKGKTL 235
L G+ L
Sbjct: 78 AELDGREL 85
>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 = 35.7 bits (83), Expect = 0.004
Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
NI +L F + G + + E + + V F + A A + L+GT ++
Sbjct: 22 NIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE 81
Query: 232 GKTL 235
G+ +
Sbjct: 82 GRKI 85
>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 = 37.2 bits (87), Expect = 0.004
Identities = 12/88 (13%), Positives = 27/88 (30%), Gaps = 7/88 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-----YALVEFSDQACVIPALK-LN 226
+ + S ++L + F++ G V I R+ N V F + + A L+
Sbjct: 10 QVPRTWSEKDLRELFEQYGAVYEINVL-RDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
Query: 227 GTNLKGKTLQMFHSTQSIQKPEAKSNEA 254
+ + + +
Sbjct: 69 NMKVLPGMHHPIQMKPADSEKNNAVEDR 96
Score = 31.8 bits (73), Expect = 0.22
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARD-VSIPVQSR-ICYVKFFDEKCV 69
V + + ++ LF G V ++ + RD P QS+ C+V F+ K
Sbjct: 8 VGQVPRTWSEKDLRELFEQYGAVYEIN---VLRDRSQNPPQSKGCCFVTFYTRKAA 60
Score = 29.9 bits (68), Expect = 0.83
Identities = 10/60 (16%), Positives = 23/60 (38%), Gaps = 2/60 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
I + + ++ F G + R + ++ A V F+ +A A+K ++
Sbjct: 102 MISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT 161
>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 = 34.8 bits (81), Expect = 0.007
Identities = 16/89 (17%), Positives = 38/89 (42%), Gaps = 18/89 (20%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
N+ S + +++ + F + G V ++ + +T K + VE +++ KL+ T+
Sbjct: 8 NLVYSATSEQVKELFSQFGKVFNVKLIY-DRETKKPKGFGFVEMQEESVSEAIAKLDNTD 66
Query: 230 LKGKTLQMFHSTQSIQKPEAKSNEAAQRE 258
G+T+ + EA ++
Sbjct: 67 FMGRTI--------------RVTEANPKK 81
>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 = 35.0 bits (81), Expect = 0.007
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 7/61 (11%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGKT 234
++VS ++L F G + I N + ++F + V A++ + GK
Sbjct: 33 KNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKK 86
Query: 235 L 235
L
Sbjct: 87 L 87
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 35.0 bits (81), Expect = 0.008
Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 5/68 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
++ + + +L F G V + + T+ + V F + A+K +NG
Sbjct: 47 HLPQEFTDTDLASTFLPFGNVISAKVF-IDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGF 105
Query: 229 NLKGKTLQ 236
+ K L+
Sbjct: 106 QVGTKRLK 113
>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 = 34.8 bits (80), Expect = 0.008
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 7/71 (9%)
Query: 173 NIEESVSPQELVDFFQKVGT-VNYIRFCTRENDTNK---YALVEFSDQACVIPALKL--- 225
I + +E+++ KV V + D K +A VE+ A +
Sbjct: 15 GIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMP 74
Query: 226 NGTNLKGKTLQ 236
L G +
Sbjct: 75 GRIQLWGHQIA 85
>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 = 34.5 bits (80), Expect = 0.009
Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ + ++L + F K G + + + + + +A V F + A + NG
Sbjct: 22 GLSLYTTERDLREVFSKYGPIADVSIVY-DQQSRRSRGFAFVYFENVDDAKEAKERANGM 80
Query: 229 NLKGKTL 235
L G+ +
Sbjct: 81 ELDGRRI 87
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 34.1 bits (79), Expect = 0.013
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 7/61 (11%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGKT 234
++VS ++L F G + I N + ++F + V A++ + GK
Sbjct: 21 KNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIECESQEMNFGKK 74
Query: 235 L 235
L
Sbjct: 75 L 75
>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 = 34.2 bits (79), Expect = 0.015
Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
N++ V ++L + F G V ++ ++ V F + A+ NG L
Sbjct: 22 NLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLL 81
Query: 231 KGKTL 235
+ +
Sbjct: 82 FDRPM 86
>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 = 34.2 bits (79), Expect = 0.015
Identities = 13/67 (19%), Positives = 31/67 (46%), Gaps = 3/67 (4%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIR-FCTRENDTNK-YALVEFSDQACVIPALK-LNGTN 229
++ + Q+L+ F G V + F ++ + +K + V + + A++ +NG
Sbjct: 32 HLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQ 91
Query: 230 LKGKTLQ 236
+ K L+
Sbjct: 92 IGMKRLK 98
>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural
genomics/proteomics initiative, RSGI, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 95
Score = 33.9 bits (77), Expect = 0.016
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 182 ELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALKLNGTNLKGKTLQM 237
EL+ GT+ +R + LV F+D + L ++G +KG+ +++
Sbjct: 40 ELMQTLGSYGTIVLVRIN--QGQM----LVTFADSHSALSVLDVDGMKVKGRAVKI 89
>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 = 34.1 bits (79), Expect = 0.017
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLK 231
N+++S+ + L D F G + + EN + Y V F Q A+ K+NG L
Sbjct: 12 NLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN 71
Query: 232 GKTL 235
+ +
Sbjct: 72 DRKV 75
>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 = 34.3 bits (79), Expect = 0.018
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGKT 234
E ++P L F G + + N A V + A+ LNGT ++
Sbjct: 47 EDMTPTLLRGAFSPFGNIIDLSMDPPRN----CAFVTYEKMESADQAVAELNGTQVESVQ 102
Query: 235 L 235
L
Sbjct: 103 L 103
>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 = 34.2 bits (79), Expect = 0.019
Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 2/65 (3%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNL 230
N+ S+ QEL + + G V R + T++ + NG +
Sbjct: 32 NLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFI 91
Query: 231 KGKTL 235
K
Sbjct: 92 KTPPG 96
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 33.1 bits (76), Expect = 0.022
Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 183 LVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGK 233
+ F K G + + + T Y +E++ A + A+K +G L +
Sbjct: 24 IHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 75
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 34.3 bits (79), Expect = 0.023
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPAL-KLNG 227
N+ SP L F+K G V + R T + +A V F D+ A+ ++G
Sbjct: 54 NLTYRTSPDTLRRVFEKYGRVGDVYIPRDRY--TKESRGFAFVRFHDKRDAEDAMDAMDG 111
Query: 228 TNLKGKTL 235
L G+ L
Sbjct: 112 AVLDGREL 119
>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 = 33.4 bits (77), Expect = 0.025
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
I+ + E+ FF + G+V ++ T + T Y V F + V ++ + N
Sbjct: 16 GIDVRMDETEIRSFFARYGSVKEVKIIT--DRTGVSKGYGFVSFYNDVDVQKIVE-SQIN 72
Query: 230 LKGKTL 235
GK L
Sbjct: 73 FHGKKL 78
>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 = 33.7 bits (77), Expect = 0.027
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 9/74 (12%)
Query: 167 RTLVAIN--IEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPAL 223
++LV N + VS +L+ +K G V+ + NK Y+ + A
Sbjct: 26 QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLM-----PPNKPYSFARYRTTEESKRAY 80
Query: 224 K-LNGTNLKGKTLQ 236
LNG + Q
Sbjct: 81 VTLNGKEVVDDLGQ 94
Score = 31.4 bits (71), Expect = 0.16
Identities = 8/38 (21%), Positives = 17/38 (44%)
Query: 8 PVKTKVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYP 45
++ VV + +R+Q+ + G V+ L + P
Sbjct: 24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP 61
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 33.2 bits (76), Expect = 0.028
Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 183 LVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLKGK 233
+ F K G + + + T Y +E++ A + A+K +G L +
Sbjct: 38 IHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 89
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.2 bits (77), Expect = 0.033
Identities = 8/27 (29%), Positives = 10/27 (37%), Gaps = 7/27 (25%)
Query: 202 ENDTNKYALVEFSDQACVIPALKLNGT 228
+ YA D A PAL + T
Sbjct: 26 QASLKLYA----DDSA---PALAIKAT 45
>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 = 35.2 bits (80), Expect = 0.037
Identities = 16/93 (17%), Positives = 33/93 (35%), Gaps = 5/93 (5%)
Query: 158 DTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFS 214
D + +TL + + +L F+ G + I + K YA +E+
Sbjct: 94 DPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMV-YSKRSGKPRGYAFIEYE 152
Query: 215 DQACVIPALK-LNGTNLKGKTLQMFHSTQSIQK 246
+ + A K +G + G+ + + K
Sbjct: 153 HERDMHSAYKHADGKKIDGRRVLVDVERGRTVK 185
Score = 31.0 bits (69), Expect = 0.70
Identities = 14/105 (13%), Positives = 33/105 (31%), Gaps = 3/105 (2%)
Query: 12 KVVQVANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSRICYVKFFDEKCVGI 71
K + VA + T +++ F G ++ + + ++++ E+ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIH---MVYSKRSGKPRGYAFIEYEHERDMHS 159
Query: 72 SQHLTNTVFIDRALVVTPYNSGEIPDEQRALEIAAQQQGPNSGEP 116
+ + ID V+ G R + G G
Sbjct: 160 AYKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGA 204
>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 = 33.0 bits (76), Expect = 0.041
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 13/70 (18%)
Query: 173 NIEESVSPQELVDFFQKVGTV---NYIRFCTRENDTNK---YALVEFSDQACVIPALK-L 225
N+++ + + L F GT+ + + + + V FS A+ +
Sbjct: 22 NLDDGIDDERLRKAFSPFGTITSAKVMM------EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 226 NGTNLKGKTL 235
NG + K L
Sbjct: 76 NGRIVATKPL 85
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA
binding domain, poly(A polymerase, mitochondria,
transferase; 3.10A {Homo sapiens}
Length = 464
Score = 34.8 bits (79), Expect = 0.044
Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 156 TYDTKKIEEIRRTLVAINIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSD 215
++ E+ +RT++ I+ E +S + + + + G +N F YA+VEF
Sbjct: 43 EMQNERREQAQRTVL-IHCPEKISENKFLKYLSQFGPINNHFFY---ESFGLYAVVEFCQ 98
>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 = 33.2 bits (76), Expect = 0.058
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCT-RENDTNK---YALVEFSDQACVIPALK-LNG 227
I +V +L F++ G + ++ RE T + Y V+F + A+ LNG
Sbjct: 49 YIPTTVDEVQLRQLFERYGPIESVKIVCDRE--TRQSRGYGFVKFQSGSSAQQAIAGLNG 106
Query: 228 TNLKGKTL 235
N+ K L
Sbjct: 107 FNILNKRL 114
>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 91
Score = 31.9 bits (72), Expect = 0.077
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 182 ELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALKLNGTNLKGKTLQM 237
EL+ F G V IRF V F + + + L LNG L +T+ +
Sbjct: 31 ELLQQFASFGEVILIRFV------EDKMWVTFLEGSSALNVLSLNGKELLNRTITI 80
>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 = 32.1 bits (73), Expect = 0.077
Identities = 14/87 (16%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 165 IRRTLV-AINIEESVSPQELV---DFFQKVGTVNYIRFCTRENDTNK-----YALVEFSD 215
+++ LV + + + ++ E++ ++F K G ++ + + A V +
Sbjct: 13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIR 72
Query: 216 QACVIPALK-LNGTNLKGKTLQMFHST 241
+ A++ +N + G+TL+ T
Sbjct: 73 SEDALRAIQCVNNVVVDGRTLKASLGT 99
>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 = 32.2 bits (73), Expect = 0.089
Identities = 6/71 (8%), Positives = 22/71 (30%), Gaps = 7/71 (9%)
Query: 175 EESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL---KLNGTNLK 231
S ++ + G + ++ A +E + + + +
Sbjct: 35 HSGYSDSAVLKLAEPYGKIKNYILMRMKS----QAFIEMETREDAMAMVDHCLKKALWFQ 90
Query: 232 GKTLQMFHSTQ 242
G+ +++ S +
Sbjct: 91 GRCVKVDLSEK 101
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 33.6 bits (76), Expect = 0.089
Identities = 19/152 (12%), Positives = 47/152 (30%), Gaps = 12/152 (7%)
Query: 118 LPAHVTNQIEGVPPNQVISTHDPVLVQHGLPQYPPLPITYDTKKIEE--IRRTLVAINIE 175
+P + + + K + I L + +++
Sbjct: 93 IPDEEDIGKLALRTEVLDCFGREKFADYREDMGGIGSFRKKNKTLYVGGIDGALNSKHLK 152
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPAL-KLNGTNLKGKT 234
+ + F ++G ++ IR+ +N V+F QA A ++ L +
Sbjct: 153 PAQIESRIRFVFSRLGDIDRIRYVESKN----CGFVKFKYQANAEFAKEAMSNQTLLLPS 208
Query: 235 LQMFHSTQSIQKP-----EAKSNEAAQREIEE 261
+ + + + AAQ+ ++E
Sbjct: 209 DKEWDDRREGTGLLVKWANEDPDPAAQKRLQE 240
>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 = 31.5 bits (72), Expect = 0.098
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 7/62 (11%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNK-YALVEFSDQACVIPALK-LNGTNLKGK 233
E ++P L F G + + D + A V + A+ LNGT ++
Sbjct: 23 EDMTPTLLRGAFSPFGNIIDLSM-----DPPRNCAFVTYEKMESADQAVAELNGTQVESV 77
Query: 234 TL 235
L
Sbjct: 78 QL 79
>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 = 32.5 bits (74), Expect = 0.10
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
N+ SP L F+K G V + + T + +A V F D+ A+ ++G
Sbjct: 77 NLTYRTSPDTLRRVFEKYGRVGDVYIPR-DRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 135
Query: 229 NLKGKTL 235
L G+ L
Sbjct: 136 VLDGREL 142
>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 = 32.0 bits (73), Expect = 0.13
Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 5/67 (7%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALK-LNGT 228
+ + ++L + F K G + + + + + +A V F + A + NG
Sbjct: 53 GLSLYTTERDLREVFSKYGPIADVSIVY-DQQSRRSRGFAFVYFENVDDAKEAKERANGM 111
Query: 229 NLKGKTL 235
L G+ +
Sbjct: 112 ELDGRRI 118
>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 100
Score = 30.1 bits (67), Expect = 0.37
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 176 ESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK 224
S L+ QK G V + +++ T A+VEF+ A++
Sbjct: 27 GGYSKDVLLRLLQKYGEVLNLVLSSKKPGT---AVVEFATVKAAELAVQ 72
>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 = 29.5 bits (67), Expect = 0.62
Identities = 13/66 (19%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNK---YALVEFSDQACVIPALKLNGTN 229
I + EL ++F+K G V + + + + + + F D+ V A+ ++ +
Sbjct: 17 GIPHNCGETELREYFKKFGVVTEVVM-IYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHD 75
Query: 230 LKGKTL 235
+ GK +
Sbjct: 76 IMGKKV 81
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 30.4 bits (69), Expect = 1.0
Identities = 14/115 (12%), Positives = 33/115 (28%), Gaps = 6/115 (5%)
Query: 256 QREIEEAMSRVKEAQNMISAAIDPVIGILSKDKKKSHSPVRHLVIVLIVVDVALDLALEI 315
+ +++E +G S + P+R +L +
Sbjct: 3 HHHHHHSSPKIEERTYPPQIPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNT 62
Query: 316 GDDLEVVVRDVGHVREEDQDHVVDVLCLVIVRDPHVARDVHAPDHASVHLDVMMI 370
L + G +++VV L ++ A P H+ +++
Sbjct: 63 LKKLLRFSVEAG---GLTEENVVGKLQEILCDMLPSADKWQEPIHSKY---IVLF 111
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 29.3 bits (65), Expect = 1.1
Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 4/66 (6%)
Query: 173 NIEESVSPQELVDFFQKVGTVNYIRFCTRENDTNKYALVEFSDQACVIPALK-LNGTNLK 231
N ++ L VG V I + N A+VEF C A LNG ++
Sbjct: 32 NPLYPITVDVLYTVCNPVGKVQRIV-IFKRNGI--QAMVEFESVLCAQKAKAALNGADIY 88
Query: 232 GKTLQM 237
+
Sbjct: 89 AGCCTL 94
>1bf6_A Phosphotriesterase homology protein; hypothetical protein; 1.70A
{Escherichia coli} SCOP: c.1.9.3
Length = 291
Score = 30.0 bits (67), Expect = 1.2
Identities = 11/59 (18%), Positives = 23/59 (38%), Gaps = 3/59 (5%)
Query: 297 HLVIVLIVVDVALDLALEIGDDLEVVVRDVGHVREEDQDHVVDVLCLVIVRDPHVARDV 355
HL I L +D L D + +++ + +V+++ + R+ DV
Sbjct: 13 HLHIDLSGFKNNVDCRL---DQYAFICQEMNDLMTRGVRNVIEMTNRYMGRNAQFMLDV 68
>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 = 27.3 bits (61), Expect = 3.8
Identities = 7/53 (13%), Positives = 20/53 (37%), Gaps = 5/53 (9%)
Query: 16 VANIAPQATRDQMQTLFGYLGKVEDLRLYPIARDVSIPVQSR-ICYVKFFDEK 67
+ I ++ LF GK+ +L + +D + ++ + + +
Sbjct: 18 IGQIPRNLDEKDLKPLFEEFGKIYELT---VLKD-RFTGMHKGCAFLTYCERE 66
>2e2a_A Protein (enzyme IIA); helical bundles, PTS, transferase,
phosphotransferase system; 2.10A {Lactococcus lactis}
SCOP: a.7.2.1 PDB: 1e2a_A
Length = 105
Score = 27.1 bits (60), Expect = 3.9
Identities = 15/78 (19%), Positives = 31/78 (39%), Gaps = 10/78 (12%)
Query: 248 EAKS------NEAAQREIEEAMSRVKEAQNMISAAIDPVIGILSKDKKKSHSPVRHLVI- 300
+A+S A + +A S V EA + I+ A G+L+++ P ++
Sbjct: 19 DARSKLLEALKAAENGDFAKADSLVVEAGSCIAEAHSSQTGMLAREASGEELPYSVTMMH 78
Query: 301 ---VLIVVDVALDLALEI 315
L+ + D+ +
Sbjct: 79 GQLHLMTTILLKDVIHHL 96
>2w1s_A Hyaluronoglucosaminidase; hexosaminidase, family 32 carbohydrate
binding module, toxin, secreted, virulence, hydrolase,
glycosidase; HET: MSE BTB; 1.45A {Clostridium
perfringens} PDB: 2w1q_A* 2w1u_A* 2wdb_A*
Length = 192
Score = 28.1 bits (62), Expect = 4.2
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 4/73 (5%)
Query: 168 TLVAINIEESVSPQELVDF-FQKVGTVNYIRFCTRENDTNKYALVEF---SDQACVIPAL 223
T+ + + + +++++ F+ + YIR EN EF SD+
Sbjct: 112 TIKEYDKTGAPAGKDVIEESFETPISAKYIRLTNMENINKWLTFSEFAIVSDELENAGNK 171
Query: 224 KLNGTNLKGKTLQ 236
+ TN + L
Sbjct: 172 ENVYTNTELDLLS 184
>1wcr_A PTS system, N, N'-diacetylchitobiose-specific IIA component;
mutagenesis, transferase, sugar transport,
phosphotransferase; NMR {Escherichia coli} PDB: 2wy2_A
2wwv_A
Length = 103
Score = 27.1 bits (60), Expect = 4.3
Identities = 12/78 (15%), Positives = 33/78 (42%), Gaps = 10/78 (12%)
Query: 248 EAKS------NEAAQREIEEAMSRVKEAQNMISAAIDPVIGILSKDKKKSHSPVRHLVI- 300
+A+S +A Q + A + + +++ ++ A ++ D + V +++
Sbjct: 17 QARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVH 76
Query: 301 ---VLIVVDVALDLALEI 315
L+ +A +L E+
Sbjct: 77 AQLHLMTSMLARELITEL 94
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 25.9 bits (58), Expect = 5.9
Identities = 8/66 (12%), Positives = 26/66 (39%), Gaps = 8/66 (12%)
Query: 174 IEESVSPQELVDFFQKVGTVNYIRFCT--RENDTNK---YALVEFSDQACVIPALKLNGT 228
+ + + +++ +F++ G + + TN+ + V F + V +++
Sbjct: 7 LSVNTTVEDVKHYFEQFGK---VDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFH 63
Query: 229 NLKGKT 234
+ K
Sbjct: 64 EINNKM 69
>3k1s_A PTS system, cellobiose-specific IIA component; all alpha protein,
spectrin repeat-like, transferase, structural genomics;
HET: MSE; 2.30A {Bacillus anthracis}
Length = 109
Score = 26.7 bits (59), Expect = 6.9
Identities = 15/78 (19%), Positives = 31/78 (39%), Gaps = 10/78 (12%)
Query: 248 EAKS------NEAAQREIEEAMSRVKEAQNMISAAIDPVIGILSKDKKKSHSPVRHLVI- 300
A+S A Q ++ EA + +A+ I+ A ++ + + + + L+I
Sbjct: 21 NARSFAMEALQFAKQGKMAEADEAMVKAKEAINEAHHFQTELIQSEARGEKTEISVLLIH 80
Query: 301 ---VLIVVDVALDLALEI 315
L+ +LA E
Sbjct: 81 AQDHLMNAITVKELAAEF 98
>2vc7_A Aryldialkylphosphatase; phosphotriesterase, promiscuous activities,
enzyme evolution, hyperthermophilic, lactonase,
hydrolase; HET: KCX GOL HT5; 2.05A {Sulfolobus
solfataricus} PDB: 2vc5_A*
Length = 314
Score = 27.3 bits (60), Expect = 8.4
Identities = 10/59 (16%), Positives = 18/59 (30%)
Query: 297 HLVIVLIVVDVALDLALEIGDDLEVVVRDVGHVREEDQDHVVDVLCLVIVRDPHVARDV 355
HL + V ++ V +V + +VD + + RD V
Sbjct: 24 HLRVFSEAVRQQWPHLYNEDEEFRNAVNEVKRAMQFGVKTIVDPTVMGLGRDIRFMEKV 82
>2pq7_A Predicted HD superfamily hydrolase; 104161995, HD domain,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.45A {Uncultured
thermotogales bacterium} SCOP: a.211.1.1
Length = 220
Score = 27.0 bits (59), Expect = 9.7
Identities = 10/63 (15%), Positives = 22/63 (34%), Gaps = 6/63 (9%)
Query: 262 AMSRVK--EAQNMISAAIDPVIGILSKDKKKSHSPVRHLVIVLIVVDVALDLALEIGDDL 319
M+ + E + ++ V +H + H V++ A ++A DL
Sbjct: 1 GMNLTELMERIPHLREILNIVREAFKDYDDPAHD-ISH---TFRVMENASEIASREKCDL 56
Query: 320 EVV 322
+
Sbjct: 57 QKA 59
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
0.318 0.135 0.381
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,224,428
Number of extensions: 402359
Number of successful extensions: 1251
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1205
Number of HSP's successfully gapped: 234
Length of query: 405
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 309
Effective length of database: 4,021,377
Effective search space: 1242605493
Effective search space used: 1242605493
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.1 bits)