RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4441
(249 letters)
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A
Length = 282
Score = 59.1 bits (142), Expect = 1e-10
Identities = 36/181 (19%), Positives = 60/181 (33%), Gaps = 7/181 (3%)
Query: 66 AVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER-VAYVCFR 123
AV + P+ + ++ L+ K + +K +LY + +FG L I +S L R A+V F+
Sbjct: 2 AVPETRPN-HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFK 60
Query: 124 SAEDARDAKHSKPRIILYDKVAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRSPVLE 183
A +A S YDK + + S ++ + R P +
Sbjct: 61 EVSSATNALRSMQGFPFYDKPMRIQYAK----TDSDIIAKMKGTFVERDRKREKRKPKSQ 116
Query: 184 RRPGLPPPLPHPGERPYGYGPPVLRHEFRRDIPPHHVVLPHHEFLPRGPPLHHIPPHHPT 243
P + G P ++ P PP IPP
Sbjct: 117 ETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPPGLA 176
Query: 244 Y 244
Sbjct: 177 P 177
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 45.7 bits (109), Expect = 5e-07
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 3/85 (3%)
Query: 66 AVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER-VAYVCFR 123
AV + P+ + ++ L+ K + +K +L+ + +FG L I +S L R A+V F+
Sbjct: 1 AVPETRPN-HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFK 59
Query: 124 SAEDARDAKHSKPRIILYDKVAVVD 148
A +A S YDK +
Sbjct: 60 EVSSATNALRSMQGFPFYDKPMRIQ 84
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 43.0 bits (101), Expect = 1e-05
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 3/86 (3%)
Query: 65 EAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER-VAYVCF 122
PS +V+ ++ ++P+ E ++ LY GD L I + D AY+ F
Sbjct: 21 STPPHTEPS-QVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVF 79
Query: 123 RSAEDARDAKHSKPRIILYDKVAVVD 148
+ E A+ + V+
Sbjct: 80 ATQESAQAFVEAFQGYPFQGNPLVIT 105
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 40.8 bits (95), Expect = 6e-05
Identities = 23/107 (21%), Positives = 35/107 (32%), Gaps = 6/107 (5%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAED 127
D KVL +S +P + D LY G + + + A V F S
Sbjct: 17 DDPSGGNKVLLLSIQNP--LYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLC 74
Query: 128 ARDAKHSKPRIILYDKVAVVDPVYETHAS----RSRPRSRSYSPPPP 170
A+ AK + +Y + Y R+ S Y+ P
Sbjct: 75 AQKAKAALNGADIYAGCCTLKIEYARPTRLNVIRNDNDSWDYTKPYL 121
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 39.7 bits (92), Expect = 4e-04
Identities = 35/226 (15%), Positives = 53/226 (23%), Gaps = 25/226 (11%)
Query: 24 YDDSSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALH 83
YDD + R P + + + + L + L
Sbjct: 21 YDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIA---LYIGNLT 77
Query: 84 PKASDELIKDTLYREYKKFGDLSIRLSHDLDERV-------AYVCFRSAEDARDAKHSKP 136
+DE L G I + R A V S ++ P
Sbjct: 78 WWTTDE----DLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 133
Query: 137 RIILYDKVAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRSPVLERRPGLPPPLPHPG 196
+ L+ + VV PV + S+ +SR + + P R P G
Sbjct: 134 KRELHGQNPVVTPVNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRG 193
Query: 197 ERPYGYGPPVLRHEFRRDIPPHHVVLPHHEFLPRGPPLHHIPPHHP 242
P P P P HH
Sbjct: 194 RFPGAVPGGDRFPGPAGPGGP-----------PPPFPAGQTHHHHH 228
>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 = 37.3 bits (87), Expect = 4e-04
Identities = 11/62 (17%), Positives = 28/62 (45%), Gaps = 7/62 (11%)
Query: 72 PSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERVAYVCFRSAEDARD 130
+ L V L ++ +++ Y +FG++ +I + ++ A++ F + + A
Sbjct: 10 KTITTLYVGGLGDTITETDLRNHFY----QFGEIRTITVVQR--QQCAFIQFATRQAAEV 63
Query: 131 AK 132
A
Sbjct: 64 AA 65
>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 = 39.2 bits (92), Expect = 4e-04
Identities = 17/96 (17%), Positives = 29/96 (30%), Gaps = 9/96 (9%)
Query: 41 RARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYK 100
+ R P +P + P S L + L +D+ +K+ L
Sbjct: 81 KIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELL----T 136
Query: 101 KFGDL-SIRLSHDLDERV----AYVCFRSAEDARDA 131
FG L + L D + A+ + A
Sbjct: 137 SFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 172
>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 = 38.8 bits (91), Expect = 9e-04
Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 7/73 (9%)
Query: 63 TREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER---VA 118
++ + LCV L P +D D L R +L+ D + A
Sbjct: 173 DAGQLTPALLHSRCLCVDRLPPGFNDV---DALCRALSAVHSPTFCQLACGQDGQLKGFA 229
Query: 119 YVCFRSAEDARDA 131
+ + +AE A +A
Sbjct: 230 VLEYETAEMAEEA 242
Score = 31.9 bits (73), Expect = 0.16
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 70 RPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDE----RVAYVCFRS 124
P+ +LCV+ L P + + ++ + + FG L + + +
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELV----RPFGSLERCFLVYSERTGQSKGYGFAEYMK 146
Query: 125 AEDARDAK 132
+ A AK
Sbjct: 147 KDSAARAK 154
Score = 28.0 bits (63), Expect = 2.4
Identities = 12/72 (16%), Positives = 27/72 (37%), Gaps = 7/72 (9%)
Query: 62 RTREAVSDR-PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYV 120
R R ++R + + + + L +++ + D L + + D + A+V
Sbjct: 9 RKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLL----SDYELKYCFV--DKYKGTAFV 62
Query: 121 CFRSAEDARDAK 132
+ E A A
Sbjct: 63 TLLNGEQAEAAI 74
>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 = 38.4 bits (90), Expect = 0.001
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 9/63 (14%)
Query: 75 KVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER-----VAYVCFRSAEDA 128
+ + + L + DE + L ++ FG + I + E A++ F + + A
Sbjct: 211 REIMIRNLSTELLDE---NLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSA 267
Query: 129 RDA 131
A
Sbjct: 268 ERA 270
Score = 31.9 bits (73), Expect = 0.16
Identities = 19/77 (24%), Positives = 27/77 (35%), Gaps = 9/77 (11%)
Query: 77 LCVSALHPKASDELIKDTLYREYKKFGD--LSIRLSHDLD---ERVAYVCFRSAEDARDA 131
L ++ P + I+D L + LSIRL R AY+ S EDAR
Sbjct: 120 LWMTNFPPSYTQRNIRDLL----QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 175
Query: 132 KHSKPRIILYDKVAVVD 148
+ + V
Sbjct: 176 VEKLNGLKIEGYTLVTK 192
Score = 31.1 bits (71), Expect = 0.30
Identities = 13/77 (16%), Positives = 26/77 (33%), Gaps = 12/77 (15%)
Query: 82 LHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDE--RVAYVCFRSAEDARDA--KHSKP 136
L + + K G + + ++ L + R A + F + A A K K
Sbjct: 49 LPKSYNQNKVYKYF----KHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHK- 103
Query: 137 RIILYDKVAVVDPVYET 153
++ +V + E
Sbjct: 104 --VVGQNEIIVSHLTEC 118
>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 = 38.1 bits (88), Expect = 0.001
Identities = 22/140 (15%), Positives = 41/140 (29%), Gaps = 11/140 (7%)
Query: 42 ARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKK 101
+ GR + VL VS L+P+ +L+ +
Sbjct: 3 SSHHHHHHSSGLVPRGSHMGRIAIPGLAGAGN-SVLLVSNLNPERVTP---QSLFILFGV 58
Query: 102 FGD-LSIRLSHDLDERVAYVCFRSAEDARDAKHSKPRIILYDKVAVVDPVYETHASRSRP 160
+GD +++ + + A V A+ A L+ K P+ T +
Sbjct: 59 YGDVQRVKILFN-KKENALVQMADGNQAQLAMSHLNGHKLHGK-----PIRITLSKHQNV 112
Query: 161 RSRSYSPPPPEYDRYYSRSP 180
+ + Y SP
Sbjct: 113 QLPREGQEDQGLTKDYGNSP 132
Score = 26.5 bits (58), Expect = 8.2
Identities = 26/124 (20%), Positives = 44/124 (35%), Gaps = 11/124 (8%)
Query: 11 PLRNKRTRSSLGRYDDSSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDR 70
L K R +L ++ + R E ++ SP R+ +
Sbjct: 96 KLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGN-SPLHRFKKPGSKNFQNIF------ 148
Query: 71 PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAEDARD 130
PPS L +S + P S+E +K L+ G + D ++A + S E+A
Sbjct: 149 PPS-ATLHLSNIPPSVSEEDLKV-LFSSN--GGVVKGFKFFQKDRKMALIQMGSVEEAVQ 204
Query: 131 AKHS 134
A
Sbjct: 205 ALID 208
>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 = 35.8 bits (83), Expect = 0.003
Identities = 23/99 (23%), Positives = 33/99 (33%), Gaps = 16/99 (16%)
Query: 37 GHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLY 96
G + R P + D + K+L VS L SD I++
Sbjct: 6 GGQQMGRDPDKWQ-------HDLFDSGCGGGEGVETGAKLL-VSNLDFGVSDADIQE--- 54
Query: 97 REYKKFGDL-SIRLSHDLDER---VAYVCFRSAEDARDA 131
+ +FG L + +D R A V F DA A
Sbjct: 55 -LFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKA 92
>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 = 35.4 bits (82), Expect = 0.003
Identities = 13/72 (18%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 62 RTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERVAYV 120
R + V+ P + + +D + + + FG + IR+ + + ++V
Sbjct: 13 RFEDVVNQSSPKNCTVYCGGIASGLTD----QLMRQTFSPFGQIMEIRVFPE--KGYSFV 66
Query: 121 CFRSAEDARDAK 132
F + E A A
Sbjct: 67 RFSTHESAAHAI 78
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 34.9 bits (81), Expect = 0.004
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 17/73 (23%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERV------AYVC 121
D S K+L V L S+E + +E+ ++ ERV A+V
Sbjct: 9 EDTMSSVKILYVRNLMLSTSEE----MIEKEFNNIKPGAV-------ERVKKIRDYAFVH 57
Query: 122 FRSAEDARDAKHS 134
F + EDA +A +
Sbjct: 58 FSNREDAVEAMKA 70
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 36.0 bits (83), Expect = 0.005
Identities = 29/131 (22%), Positives = 39/131 (29%), Gaps = 29/131 (22%)
Query: 25 DDSSDERLSPERGHRSRARSPPSPRPRYAY--------------------EYRDEYGRTR 64
D S D+ + R R R R R A D +
Sbjct: 20 DMSLDDIIKLNRNQRRVNRGGGPRRNRPAIARGGRNRPAPYSRPKPLPDKWQHDLFDSGC 79
Query: 65 EAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER---VAYV 120
K+L VS L SD I++ + +FG L + +D R A V
Sbjct: 80 GGGEGVETGAKLL-VSNLDFGVSDADIQE----LFAEFGTLKKAAVDYDRSGRSLGTADV 134
Query: 121 CFRSAEDARDA 131
F DA A
Sbjct: 135 HFERRADALKA 145
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 35.0 bits (80), Expect = 0.007
Identities = 22/112 (19%), Positives = 40/112 (35%), Gaps = 8/112 (7%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDERVAYVCFRSAE 126
VL + + + D L++ + KFG L I ++ A + +
Sbjct: 20 MAMAGQSPVLRIIVENL--FYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPV 77
Query: 127 DARDAKHSKPRIILYDKVAVVDPVYETHASRSRP----RSRSYSPPP-PEYD 173
A+ AK S +Y+ + + S + +SR Y+ P P D
Sbjct: 78 SAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNNDKSRDYTRPDLPSGD 129
>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 = 34.6 bits (80), Expect = 0.007
Identities = 23/96 (23%), Positives = 33/96 (34%), Gaps = 15/96 (15%)
Query: 40 SRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREY 99
SR + P D + + K+L VS L SD I++ +
Sbjct: 2 SRPKQLPDKWQH------DLFDSGFGGGAGVETGGKLL-VSNLDFGVSDADIQE----LF 50
Query: 100 KKFGDL-SIRLSHDLDER---VAYVCFRSAEDARDA 131
+FG L + +D R A V F DA A
Sbjct: 51 AEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKA 86
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Length = 103
Score = 34.2 bits (79), Expect = 0.007
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 9/65 (13%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERVAYVCFRSAE 126
S KVL V L ++E+++ + +FG L ++ D A++ F +
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEK----AFSQFGKLERVKKLKD----YAFIHFDERD 56
Query: 127 DARDA 131
A A
Sbjct: 57 GAVKA 61
>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 = 35.6 bits (81), Expect = 0.013
Identities = 30/208 (14%), Positives = 56/208 (26%), Gaps = 55/208 (26%)
Query: 2 KRSSSRDTPPLRNKRTRSSLGRYDDSSDERLSPE--RGH-------RSRARSPPSPRPRY 52
S + L +S L +Y D + L E + R + +
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 53 AYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSI----- 107
+ D+ E+ ++ L P YR+ F LS+
Sbjct: 348 KHVNCDKLTTIIES-----------SLNVLEP---------AEYRKM--FDRLSVFPPSA 385
Query: 108 ------------RLSHDLDERVAYVCFRSAEDARDAKHSKPRI--ILYDKVAVVDPVYET 153
+ V + + + K S I I + ++ Y
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 154 HAS--RSRPRSRSYSP---PPPEYDRYY 176
H S +++ PP D+Y+
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Score = 27.9 bits (61), Expect = 3.5
Identities = 23/148 (15%), Positives = 38/148 (25%), Gaps = 28/148 (18%)
Query: 92 KDTLYREYKKF-GDLSIRLSHDLDERVAYVCFRSAE--DARDAKHSKPRI-----ILYDK 143
KD L F + + D+ + + E +K + L K
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSI----LSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 144 ---------VAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRSPVLERRPGLPPPLPH 194
V+ Y+ S + R S Y R L +
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR---LYNDNQVFAKYNV 131
Query: 195 PGERPYGYGPPVLRHEFRRDIPPHHVVL 222
+PY LR P +V++
Sbjct: 132 SRLQPY----LKLRQALLELRPAKNVLI 155
>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 = 0.013
Identities = 14/99 (14%), Positives = 31/99 (31%), Gaps = 8/99 (8%)
Query: 67 VSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAE 126
V+ L S L +K G + L ++ ++ +R+ E
Sbjct: 20 TVSYATQSLVVANGGLGNGVSRN----QLLPVLEKCGLVD-ALLMPPNKPYSFARYRTTE 74
Query: 127 DARDAK---HSKPRIILYDKVAVVDPVYETHASRSRPRS 162
+++ A + K + + + + S P S
Sbjct: 75 ESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWSGPSS 113
>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 = 33.8 bits (78), Expect = 0.014
Identities = 20/97 (20%), Positives = 37/97 (38%), Gaps = 15/97 (15%)
Query: 71 PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERV----AYVCFRSA 125
P+ KVL + L P+ ++ L + +F + + + A++ F +
Sbjct: 23 EPN-KVLYLKNLSPRVTER----DLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNK 77
Query: 126 EDARDAKHSKPRIILYDKVAVVDPVYETHASRSRPRS 162
E A A H LY K+ V++ + RS
Sbjct: 78 EIAWQALHLVNGYKLYGKILVIE-----FGKNKKQRS 109
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 33.5 bits (77), Expect = 0.015
Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 9/66 (13%)
Query: 71 PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER----VAYVCFRSA 125
K + + L+ + +KD +K+G++ + + R +A V F S
Sbjct: 3 QIPLKEVTFARLNDNVRETFLKDMC----RKYGEVEEVEILLHPRTRKHLGLARVLFTST 58
Query: 126 EDARDA 131
A++
Sbjct: 59 RGAKET 64
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
2adb_A
Length = 164
Score = 34.3 bits (78), Expect = 0.017
Identities = 25/142 (17%), Positives = 46/142 (32%), Gaps = 22/142 (15%)
Query: 70 RPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDERVAYVCFRSAEDA 128
VL + + + D L++ + KFG L I ++ A + + A
Sbjct: 40 MAGQSPVLRIIVENL--FYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSA 97
Query: 129 RDAKHSKPRIILYDKVAVVDPVYETHASRSRP----RSRSYSPPPPEYDRYYSRSPVLER 184
+ AK S +Y+ + + S + +SR Y+ P P +
Sbjct: 98 QHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNNDKSRDYTRPDL---------PSGDS 148
Query: 185 RPGLPPPLPHPGERPYGYGPPV 206
+P L + G V
Sbjct: 149 QPSLDQTMAAAF------GLSV 164
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 32.4 bits (74), Expect = 0.025
Identities = 12/64 (18%), Positives = 27/64 (42%), Gaps = 6/64 (9%)
Query: 70 RPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLS--IRLSHDLDERVAYVCFRSAED 127
+ + L + + P E++ L ++G + +++ D + V V + S +
Sbjct: 11 KRQRIRKLQIRNIPPHLQWEVLDSLL----VQYGVVESCEQVNTDSETAVVNVTYSSKDQ 66
Query: 128 ARDA 131
AR A
Sbjct: 67 ARQA 70
>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 = 32.3 bits (74), Expect = 0.033
Identities = 15/70 (21%), Positives = 26/70 (37%), Gaps = 5/70 (7%)
Query: 65 EAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER---VAYVC 121
S P ++ V + S + I D + Y+ S+ L ++ A V
Sbjct: 6 SGASSGKPGPTIIKVQNMPFTVSIDEILD-FFYGYQVIPG-SVCLKYNEKGMPTGEAMVA 63
Query: 122 FRSAEDARDA 131
F S ++A A
Sbjct: 64 FESRDEATAA 73
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 33.0 bits (75), Expect = 0.037
Identities = 22/154 (14%), Positives = 42/154 (27%), Gaps = 11/154 (7%)
Query: 24 YDDSSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALH 83
+ SS L E + PP R + + ++ S + V +
Sbjct: 5 HHHSSGVDLGTENLYFQSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFS 64
Query: 84 PKASDELIKDTLYREYKKFGDLSIRLSHDLDERV-------AYVCFRSAEDARDAKHSKP 136
+D+ L + + G + + R A V S P
Sbjct: 65 WWTTDQ----QLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLP 120
Query: 137 RIILYDKVAVVDPVYETHASRSRPRSRSYSPPPP 170
+L + V P + S+ ++R
Sbjct: 121 GKVLNGEKVDVRPATRQNLSQFEAQARKRECVRV 154
>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 = 32.9 bits (75), Expect = 0.038
Identities = 16/97 (16%), Positives = 30/97 (30%), Gaps = 7/97 (7%)
Query: 38 HRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYR 97
H S S + G + + + + + L KA++ I +
Sbjct: 10 HSSGLVPRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFF-- 67
Query: 98 EYKKFGDLSIRLSHDLDER---VAYVCFRSAEDARDA 131
+ + + D R A V F + E+A A
Sbjct: 68 --SPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAA 102
>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 = 32.6 bits (74), Expect = 0.038
Identities = 20/113 (17%), Positives = 36/113 (31%), Gaps = 4/113 (3%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER---V 117
G + + V+ + L S E +++ L G + + + R
Sbjct: 4 GSSGMMLGPEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGE 63
Query: 118 AYVCFRSAEDARDAKHSKPRIILYDKVAVVDPVYETHASRSRPRSRSYSPPPP 170
A+V S +D + A K R + + V + T S S P
Sbjct: 64 AFVELESEDDVKLAL-KKDRESMGHRYIEVFKSHRTEMDWVLKHSGPNSASGP 115
>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 = 33.0 bits (76), Expect = 0.045
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 8/59 (13%)
Query: 77 LCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER---VAYVCFRSAEDARDA 131
L + + K ++ I+ FG + R+ D A+V F + A+ A
Sbjct: 98 LFIGMISKKCTENDIRVMF----SSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTA 152
>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 = 32.4 bits (74), Expect = 0.053
Identities = 22/111 (19%), Positives = 36/111 (32%), Gaps = 13/111 (11%)
Query: 27 SSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKA 86
SS G R S + R P L V L
Sbjct: 3 SSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSRHVGNRA----NPDPNCCLGVFGLSLYT 58
Query: 87 SDELIKDTLYREYKKFGDL-SIRLSHDLDERV----AYVCFRSAEDARDAK 132
++ L + K+G + + + +D R A+V F + +DA++AK
Sbjct: 59 TE----RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105
>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 = 32.6 bits (75), Expect = 0.055
Identities = 18/114 (15%), Positives = 35/114 (30%), Gaps = 29/114 (25%)
Query: 43 RSPPSPRPR-YAY-EYRDE--------------YGRT----REAVSDRPPSYKVLCVSAL 82
+ + + +A+ E+R G++ R P L + L
Sbjct: 43 LAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGL 102
Query: 83 HPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERV----AYVCFRSAEDARDA 131
+D+ +K+ L FG L + L D + A+ + A
Sbjct: 103 PNYLNDDQVKELL----TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 152
>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 = 32.8 bits (74), Expect = 0.058
Identities = 13/124 (10%), Positives = 34/124 (27%), Gaps = 11/124 (8%)
Query: 11 PLRNKRTRSSLGRYDDSSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDR 70
+ ++ + + + + R + +A +R
Sbjct: 66 FMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNN-------RFSTPEQAAKNR 118
Query: 71 P-PSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER--VAYVCFRSAED 127
VL + ++E + + E S+++ ER + + S D
Sbjct: 119 IQHPSNVLHFFNAPLEVTEENFFE-ICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSD 177
Query: 128 ARDA 131
A +
Sbjct: 178 ALET 181
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 32.3 bits (74), Expect = 0.091
Identities = 14/80 (17%), Positives = 35/80 (43%), Gaps = 9/80 (11%)
Query: 57 RDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDE 115
+ + +++ ++ + V+++H SD+ IK ++ FG S L+ D
Sbjct: 108 IGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSV----FEAFGKIKSATLARDPTT 163
Query: 116 RV----AYVCFRSAEDARDA 131
++ + A+ ++DA
Sbjct: 164 GKHKGYGFIEYEKAQSSQDA 183
Score = 29.2 bits (66), Expect = 0.89
Identities = 15/100 (15%), Positives = 31/100 (31%), Gaps = 14/100 (14%)
Query: 82 LHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER----VAYVCFRSAEDARDAKHSKP 136
++ + ++ I+ + FG SI +S D A+V + E A+ A
Sbjct: 36 IYYELGEDTIRQA----FAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN 91
Query: 137 RIILYDKVAVVDPVYETHASRSRPRSRSYSPPPPEYDRYY 176
++L + + S E +
Sbjct: 92 SVMLGGR-----NIKVGRPSNIGQAQPIIDQLAEEARAFN 126
>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 = 31.5 bits (71), Expect = 0.11
Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 3/98 (3%)
Query: 38 HRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYR 97
H + P + + GR + V+ + L S E +++ L
Sbjct: 8 HHHSSGLVPRGSHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSD 67
Query: 98 EYKKFGDLSIRLSHDLDER---VAYVCFRSAEDARDAK 132
G + + + R A+V S +D + A
Sbjct: 68 CTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMAL 105
>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 = 30.7 bits (70), Expect = 0.11
Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 70 RPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAEDAR 129
+ L V L P S L RE+ +FG + + H + AY+ + S + A+
Sbjct: 13 KANPTTRLWVGGLGPNTSLA----ALAREFDRFGSIR-TIDHVKGDSFAYIQYESLDAAQ 67
Query: 130 DAKHS 134
A
Sbjct: 68 AACAK 72
>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 = 30.8 bits (70), Expect = 0.12
Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 7/71 (9%)
Query: 64 REAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERV---AYV 120
S + + + + L +A++ I + + + + D RV A V
Sbjct: 5 SSGSSFQSTTGHCVHMRGLPYRATENDIYNFF----SPLNPMRVHIEIGPDGRVTGEADV 60
Query: 121 CFRSAEDARDA 131
F + EDA A
Sbjct: 61 EFATHEDAVAA 71
>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 = 30.3 bits (69), Expect = 0.14
Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 5/70 (7%)
Query: 65 EAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER---VAYVC 121
S P V+ V + S + I D + Y+ S+ L ++ A V
Sbjct: 6 SGSSSGKPGPTVIKVQNMPFTVSIDEILD-FFYGYQVIPG-SVCLKYNEKGMPTGEAMVA 63
Query: 122 FRSAEDARDA 131
F S ++A A
Sbjct: 64 FESRDEATAA 73
>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 = 30.6 bits (69), Expect = 0.19
Identities = 19/101 (18%), Positives = 28/101 (27%), Gaps = 9/101 (8%)
Query: 36 RGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTL 95
H S PR + R + S + + + L + E I
Sbjct: 4 SHHHHHHSSGLVPRGSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFF 63
Query: 96 YREYKKFG--DLSIRLSHDLDER---VAYVCFRSAEDARDA 131
I L D + + A+V F S E A A
Sbjct: 64 ----SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKA 100
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 30.4 bits (69), Expect = 0.19
Identities = 8/92 (8%), Positives = 24/92 (26%), Gaps = 14/92 (15%)
Query: 42 ARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKK 101
+++ P PP + + A++ +
Sbjct: 2 SQTIGLPPQVNPQAVDHIIRSA-------PPRVTTAYIGNIPHFATEADLIPLFQ----N 50
Query: 102 FGDL-SIRLSHDLDERVAYVCFRSAEDARDAK 132
FG + + + + ++ + + E A
Sbjct: 51 FGFILDFKHYPE--KGCCFIKYDTHEQAAVCI 80
>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 = 31.6 bits (72), Expect = 0.21
Identities = 23/134 (17%), Positives = 42/134 (31%), Gaps = 24/134 (17%)
Query: 79 VSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER---VAYVCFRSAEDARDA--- 131
V L P S+EL++ + +FG + D R +V F + AR A
Sbjct: 101 VKNLSPVVSNELLEQA----FSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALER 156
Query: 132 -KHSKPRIILYDKVAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRSPVLERRPGLPP 190
+ + +V+P + P ++ ++ + PP
Sbjct: 157 CGDGAFLLTTTPRPVIVEP-------MEQFDDEDGLP-----EKLMQKTQQYHKEREQPP 204
Query: 191 PLPHPGERPYGYGP 204
PG + Y
Sbjct: 205 RFAQPGTFEFEYAS 218
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 29.8 bits (67), Expect = 0.26
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 4/51 (7%)
Query: 88 DELIKDTLYREYKKFGD-LSIRLSHDLDER---VAYVCFRSAEDARDAKHS 134
DE ++ +K+G+ + + +L + YV FR EDA A
Sbjct: 37 DEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVID 87
>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 = 30.6 bits (69), Expect = 0.35
Identities = 25/124 (20%), Positives = 43/124 (34%), Gaps = 11/124 (8%)
Query: 11 PLRNKRTRSSLGRYDDSSDERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDR 70
L K R +L ++ + R E ++ P R+ +
Sbjct: 65 KLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNS-PLHRFKKPGSKNFQNIF------ 117
Query: 71 PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAEDARD 130
PPS L +S + P S+E +K L+ G + D ++A + S E+A
Sbjct: 118 PPS-ATLHLSNIPPSVSEEDLKV-LFSSN--GGVVKGFKFFQKDRKMALIQMGSVEEAVQ 173
Query: 131 AKHS 134
A
Sbjct: 174 ALID 177
>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 = 29.5 bits (67), Expect = 0.35
Identities = 12/67 (17%), Positives = 22/67 (32%), Gaps = 7/67 (10%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERV--AYVCFRS 124
+ + L V L ++ LI + + G S ++ + +V F
Sbjct: 9 MEDDGQPRTLYVGNLSRDVTEVLILQL----FSQIGPCKSCKMITEHTSNDPYCFVEFYE 64
Query: 125 AEDARDA 131
DA A
Sbjct: 65 HRDAAAA 71
>3tyw_A Putative cytochrome P450; P450 monooxygenase, oxidoreductase; HET:
HEM; 2.90A {Streptomyces coelicolor}
Length = 417
Score = 31.1 bits (71), Expect = 0.36
Identities = 15/48 (31%), Positives = 17/48 (35%)
Query: 177 SRSPVLERRPGLPPPLPHPGERPYGYGPPVLRHEFRRDIPPHHVVLPH 224
SP PG PP P +R + P R D P V LP
Sbjct: 4 PESPTASHTPGATPPRDFPIQRGCPFAAPAEYAALRTDDPVARVTLPT 51
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 30.1 bits (68), Expect = 0.37
Identities = 18/92 (19%), Positives = 33/92 (35%), Gaps = 10/92 (10%)
Query: 45 PPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD 104
+ G + + + V L + D+++ + FGD
Sbjct: 35 AYTCVNCTERHVDGGSGGSGGSGGSATTKRVLY-VGGLAEEVDDKVLHAA----FIPFGD 89
Query: 105 L-SIRLSHDLD-ER---VAYVCFRSAEDARDA 131
+ I++ D + E+ A+V F AEDA A
Sbjct: 90 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
>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 = 30.3 bits (69), Expect = 0.41
Identities = 14/75 (18%), Positives = 24/75 (32%), Gaps = 9/75 (12%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER--- 116
G S+ + + + L+P S +K + + + +
Sbjct: 1 GSHMVEGSESTTPFNLF-IGNLNPNKSVAELKVAI----SELFAKNDLAVVDVRTGTNRK 55
Query: 117 VAYVCFRSAEDARDA 131
YV F SAED A
Sbjct: 56 FGYVDFESAEDLEKA 70
Score = 29.1 bits (66), Expect = 1.0
Identities = 11/74 (14%), Positives = 30/74 (40%), Gaps = 10/74 (13%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER---V 117
+ + S + + + L L +++ +K+ ++ ++ + D + +
Sbjct: 86 EKPKGRDSKKVRAARTLLAKNLSFNITEDELKEV----FEDALEIRLV---SQDGKSKGI 138
Query: 118 AYVCFRSAEDARDA 131
AY+ F+S DA
Sbjct: 139 AYIEFKSEADAEKN 152
>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 = 28.7 bits (65), Expect = 0.51
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 9/77 (11%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERV-- 117
P L V L ++ L + K+G + + + +D R
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTE----RDLREVFSKYGPIADVSIVYDQQSRRSR 57
Query: 118 --AYVCFRSAEDARDAK 132
A+V F + +DA++AK
Sbjct: 58 GFAFVYFENVDDAKEAK 74
>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 = 29.3 bits (66), Expect = 0.52
Identities = 16/91 (17%), Positives = 35/91 (38%), Gaps = 2/91 (2%)
Query: 87 SDELIKDTLYREYKKFGD-LSIRLSHDLDER-VAYVCFRSAEDARDAKHSKPRIILYDKV 144
++ + +Y + K+G IR+ + + R AYV + DA++A + ++
Sbjct: 17 PYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRY 76
Query: 145 AVVDPVYETHASRSRPRSRSYSPPPPEYDRY 175
VV A + + ++Y
Sbjct: 77 LVVLYYNANRAFQKMDTKKKEEQLKLLKEKY 107
>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 = 30.8 bits (69), Expect = 0.52
Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 15/48 (31%)
Query: 203 GPPV----LRHEFRRDIPPHHV-----------VLPHHEFLPRGPPLH 235
GPP L R+ P + + + FLP P H
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH 428
Score = 27.7 bits (61), Expect = 4.2
Identities = 23/168 (13%), Positives = 42/168 (25%), Gaps = 62/168 (36%)
Query: 36 RGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTL 95
R + + + P +E G PS +L +S L + + + T
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNE-G---------VPSP-MLSISNLTQEQVQDYVNKT- 356
Query: 96 YREYKKFGD-LSIRL--SHD-------------LDERVAYVCFRSAEDARDAKHS--KPR 137
+ G + I L L+ + S D S K +
Sbjct: 357 -NSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 138 I--------------ILYDKVAVVD-----------------PVYETH 154
+L +++ PVY+T
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF 463
Score = 27.3 bits (60), Expect = 6.5
Identities = 14/97 (14%), Positives = 29/97 (29%), Gaps = 28/97 (28%)
Query: 140 LYDK-VAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRS-PVLE--RRPGLPPPLPH- 194
LY +V + + A R+ + ++ +++ +LE P P +
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRT----TLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Query: 195 -------PG------------ERPYGYGPPVLRHEFR 212
P + G+ P LR +
Sbjct: 232 LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Score = 26.6 bits (58), Expect = 9.7
Identities = 11/73 (15%), Positives = 26/73 (35%), Gaps = 2/73 (2%)
Query: 56 YRDEYG-RTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLD 114
++D YG + V + P + + K E ++ + ++ +++
Sbjct: 1653 FKDTYGFSILDIVINNPVNLTIH-FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEIN 1711
Query: 115 ERVAYVCFRSAED 127
E FRS +
Sbjct: 1712 EHSTSYTFRSEKG 1724
>3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease,
homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus
musculus} PDB: 3u6f_B*
Length = 314
Score = 30.5 bits (68), Expect = 0.53
Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 2/59 (3%)
Query: 143 KVAVVDPVYETHASRSRPRSRSYSPPPPEYDRYYSRSPVLE--RRPGLPPPLPHPGERP 199
+ V P+Y T A+ R ++ + SP RRP PPP P
Sbjct: 225 PFSTVKPMYGTPATTGTTNLRPHAATATTPLATANGSPSNGRSRRPKSPPPEKVPEAPS 283
>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 = 29.5 bits (67), Expect = 0.59
Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 10/69 (14%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER----VAYVCF 122
+ + V+ L +D+ L + K+G + + D VA+V +
Sbjct: 84 GESIKDTNLY-VTNLPRTITDD----QLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 138
Query: 123 RSAEDARDA 131
E+A++A
Sbjct: 139 NKREEAQEA 147
>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 = 29.4 bits (66), Expect = 0.67
Identities = 33/150 (22%), Positives = 52/150 (34%), Gaps = 17/150 (11%)
Query: 36 RGHRSRARSPPSPRPRYAYEYRDEYGR-TREAVSDRPPSYKVLCVSALHPKASDELIKDT 94
+ RS + S +YRD++ R E L V L ++E
Sbjct: 7 KALRSDSYVELS-------QYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEE----Q 55
Query: 95 LYREYKKFGDL-SIRLSHDLDER----VAYVCFRSAEDARDAKHSKPRIILYDKVAVVDP 149
+Y + K GD+ I + D ++ +V + S DA +A L D++ D
Sbjct: 56 IYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW 115
Query: 150 VYETHASRSRPRSRSYSPPPPEYDRYYSRS 179
R R RS EY + Y
Sbjct: 116 DAGFKEGRQYGRGRSGGQVRDEYRQDYDAG 145
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 28.8 bits (65), Expect = 0.70
Identities = 13/72 (18%), Positives = 24/72 (33%), Gaps = 9/72 (12%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERVAY 119
G + S L V + + + + FG + +++ + A+
Sbjct: 18 GSHMHHRQEGELSNTRLFVRPFPLDVQESELNE----IFGPFGPMKEVKILNGF----AF 69
Query: 120 VCFRSAEDARDA 131
V F AE A A
Sbjct: 70 VEFEEAESAAKA 81
>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 = 28.4 bits (64), Expect = 0.72
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 82 LHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER---VAYVCFRSAEDARDA 131
L + +E+ LY + + G + + D + + +VCF+ E A
Sbjct: 24 LEARVREEI----LYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYA 73
>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 = 28.4 bits (64), Expect = 0.91
Identities = 20/115 (17%), Positives = 42/115 (36%), Gaps = 14/115 (12%)
Query: 61 GRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER--- 116
+ A+ V V+ L K + +K+ + G + + D D +
Sbjct: 3 SGSSGALQAGRLGSTVF-VANLDYKVGWKKLKEV----FSMAGVVVRADILEDKDGKSRG 57
Query: 117 VAYVCFRSAEDARDAKHSKPRIILYDKVAVVDPVYETHASRSRPRSRSYSPPPPE 171
+ V F + +A A +L+D+ P++ R+ P+ + P P+
Sbjct: 58 IGTVTFEQSIEAVQAISMFNGQLLFDR-----PMHVKMDERALPKGDFFPPERPQ 107
>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 = 28.6 bits (64), Expect = 1.1
Identities = 20/108 (18%), Positives = 41/108 (37%), Gaps = 9/108 (8%)
Query: 29 DERLSPERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASD 88
E+ +G + S R+E E R +L V+++H +A +
Sbjct: 27 KEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQE 86
Query: 89 ELIKDTLYREYKKFGDL-SIRLSHDLD-ERV---AYVCFRSAEDARDA 131
D + ++ +G++ +I L+ D A V + + + A A
Sbjct: 87 ----DEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein;
2.50A {Homo sapiens}
Length = 143
Score = 28.6 bits (64), Expect = 1.1
Identities = 14/85 (16%), Positives = 30/85 (35%), Gaps = 15/85 (17%)
Query: 87 SDELIKDTLYREYKKFGDL-SIRLSHDLDERV---------AYVCFRSAEDARDAKHSKP 136
+ + + L + ++ D S D R+ A++ + + A A
Sbjct: 54 AKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEAN 113
Query: 137 RIILYDKVAVVDPVYETHASRSRPR 161
+L+ K P+ A +RP+
Sbjct: 114 GYVLFGK-----PMVVQFARSARPK 133
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 27.8 bits (62), Expect = 1.2
Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 8/57 (14%)
Query: 79 VSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER---VAYVCFRSAEDARDA 131
+ A+ + IK+ L + G L+I++ L + +V F S E A+
Sbjct: 16 IKGFPTDATLDDIKEWL----EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 68
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 29.0 bits (64), Expect = 1.4
Identities = 16/105 (15%), Positives = 32/105 (30%), Gaps = 8/105 (7%)
Query: 34 PERGHRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKAS-----D 88
P+ + + E +Y + K L V + +
Sbjct: 94 PDEEDIGKLALRTEVLDCFGREKFADYREDMGGIGSFRKKNKTLYVGGIDGALNSKHLKP 153
Query: 89 ELIKDTLYREYKKFGDL-SIRLSHDLDERVAYVCFRSAEDARDAK 132
I+ + + + GD+ IR + +V F+ +A AK
Sbjct: 154 AQIESRIRFVFSRLGDIDRIRYVES--KNCGFVKFKYQANAEFAK 196
>2rau_A Putative esterase; NP_343859.1, putative lipase, structural
genomics, joint CEN structural genomics, JCSG; HET: PG4
UNL; 1.85A {Sulfolobus solfataricus P2}
Length = 354
Score = 29.2 bits (64), Expect = 1.5
Identities = 7/48 (14%), Positives = 12/48 (25%)
Query: 193 PHPGERPYGYGPPVLRHEFRRDIPPHHVVLPHHEFLPRGPPLHHIPPH 240
+R + H+ + VL G L I +
Sbjct: 25 IWKMKREDSPYDIISLHKVNLIGGGNDAVLILPGTWSSGEQLVTISWN 72
>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 = 27.9 bits (62), Expect = 1.6
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 9/64 (14%)
Query: 76 VLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER-------VAYVCFRSAED 127
++ V L + +D + + KFG + +++ AYV + +ED
Sbjct: 17 LVFVVGLSQRLADPEVLKR-PEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSED 75
Query: 128 ARDA 131
A A
Sbjct: 76 ALRA 79
>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 = 27.4 bits (61), Expect = 1.7
Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERV---AYVCFRS 124
S + + + L S E I + + + + L D R A+V F S
Sbjct: 9 SPDTANDGFVRLRGLPFGCSKEEIVQ-FFSGLEIVPN-GMTLPVDFQGRSTGEAFVQFAS 66
Query: 125 AEDARDA 131
E A A
Sbjct: 67 QEIAEKA 73
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 27.0 bits (60), Expect = 1.9
Identities = 9/52 (17%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 84 PKASDELIKDTLYREYKKFGDLSIRLSHDLDER----VAYVCFRSAEDARDA 131
E +K+ +++ + KFG + + ++ ++ + S A DA
Sbjct: 13 GPDRLEKLKNVIHKIFSKFGKI-TNDFYPEEDGKTKGYIFLEYASPAHAVDA 63
>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 = 27.9 bits (63), Expect = 2.0
Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 10/74 (13%)
Query: 63 TREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER----V 117
+ S ++ + V L+ DE +++ +K F LS + D+
Sbjct: 77 FQSQQSSSDDTFNLF-VGDLNVNVDDETLRNA----FKDFPSYLSGHVMWDMQTGSSRGY 131
Query: 118 AYVCFRSAEDARDA 131
+V F S +DA++A
Sbjct: 132 GFVSFTSQDDAQNA 145
>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 = 27.4 bits (61), Expect = 2.0
Identities = 13/75 (17%), Positives = 25/75 (33%), Gaps = 8/75 (10%)
Query: 60 YGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER--- 116
G + + + P + V + A + ++D ++ L D R
Sbjct: 3 SGSSGKPLPINPDDL-YVSVHGMPFSAMENDVRDFF----HGLRVDAVHLLKDHVGRNNG 57
Query: 117 VAYVCFRSAEDARDA 131
V F S +D +A
Sbjct: 58 NGLVKFLSPQDTFEA 72
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 27.4 bits (61), Expect = 2.1
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 88 DELIKDTLYREYKKFGD-LSIRLSHDLDERVAYVCFRSAEDARDAKHS 134
I++ L E KFG + L + VA V FR E+A +
Sbjct: 36 LNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQT 83
>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 = 27.2 bits (61), Expect = 2.1
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 8/47 (17%)
Query: 93 DTLYREYKKFGD-LSIRLSHDLDERVA-------YVCFRSAEDARDA 131
+TL + K G S +S ++ +V ++ E A+ A
Sbjct: 20 ETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 28.4 bits (63), Expect = 2.1
Identities = 17/95 (17%), Positives = 32/95 (33%), Gaps = 9/95 (9%)
Query: 154 HASRSRPRSRSYSPPPPEYDRY-YSRSPVLERRPGLPPPLPHPGERPYGYGPPVLRHEFR 212
H++ + PP +YDR + SP+ +PP G + YG+ P +
Sbjct: 28 HSASKGLPLNHAALPPTDYDRSPFVTSPI---SMTMPPHGSLQGYQTYGHFPS---RAIK 81
Query: 213 RDIPPHHVVLPHHEFLPRGPPLHHIPPHHPTYLKQ 247
+ P + E + + P +
Sbjct: 82 SEYPDPY--TSSPESIMGYSYMDSYQTSSPASIPH 114
>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 = 27.4 bits (61), Expect = 2.2
Identities = 16/108 (14%), Positives = 38/108 (35%), Gaps = 12/108 (11%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFG--DLSIRLSHDLDER---VAYVCF 122
D + ++ + + + + + ++ + D + + A V F
Sbjct: 9 GDVNSAKVCAHITNIPFSITKMDVLQ----FLEGIPVDENAVHVLVDNNGQGLGQALVQF 64
Query: 123 RSAEDARDAKHSKPRIILYDKVAVVDPV--YETHASRSRPRSRSYSPP 168
++ +DAR ++ R L + A V V + P ++ S P
Sbjct: 65 KNEDDARKSE-RLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSGP 111
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 27.3 bits (61), Expect = 2.3
Identities = 16/95 (16%), Positives = 32/95 (33%), Gaps = 10/95 (10%)
Query: 42 ARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKK 101
+ S S P + + P L + L + +D L +
Sbjct: 9 SASALSTSPLASVALSAAAAAAAGKQIEGPEGCN-LFIYHLPQEFTDT----DLASTFLP 63
Query: 102 FGD-LSIRLSHDLDERV----AYVCFRSAEDARDA 131
FG+ +S ++ D + +V F + + A+ A
Sbjct: 64 FGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVA 98
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 27.1 bits (60), Expect = 2.5
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 5/63 (7%)
Query: 69 DRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAEDA 128
P + V V L A +K L + G + +RL+ R A++ + + A
Sbjct: 15 GAPLAADV-YVGNLPRDARVSDLKRALR----ELGSVPLRLTWQGPRRRAFLHYPDSAAA 69
Query: 129 RDA 131
+ A
Sbjct: 70 QQA 72
>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 = 26.9 bits (60), Expect = 2.5
Identities = 15/71 (21%), Positives = 32/71 (45%), Gaps = 11/71 (15%)
Query: 67 VSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDERV-----AYV 120
V + + K + V + +A+ I++ + FG+L ++RL + +V
Sbjct: 9 VPKKQTTSK-ILVRNIPFQANQREIREL----FSTFGELKTVRLPKKMTGTGAHRGFGFV 63
Query: 121 CFRSAEDARDA 131
F + +DA+ A
Sbjct: 64 DFITKQDAKKA 74
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A
2dno_A
Length = 105
Score = 26.9 bits (60), Expect = 2.6
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 9/70 (12%)
Query: 66 AVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER---VAYVC 121
+ S K L V L+ + S+E + R ++ FG + + D A+V
Sbjct: 8 SESRGGRDRK-LFVGMLNKQQSEE----DVLRLFQPFGVIDECTVLRGPDGSSKGCAFVK 62
Query: 122 FRSAEDARDA 131
F S +A+ A
Sbjct: 63 FSSHTEAQAA 72
>3aqq_A Calcium-regulated heat stable protein 1; compact beta-barrel, cold
shock domain, ssDNA binding, DNA B protein; 2.80A {Homo
sapiens}
Length = 147
Score = 27.7 bits (61), Expect = 2.7
Identities = 12/43 (27%), Positives = 17/43 (39%)
Query: 158 SRPRSRSYSPPPPEYDRYYSRSPVLERRPGLPPPLPHPGERPY 200
+P + S + R RSP R +P PLP R +
Sbjct: 9 PQPPTHQASVGLLDTPRSRERSPSPLRGNVVPSPLPTRRTRTF 51
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 26.9 bits (60), Expect = 2.7
Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 16/89 (17%)
Query: 71 PPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL---SIRLSHDLDERV----AYVCFR 123
++ + + P + I L + L +IRL D + A+V
Sbjct: 7 HHMDTII-LRNIAPHTVVDSIMTAL----SPYASLAVNNIRLIKDKQTQQNRGFAFVQLS 61
Query: 124 SAEDARDA----KHSKPRIILYDKVAVVD 148
SA DA + P + + K VD
Sbjct: 62 SAMDASQLLQILQSLHPPLKIDGKTIGVD 90
>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 = 26.9 bits (60), Expect = 2.9
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 62 RTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERV---A 118
S K L +S L A++ +TL ++K I++ + + + A
Sbjct: 3 SGSSGNSTWSGESKTLVLSNLSYSATE----ETLQEVFEKATF--IKVPQNQNGKSKGYA 56
Query: 119 YVCFRSAEDARDA 131
++ F S EDA++A
Sbjct: 57 FIEFASFEDAKEA 69
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus
musculus} PDB: 2lq5_A
Length = 114
Score = 26.9 bits (60), Expect = 3.5
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 88 DELIKDTLYREYKKFGD-LSIRLSHDLDERVAYVCFRSAEDARDAKHS 134
D IKD + E K G + I + + + YV S A A ++
Sbjct: 27 DTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNA 74
>2z36_A MOXA, cytochrome P450 type compactin 3'',4''- hydroxylase; CYP105,
oxidoreductase; HET: HEM MES; 2.80A {Nonomuraea
recticatena}
Length = 413
Score = 27.6 bits (62), Expect = 3.8
Identities = 10/35 (28%), Positives = 12/35 (34%)
Query: 190 PPLPHPGERPYGYGPPVLRHEFRRDIPPHHVVLPH 224
L P ER + PP R P + V L
Sbjct: 10 AGLELPVERGCPFAPPAAYERLRERAPINKVRLTS 44
>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 = 26.7 bits (59), Expect = 3.8
Identities = 9/71 (12%), Positives = 23/71 (32%), Gaps = 3/71 (4%)
Query: 65 EAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER---VAYVC 121
+ + ++ L + E + + + G+ I + D + A +
Sbjct: 2 SKLEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIE 61
Query: 122 FRSAEDARDAK 132
S +D + A
Sbjct: 62 MESEQDVQKAL 72
>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 = 27.2 bits (61), Expect = 3.9
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 79 VSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER--VAYVCFRSAEDARDA 131
+ L ++ + DT + FG+ LS ++ D + +V F + E A A
Sbjct: 108 IKNLDKSIDNKALYDT----FSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERA 159
Score = 26.5 bits (59), Expect = 7.5
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 82 LHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDERV----AYVCFRSAEDARDA 131
LHP ++ + LY ++ G LSIR+ D+ R AYV F+ DA A
Sbjct: 23 LHPDVTEAM----LYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
>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 = 27.2 bits (61), Expect = 4.1
Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 79 VSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER----VAYVCFRSAEDARDA 131
VS L + + ++ ++G ++ R+ D V ++ F +A +A
Sbjct: 93 VSGLPKTMTQKELEQLF----SQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEA 146
>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 = 26.4 bits (59), Expect = 4.7
Identities = 14/76 (18%), Positives = 22/76 (28%), Gaps = 10/76 (13%)
Query: 62 RTREAVSDRPPSYKV--LCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDER-- 116
+A + L +S L ++ L K FG +S R+ D
Sbjct: 11 SGVQAQMAKQQEQDPTNLYISNLPLSMDEQ----ELENMLKPFGQVISTRILRDSSGTSR 66
Query: 117 -VAYVCFRSAEDARDA 131
V + S E
Sbjct: 67 GVGFARMESTEKCEAV 82
>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 = 26.1 bits (58), Expect = 4.8
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 82 LHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERV------AYVCFRSAEDARDA 131
L+P S +K E DL++ D R YV F SAED A
Sbjct: 25 LNPNKSVAELKV-AISELFAKNDLAVV-----DVRTGTNRKFGYVDFESAEDLEKA 74
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 26.1 bits (58), Expect = 4.9
Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 9/68 (13%)
Query: 68 SDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDL-SIRLSHDLDER---VAYVCFR 123
S +K+ +S L + E +++ K G + +RL + + +AYV +
Sbjct: 12 STSLEKHKLF-ISGLPFSCTKEELEEI----CKAHGTVKDLRLVTNRAGKPKGLAYVEYE 66
Query: 124 SAEDARDA 131
+ A A
Sbjct: 67 NESQASQA 74
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA
binding protein, structure, protein-RNA complex, RNA
stem-loop, structural protein/RNA complex; NMR {Homo
sapiens}
Length = 116
Score = 26.5 bits (59), Expect = 4.9
Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 11/95 (11%)
Query: 93 DTLYREYKKFGDL-SIRLSHDLDERV---AYVCFRSAEDARDAKHSKPRIILYDKVAVVD 148
L + K G + + L D + A++ F + DA++A L+ K V+
Sbjct: 22 KMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVE 81
Query: 149 ---PVYETHASRSRP----RSRSYSPPPPEYDRYY 176
R RP R+RS S + ++
Sbjct: 82 QAKKPSFQSGGRRRPPASSRNRSPSGSLEHHHHHH 116
>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 = 25.7 bits (57), Expect = 5.3
Identities = 7/36 (19%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 102 FGDL---SIRLSHDLDER---VAYVCFRSAEDARDA 131
L +IR+ + +V F + E+ + A
Sbjct: 31 LAPLKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQA 66
>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 = 26.3 bits (58), Expect = 5.4
Identities = 19/118 (16%), Positives = 46/118 (38%), Gaps = 10/118 (8%)
Query: 57 RDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDER 116
+ G+ R + + + L +A ++ + D +++ + SI +++ + +
Sbjct: 8 KSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVID-FFKKLDI-VEDSIYIAYGPNGK 65
Query: 117 ---VAYVCFRSAEDARDA--KHSKP---RIILYDKVAVVDPVYETHASRSRPRSRSYS 166
+V FR+ D + A +H + R I + + + R R +S S
Sbjct: 66 ATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQSGPSS 123
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA
binding domain, RBD, RNA splicing, apoptosis,
phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Length = 87
Score = 25.6 bits (57), Expect = 5.4
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 9/55 (16%)
Query: 82 LHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDERV----AYVCFRSAEDARDA 131
L P+ + + + FG R+ D+ +V F + DA +A
Sbjct: 14 LSPEITTA----AIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
>1rii_A 2,3-bisphosphoglycerate-dependent phosphoglycerat; phosphoglyerate
mutase, SH3 domain binding, structural genom TBSGC;
1.70A {Mycobacterium tuberculosis} SCOP: c.60.1.1
Length = 265
Score = 27.1 bits (61), Expect = 5.5
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 163 RSYSPPPPEYDRYYSRSPVLERRPGLPPPLP 193
RSY PPP +R S + R P
Sbjct: 118 RSYDTPPPPIERGSQFSQDADPRYADIGGGP 148
>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 = 26.3 bits (58), Expect = 5.9
Identities = 16/95 (16%), Positives = 27/95 (28%), Gaps = 12/95 (12%)
Query: 38 HRSRARSPPSPRPRYAYEYRDEYGRTREAVSDRPPSYKVLCVSALHPKASDELIKDTLYR 97
H S PR + +R P L V ++ L
Sbjct: 6 HHHHHSSGLVPRGSHMGPFRRSDSFPER---RAPRKGNTLYVYGE------DMTPTLLRG 56
Query: 98 EYKKFGDL-SIRLSHDLDERVAYVCFRSAEDARDA 131
+ FG++ + + A+V + E A A
Sbjct: 57 AFSPFGNIIDLSMDPP--RNCAFVTYEKMESADQA 89
>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 = 26.7 bits (58), Expect = 6.0
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 93 DTLYREYKKFGD-LSIRLSHDLDER---VAYVCFRSAEDARDA 131
D + + G L+I++ L + +V F S E A+
Sbjct: 124 DDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 166
>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 = 26.2 bits (58), Expect = 6.3
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 93 DTLYREYKKFGDL-SIRLSHDLD-ER---VAYVCFRSAEDARDA 131
+ L ++FGDL +R+ D E A+ F + E A+
Sbjct: 30 EALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 73
>1q16_B Respiratory nitrate reductase 1 beta chain; membrane protein,
electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA
3PH; 1.90A {Escherichia coli} SCOP: d.58.1.5 PDB:
1r27_B* 1siw_B* 1y5i_B* 1y5l_B* 1y5n_B* 3ir5_B* 3ir6_B*
3ir7_B* 1y4z_B* 3egw_B*
Length = 512
Score = 27.3 bits (60), Expect = 6.4
Identities = 14/78 (17%), Positives = 26/78 (33%), Gaps = 8/78 (10%)
Query: 180 PVLERRP--GLPPPLPHPGERPYGYGPPVL------RHEFRRDIPPHHVVLPHHEFLPRG 231
+ +R+ L P P E+ G P+ + + + LP H
Sbjct: 291 DLYQRQLDVFLDPNDPKVIEQAIKDGIPLSVIEAAQQSPVYKMAMEWKLALPLHPEYRTL 350
Query: 232 PPLHHIPPHHPTYLKQEN 249
P + ++PP P +
Sbjct: 351 PMVWYVPPLSPIQSAADA 368
>4g22_A Hydroxycinnamoyl-COA shikimate/quinate hydroxycinnamoyltransferase;
BAHD superfamily; 1.70A {Coffea canephora} PDB: 4g2m_A
4g0b_A
Length = 439
Score = 27.0 bits (60), Expect = 6.6
Identities = 7/39 (17%), Positives = 9/39 (23%)
Query: 204 PPVLRHEFRRDIPPHHVVLPHHEFLPRGPPLHHIPPHHP 242
PP + R P H E+ P
Sbjct: 185 PPFIDRTLLRARDPPQPQFQHIEYQPPPALAVSPQTAAS 223
>3m1c_A GH, envelope glycoprotein H; glycoprotein H, GH/GL, envelope
protein, HER simplex virus, disulfide bond, HOST cell
MEMB HOST endosome; HET: NAG XYL; 3.00A {Human
herpesvirus 2}
Length = 762
Score = 26.9 bits (58), Expect = 7.9
Identities = 8/78 (10%), Positives = 14/78 (17%), Gaps = 2/78 (2%)
Query: 164 SYSPPPPEYDRYYSRSPVLERRPGLPPPLPHPGERPYGYGPPVLRHEFRRD--IPPHHVV 221
+++ P + R P P P
Sbjct: 115 TFAAAPDREGLTFPRGDDGATERHPDGRRNAPPPGPPAGTPRHPTTNLSIAHLHNASVTW 174
Query: 222 LPHHEFLPRGPPLHHIPP 239
L L ++ P
Sbjct: 175 LAARGLLRTPGRYVYLSP 192
>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 = 25.7 bits (57), Expect = 8.0
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 10/70 (14%)
Query: 67 VSDRPPSYKVLCVSALHPKASDELIKDTLYREYKKFGD-LSIRLSHDLDERV----AYVC 121
+S+R V V L K S+ L L+ + + G ++ + D +V
Sbjct: 9 ISERNQDATVY-VGGLDEKVSEPL----LWELFLQAGPVVNTHMPKDRVTGQHQGYGFVE 63
Query: 122 FRSAEDARDA 131
F S EDA A
Sbjct: 64 FLSEEDADYA 73
>4eo9_A 2,3-bisphosphoglycerate-dependent phosphoglycerat; structural
genomics, niaid, national institute of allergy AN
infectious diseases; 2.45A {Mycobacterium leprae}
Length = 268
Score = 26.4 bits (59), Expect = 8.3
Identities = 9/31 (29%), Positives = 12/31 (38%)
Query: 163 RSYSPPPPEYDRYYSRSPVLERRPGLPPPLP 193
RSY PPP ++ S + R P
Sbjct: 141 RSYDTPPPPIEKGSEFSQDADPRYTDIGGGP 171
>2y5n_A MYCG, P-450-like protein; oxidoreductase, mycinamicin biosynthesis;
HET: HEM MYV; 1.62A {Micromonospora griseorubida} PDB:
2y46_A* 2y5z_A* 2y98_A* 2yca_A* 2ygx_A*
Length = 417
Score = 26.8 bits (60), Expect = 8.4
Identities = 7/36 (19%), Positives = 11/36 (30%)
Query: 189 PPPLPHPGERPYGYGPPVLRHEFRRDIPPHHVVLPH 224
P +P +G E + P V P+
Sbjct: 24 AEPRAYPFNDVHGLTLAGRYGELQETEPVSRVRPPY 59
>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 = 25.5 bits (56), Expect = 9.2
Identities = 24/102 (23%), Positives = 36/102 (35%), Gaps = 10/102 (9%)
Query: 70 RPPSYKVLCVSALHPKASDELIKDTLYREYKKFGDLSIRLSHDLDERVAYVCFRSAEDAR 129
R +V+ VS L P S + +KD ++ GD + + + V F ED
Sbjct: 12 RRSENRVV-VSGLPPSGSWQDLKDH----MREAGD--VCYADVYRDGTGVVEFVRKEDMT 64
Query: 130 DAKHSKPRIILYD---KVAVVDPVYETHASRSRPRSRSYSPP 168
A + A + + S S RSRS P
Sbjct: 65 YAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSSGPS 106
>1s1f_A Putative cytochrome P450; cytochrome P450 oxidoreductase, CYP158A2,
anti biosynthesis, oxidoreductase; HET: HEM PIM; 1.50A
{Streptomyces coelicolor} SCOP: a.104.1.1 PDB: 1se6_A*
2d0e_A* 1t93_A* 2d09_A* 3tzo_A*
Length = 406
Score = 26.4 bits (59), Expect = 9.4
Identities = 9/39 (23%), Positives = 14/39 (35%)
Query: 186 PGLPPPLPHPGERPYGYGPPVLRHEFRRDIPPHHVVLPH 224
+PP P G + E R+ P + LP+
Sbjct: 8 QAVPPVRDWPAVDLPGSDFDPVLTELMREGPVTRISLPN 46
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 25.6 bits (56), Expect = 9.6
Identities = 16/69 (23%), Positives = 24/69 (34%), Gaps = 4/69 (5%)
Query: 103 GDLSIRLSHDLDER---VAYVCFRSAEDARDAKHSKPRIILYDKVAVVDPVYETHASRSR 159
G I D R A+V F E A++A K + +L + + +
Sbjct: 53 GKEGILFVTYPDGRPTGDAFVLFACEEYAQNAL-RKHKDLLGKRYIELFRSTAAEVQQVL 111
Query: 160 PRSRSYSPP 168
R S S P
Sbjct: 112 NRFSSASGP 120
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
0.317 0.138 0.430
Gapped
Lambda K H
0.267 0.0689 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,281,770
Number of extensions: 271232
Number of successful extensions: 1197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1147
Number of HSP's successfully gapped: 190
Length of query: 249
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 158
Effective length of database: 4,160,982
Effective search space: 657435156
Effective search space used: 657435156
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 (21.6 bits)
S2: 56 (25.4 bits)