RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2768
(96 letters)
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain,
cell projection, cytoplasm, nucleus, phosphoprotein,
translation regulation; 2.75A {Homo sapiens}
Length = 163
Score = 75.2 bits (185), Expect = 7e-19
Identities = 32/83 (38%), Positives = 49/83 (59%), Gaps = 3/83 (3%)
Query: 2 AQYLIFEKMREEGLFAGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPN 61
AQ I+ K++EE F +EV+L + VP+S GR+IGKGG+ V ELQ T + + +P
Sbjct: 63 AQGRIYGKLKEENFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPR 122
Query: 62 SFNEEETN---VHIVGSFFSVQE 81
+E + V I+G F++ Q
Sbjct: 123 DQTPDENDQVIVKIIGHFYASQM 145
Score = 50.5 bits (121), Expect = 2e-09
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 24 LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNE--EETNVHIVGS 75
+++ +P+ VG IIGK GQ++++L R + IK+ + V I G
Sbjct: 3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGP 56
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 106
Score = 65.6 bits (160), Expect = 8e-16
Identities = 17/82 (20%), Positives = 35/82 (42%), Gaps = 1/82 (1%)
Query: 14 GLFAGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL-PNSFNEEETNVHI 72
G A + I++ VP VG +IG+ G+ ++++Q G I+ + E HI
Sbjct: 1 GAMATGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHI 60
Query: 73 VGSFFSVQETLKGCPNIVDQPS 94
+G + + +++
Sbjct: 61 MGPPDRCEHAARIINDLLQSLR 82
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo
sapiens}
Length = 85
Score = 60.4 bits (147), Expect = 6e-14
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 17 AGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNE---EETNVHIV 73
A + E+++P+ + G +IGKGG+ +++LQ G + L ++ + + I+
Sbjct: 7 ANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRII 66
Query: 74 GSFFSVQ 80
G + VQ
Sbjct: 67 GDPYKVQ 73
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding,
DNA-binding, nucleus, phosph ribonucleoprotein,
RNA-binding, RNA binding protein; NMR {Homo sapiens}
Length = 160
Score = 61.3 bits (149), Expect = 1e-13
Identities = 27/90 (30%), Positives = 48/90 (53%), Gaps = 7/90 (7%)
Query: 2 AQYLIFEKMREEGLFAGADEVR-----LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSM 56
A +I +K+ E+ + + +T+ LVVP+SQ G +IGKGG ++E++ STG+
Sbjct: 62 AFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQ 121
Query: 57 IKLPNSFNEEETN--VHIVGSFFSVQETLK 84
+++ T + I G S+ E +K
Sbjct: 122 VQVAGDMLPNSTERAITIAGIPQSIIECVK 151
Score = 53.2 bits (128), Expect = 2e-10
Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 21 EVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQ 80
V LTI L++ +VG IIGK G++V++++ +G+ I + E + + G ++
Sbjct: 2 NVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERI-ITLAGPTNAIF 60
Query: 81 ETLK 84
+
Sbjct: 61 KAFA 64
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA
binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1
Length = 82
Score = 58.4 bits (142), Expect = 3e-13
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 23 RLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF-NEEETNVHIVGSFFSVQ 80
+ T EL +P++ +G IIG+ G N+ E+++ +G+ IK+ N V I GS S+
Sbjct: 5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASIS 63
>1x4m_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
SCOP: d.51.1.1
Length = 94
Score = 58.6 bits (142), Expect = 3e-13
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 18 GADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL---PNSFNEEETNVHIVG 74
G E+++P+S+ G +IGKGG+ +++LQ G + + + + I G
Sbjct: 9 GDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITG 68
Query: 75 SFFSVQ 80
+ VQ
Sbjct: 69 DPYKVQ 74
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA
binding protein, KH domain, KSRP, posttranscriptional
regulation, mRNA decay; NMR {Homo sapiens}
Length = 164
Score = 59.8 bits (145), Expect = 6e-13
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 7/87 (8%)
Query: 2 AQYLIFEKMREEGLFAGADEVR------LTIELVVPSSQVGRIIGKGGQNVRELQRSTGS 55
A ++ + +RE D I++ VP VG +IG+ G+ ++++Q G
Sbjct: 63 ACEMVMDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGV 122
Query: 56 MIKLPNSF-NEEETNVHIVGSFFSVQE 81
I+ E HI+G +
Sbjct: 123 RIQFKQDDGTGPEKIAHIMGPPDRCEH 149
Score = 52.1 bits (125), Expect = 5e-10
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF---NEEETNVHIVGSFFSVQE 81
E+++P+ + G +IGKGG+ +++LQ G + L + + I+G + VQ+
Sbjct: 3 VQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQ 62
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA
binding protein, transcription factor, hnRNP K, CT
element, C-MYC oncogene; NMR {Homo sapiens} SCOP:
d.51.1.1 PDB: 1khm_A
Length = 89
Score = 57.7 bits (140), Expect = 8e-13
Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 24 LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF-NEEETNVHIVGSFFSVQ 80
+T ++ +P G IIGKGGQ +++++ +G+ IK+ E+ + I G+ +Q
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQ 71
>1x4n_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
SCOP: d.51.1.1 PDB: 2opu_A
Length = 92
Score = 57.4 bits (139), Expect = 9e-13
Identities = 21/58 (36%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 24 LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL-PNSFNEEETNVHIVGSFFSVQ 80
+T E VP VG IIG+GG+ + +Q+ +G I++ P+S E + + G+ SVQ
Sbjct: 15 MTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQ 72
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold,
RNA-binding motif, protein/RNA structure, RNA binding
protein/RNA complex; 2.40A {Homo sapiens} SCOP:
d.51.1.1
Length = 87
Score = 57.3 bits (139), Expect = 1e-12
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 22 VRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF----NEEETNVHIVGSFF 77
++ +E+ VP + VG I+GKGG+ + E Q TG+ I++ V I GS
Sbjct: 1 MKELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPA 60
Query: 78 SVQ 80
+ Q
Sbjct: 61 ATQ 63
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta
fold, DNA binding protein; 0.95A {Homo sapiens} SCOP:
d.51.1.1 PDB: 1zzj_A 1zzi_A
Length = 82
Score = 56.5 bits (137), Expect = 2e-12
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 18 GADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL-PNSFNEEETNVHIVGSF 76
GA +T ++ +P G IIGKGGQ +++++ +G+ IK+ E+ + I G+
Sbjct: 1 GAMGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQ 60
Query: 77 FSVQ 80
+Q
Sbjct: 61 DQIQ 64
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 107
Score = 56.8 bits (137), Expect = 3e-12
Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 18 GADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL----PNSFNEEETNVHIV 73
GA + +P+ + G +IG+GG+NV+ + + TG+ +++ P + + I
Sbjct: 1 GAMAPGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIR 60
Query: 74 GSFFSVQ 80
GS +
Sbjct: 61 GSPQQID 67
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain,
alpha-beta fold RNA-binding motif, immune system; 2.00A
{Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A
Length = 76
Score = 56.1 bits (136), Expect = 3e-12
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 22 VRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF----NEEETNVHIVGSFF 77
++ +E+ VP + VG I+GKGG+ + E Q TG+ I++ V I GS
Sbjct: 1 MKELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPA 60
Query: 78 SVQ 80
+ Q
Sbjct: 61 ATQ 63
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding
protein-DNA complex; 1.70A {Homo sapiens} SCOP:
d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*
Length = 73
Score = 54.6 bits (132), Expect = 9e-12
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 20 DEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSV 79
V LTI L++ +VG IIGK G++V++++ +G+ I + E + + G ++
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERI-ITLAGPTNAI 59
Query: 80 QETLK 84
+
Sbjct: 60 FKAFA 64
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA
binding protein/DNA complex; 1.60A {Homo sapiens}
Length = 76
Score = 54.2 bits (131), Expect = 1e-11
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF-NEEETNVHIVGSFFSVQ 80
+ EL +P+ +G IIG+ G + E+++ +G+ IK+ N + V I GS S+
Sbjct: 6 SHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASIS 62
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 94
Score = 54.0 bits (130), Expect = 3e-11
Identities = 11/60 (18%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 21 EVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQ 80
+ + + + +P +IGK G+ +++L+ T + I++P ++ + I G+ ++
Sbjct: 14 QTQASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRP-DDPSNQIKITGTKEGIE 72
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH
domain, hairpin, RNA-binding protein complex; HET: 5BU;
1.94A {Homo sapiens} PDB: 2ann_A*
Length = 178
Score = 54.9 bits (132), Expect = 5e-11
Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 17 AGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL---PNSFNEEETNVHIV 73
+ ++++VP+S G IIGKGG V+ + +G+ ++L P+ N + V +
Sbjct: 97 TVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGINLQNRVVTVS 156
Query: 74 GSFFSVQE 81
G ++
Sbjct: 157 GEPEQNRK 164
Score = 50.2 bits (120), Expect = 3e-09
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 24 LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNE----EETNVHIVGSFFSV 79
+++++PS G IIGKGGQ + +LQ+ TG+ IKL S + E I G+ ++
Sbjct: 6 YFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEAL 65
Query: 80 QE 81
Sbjct: 66 NA 67
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 52.5 bits (126), Expect = 1e-10
Identities = 14/61 (22%), Positives = 28/61 (45%)
Query: 21 EVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQ 80
E ++ ++ + RIIG G+ +R++ I+ P S + V + G +V+
Sbjct: 14 EQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVE 73
Query: 81 E 81
E
Sbjct: 74 E 74
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 104
Score = 52.5 bits (126), Expect = 1e-10
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 12 EEGLFAGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVH 71
G A V +TIE+ VP +IG+ G +R++ I +P + +
Sbjct: 5 SSGKEALEALVPVTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAP-ELQSDIIA 63
Query: 72 IVGSFFSVQE 81
I G ++
Sbjct: 64 ITGLAANLDR 73
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET:
DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1
Length = 174
Score = 52.9 bits (127), Expect = 3e-10
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 18 GADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSF----NEEETNVHIV 73
G +VP+ + G IIGKGG+ ++ + + +G+ I+L + + I
Sbjct: 98 GPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIR 157
Query: 74 GSFFSVQE 81
G+ +
Sbjct: 158 GTPQQIDY 165
Score = 51.4 bits (123), Expect = 1e-09
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL-PNSFNEEETNVHIVGS 75
I++ +P VG +IG+ G+ ++++Q G I+ P+ E I G
Sbjct: 4 MIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGP 55
>1we8_A Tudor and KH domain containing protein; structural genomics,
riken structural genomics/proteomics initiative, RSGI,
RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1
Length = 104
Score = 50.6 bits (121), Expect = 6e-10
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 24 LTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL---PNSFNEEETNVHIVGSFFSVQ 80
+ +L VP VGRIIG+GG+ +R + +++G+ I + I G+ V
Sbjct: 15 VFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKEVA 74
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo
sapiens} SCOP: d.51.1.1 PDB: 1vih_A
Length = 71
Score = 48.5 bits (116), Expect = 2e-09
Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQE 81
+E+ + +IGK G N+ ++ +++P +E+ + I G VQ+
Sbjct: 6 YVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPD-SEKSNLIRIEGDPQGVQQ 61
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 97
Score = 47.9 bits (114), Expect = 5e-09
Identities = 10/63 (15%), Positives = 25/63 (39%), Gaps = 2/63 (3%)
Query: 21 EVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLP--NSFNEEETNVHIVGSFFS 78
+ + V +IIG+ G + +++ I+ P + N+ + + I G +
Sbjct: 14 LRSFKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKN 73
Query: 79 VQE 81
+
Sbjct: 74 TEA 76
>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 = 48.9 bits (116), Expect = 2e-08
Identities = 25/142 (17%), Positives = 48/142 (33%), Gaps = 49/142 (34%)
Query: 2 AQYLIFEKMREEGL------FAG------------------ADEVRL------TIELVVP 31
+ FE ++ +GL FAG V + T+++ VP
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 32 SSQVG------------RIIGKGGQN-----VRELQRSTGSMIKLPNSFNEEETNVHIVG 74
++G R+ Q V + + TG ++++ N +N E G
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN-YNVENQQYVAAG 1857
Query: 75 SFFSVQETLKGCPNIVDQPSID 96
++ +T+ N + ID
Sbjct: 1858 DLRAL-DTVTNVLNFIKLQKID 1878
Score = 31.6 bits (71), Expect = 0.027
Identities = 22/115 (19%), Positives = 40/115 (34%), Gaps = 31/115 (26%)
Query: 1 MAQYLIFEKMREEGLFAGADEVR-----LTIELVV---PSSQVGRIIGKGGQNVRELQRS 52
M Y + ++ ++ AD +I +V P + G+ G+ +RE
Sbjct: 1633 MDLYKTSKAAQD--VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN--- 1687
Query: 53 TGSMI------------KLPNSFNEEETNVHIVGSFFSVQETLKGCPNIVDQPSI 95
+MI K+ NE T+ +F S + L QP++
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSY----TFRSEKGLLSATQFT--QPAL 1736
Score = 30.4 bits (68), Expect = 0.065
Identities = 18/97 (18%), Positives = 31/97 (31%), Gaps = 23/97 (23%)
Query: 2 AQYLIFEKMREE---------GLFAGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRS 52
A + I +++E+ FA DE EL VG+ +G V +
Sbjct: 25 ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL------VGKFLGYVSSLVEPSKVG 78
Query: 53 TGSMIKLPNSFNEEET------NVH-IVGSFFSVQET 82
+ L E E ++H + +T
Sbjct: 79 QFDQV-LNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
>2dgr_A Ring finger and KH domain-containing protein 1; structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 83
Score = 44.9 bits (106), Expect = 6e-08
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 23 RLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQ 80
+ TI++ VP VG ++G G ++ +Q+ T + I P ++E + G +V
Sbjct: 9 QTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGR--DKEPVFAVTGMPENVD 64
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 41.7 bits (98), Expect = 2e-06
Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 2/69 (2%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQ-RSTGSMIKLPNSFNEEETNVHIVGSFFSVQETL 83
+E+ +P+ +IG G+ +R + G I P V I G V++
Sbjct: 18 EVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPVE-GSGSDTVVIRGPSSDVEKAK 76
Query: 84 KGCPNIVDQ 92
K ++ ++
Sbjct: 77 KQLLHLAEE 85
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH
domains, type I domains, fragIle X mental retardation
protein, RNA BI protein; 1.90A {Homo sapiens} PDB:
2fmr_A
Length = 144
Score = 42.3 bits (99), Expect = 2e-06
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
+ +V +G IG G N+++ ++ G +E+ HI G
Sbjct: 5 HEQFIVREDLMGLAIGTHGANIQQARKVPGVTA---IDLDEDTCTFHIYGE 52
Score = 37.3 bits (86), Expect = 2e-04
Identities = 15/83 (18%), Positives = 35/83 (42%), Gaps = 7/83 (8%)
Query: 6 IFEKMREEGLFAGADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTG-SMIKLPNSFN 64
I+ + ++ A + + VP + VG++IGK G+ ++E+ +G +++
Sbjct: 49 IYGEDQDAVKKARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENE 108
Query: 65 E------EETNVHIVGSFFSVQE 81
+ VG+ S+
Sbjct: 109 KNVPQEEGMVPFVFVGTKDSIAN 131
>2cxc_A NUSA; transcription termination, RNA binding protein, archaeal NUS
domain, structural genomics, NPPSFA; 2.00A {Aeropyrum
pernix} PDB: 2cy1_A
Length = 144
Score = 38.5 bits (90), Expect = 4e-05
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 20 DEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTG 54
+ + V G IGKGG+NV+ +
Sbjct: 99 RNGVKQVVIKVSEDDKGAAIGKGGKNVKRARLVLS 133
Score = 30.4 bits (69), Expect = 0.052
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 19 ADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL 59
DE + +V + GR IG+GG+ ++ L+ + G I++
Sbjct: 31 VDEENNRLIFLVSEGEAGRAIGRGGRLIKLLREALGKNIEV 71
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing
factor, RNA binding protein; 2.30A {Pyrococcus
horikoshii} PDB: 3aev_B
Length = 219
Score = 37.0 bits (85), Expect = 2e-04
Identities = 11/61 (18%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 21 EVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQ 80
++ + E GRIIG+ G+ + ++ +G+ + + V I+G+ ++
Sbjct: 126 DIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSV------YGKTVAIIGNPIQIE 179
Query: 81 E 81
Sbjct: 180 I 180
Score = 33.1 bits (75), Expect = 0.007
Identities = 9/35 (25%), Positives = 20/35 (57%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKL 59
+ +P ++ +IGK GQ +E+++ T + I +
Sbjct: 35 EEYVKIPKDRIAVLIGKKGQTKKEIEKRTKTKITI 69
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains,
RNA binding, cell cycle; 2.79A {Caenorhabditis elegans}
Length = 376
Score = 37.2 bits (85), Expect = 3e-04
Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 8/70 (11%)
Query: 23 RLTIELVVPSSQVGRIIGKGG--QNVRELQRSTGSMIKLPNSFNEEETN------VHIVG 74
R+T+ + S + G +NV + T ++I+LP+ T V I G
Sbjct: 29 RVTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITG 88
Query: 75 SFFSVQETLK 84
F V
Sbjct: 89 YFGDVDRARM 98
>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 102
Score = 34.9 bits (80), Expect = 6e-04
Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 14/68 (20%)
Query: 25 TIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQETLK 84
+ PS IIGK GQN+ ++ ++ VHI + + TL+
Sbjct: 28 VSSVAAPSWLHRFIIGKKGQNLAKIT--------------QQMPKVHIEFTEGEDKITLE 73
Query: 85 GCPNIVDQ 92
G V
Sbjct: 74 GPTEDVSV 81
>1tua_A Hypothetical protein APE0754; structural genomics, protein
structure initiative, MCSG, four layers alpha-beta
sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1
d.51.1.1
Length = 191
Score = 35.4 bits (81), Expect = 9e-04
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 31 PSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGSFFSVQE 81
GRIIG+GG+ R ++ T + I + E V I+G +
Sbjct: 105 LKRIKGRIIGEGGRARRTIEEMTDTYINV------GEYEVAIIGDYERAMA 149
Score = 33.8 bits (77), Expect = 0.004
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 22 VRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
++ I + V ++G +IG G+ E+ R TG++I + E + V +
Sbjct: 2 MKPRIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVIT----VDTENSMVIVEPE 51
>1hh2_P NUSA, N utilization substance protein A; transcription regulation,
termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5
d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Length = 344
Score = 34.8 bits (81), Expect = 0.002
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 20 DEVRLTIELVVPSSQVGRIIGKGGQNVR 47
D+ ++VP +Q+ IGKGGQN R
Sbjct: 299 DKENKAARVLVPPTQLSLAIGKGGQNAR 326
>2asb_A Transcription elongation protein NUSA; protein-RNA complex,
transcription/RNA complex; 1.50A {Mycobacterium
tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 PDB:
2atw_A
Length = 251
Score = 34.5 bits (80), Expect = 0.002
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 20 DEVRLTIELVVPSSQVGRIIGKGGQNVR 47
D+ +VVP Q+ IGK GQN R
Sbjct: 180 DQTARAARVVVPDFQLSLAIGKEGQNAR 207
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA
recognition, complex E, KH domain, QUA2 homology; NMR
{Homo sapiens} SCOP: d.51.1.1
Length = 131
Score = 33.7 bits (77), Expect = 0.002
Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 18 GADEVRLTIELVVPSSQ------VGRIIGKGGQNVRELQRSTGSMIKL 59
GA R++ ++++P + VG +IG G ++ +++ + I +
Sbjct: 1 GAMATRVSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMI 48
>1k0r_A NUSA; two component arrangement, S1 domain, two K-homology
domains., structural genomics, PSI, protein structure
initiative; 1.70A {Mycobacterium tuberculosis} SCOP:
b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1
Length = 366
Score = 33.7 bits (78), Expect = 0.004
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 20 DEVRLTIELVVPSSQVGRIIGKGGQNVR 47
D+ +VVP Q+ IGK GQN R
Sbjct: 303 DQTARAARVVVPDFQLSLAIGKEGQNAR 330
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 32.5 bits (75), Expect = 0.010
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 30 VPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
VP S+ + +G GG N+++LQ TG I +E +
Sbjct: 573 VPLSKRAKFVGPGGYNLKKLQAETGVTISQ-----VDEETFSVFAP 613
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 243
Score = 31.7 bits (72), Expect = 0.018
Identities = 11/44 (25%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 21 EVRLT---IELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPN 61
EVR+T E+++ +++ ++G+ G+ +REL P
Sbjct: 38 EVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFPE 81
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 1s1h_C 3jyv_C*
Length = 227
Score = 31.6 bits (72), Expect = 0.022
Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 9/55 (16%)
Query: 21 EVRLT---IELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHI 72
EVR+T E+++ +++ ++G+ G+ +REL + FN E V +
Sbjct: 38 EVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTS------VVQKRFNFLENGVEL 86
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 31.7 bits (73), Expect = 0.024
Identities = 11/46 (23%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 30 VPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
+P+ ++ +IG GG+ +RE+ +TG+ + + ++ V + S
Sbjct: 576 IPTDKIREVIGSGGKVIREIVATTGAKVDI-----NDDGVVKVSAS 616
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_C
Length = 243
Score = 31.2 bits (71), Expect = 0.028
Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 21 EVRLT---IELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPN 61
EVR T E+ + +++ ++IG G+ +EL + +
Sbjct: 41 EVRRTPTKTEIRIKATKPQQVIGVEGKKHKELTQFLQKRFGYSD 84
>3u5c_D RP13, YS3, 40S ribosomal protein S3; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_B 3o30_C 3o2z_C 3u5g_D 1s1h_C
3jyv_C*
Length = 240
Score = 30.9 bits (70), Expect = 0.036
Identities = 10/45 (22%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 21 EVRLT---IELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNS 62
EVR+T E+++ +++ ++G+ G+ + EL K
Sbjct: 38 EVRVTPTKTEVIIRATRTQDVLGENGRRINELTLLVQKRFKYAPG 82
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 30.9 bits (71), Expect = 0.038
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 30 VPSSQVGRIIGKGGQNVRELQRSTGSMI 57
+ ++ +IGKGG +R L TG+ I
Sbjct: 566 INPDKIKDVIGKGGSVIRALTEETGTTI 593
>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 = 30.3 bits (67), Expect = 0.051
Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 6/21 (28%)
Query: 44 QNVRELQRSTGSMIKL--PNS 62
Q +++LQ S +KL +S
Sbjct: 20 QALKKLQAS----LKLYADDS 36
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 30.6 bits (70), Expect = 0.057
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 30 VPSSQVGRIIGKGGQNVRELQRSTGSMI 57
+P ++G +IG Q + ++Q TG+ I
Sbjct: 604 IPVDKIGEVIGPKRQMINQIQEDTGAEI 631
>3v69_A Protein filia; RNA-binding, embryogenesis, KH domain, RNA binding,
P binding; 2.20A {Mus musculus}
Length = 140
Score = 30.1 bits (67), Expect = 0.065
Identities = 9/46 (19%), Positives = 19/46 (41%)
Query: 30 VPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
V + + GK G+++ L+ ++I + E + I G
Sbjct: 62 VEPRLLEIMFGKDGEHIPHLESMLHTLIHVNVWGPERRAEIWIFGP 107
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins,
RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 29.2 bits (65), Expect = 0.13
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 35 VGRIIGKGGQNVRELQRSTGSMIKL 59
VGRI+G G ++L+ TG I +
Sbjct: 19 VGRILGPRGLTAKQLEAETGCKIMV 43
>1wh9_A 40S ribosomal protein S3; KH domain, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
ribosome; NMR {Homo sapiens} SCOP: d.52.3.1
Length = 92
Score = 28.3 bits (63), Expect = 0.19
Identities = 11/44 (25%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 21 EVRLT---IELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPN 61
EVR+T E+++ +++ ++G+ G+ +REL P
Sbjct: 29 EVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFPE 72
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 28.8 bits (65), Expect = 0.23
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 19 ADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEE 67
AD V +T+ + P G +IG+GG+ +R L+ + + N +E
Sbjct: 61 ADNVAVTVHVAKP----GVVIGRGGERIRVLREELAKLTGKNVALNVQE 105
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 28.0 bits (62), Expect = 0.28
Identities = 11/41 (26%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 20 DEVRLTIELVVPSSQV-GRIIGKGGQNVRELQRSTGSMIKL 59
D++ + +E VP+ V ++ G G ++ +Q TG+ + L
Sbjct: 14 DKLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFL 54
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C* 2wwl_C 3oar_C
3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C 3ofo_C 3r8o_C
4a2i_C
Length = 206
Score = 28.3 bits (64), Expect = 0.34
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 8/45 (17%)
Query: 19 ADEVRLTIELVVPSSQVGRIIGKGGQNV----RELQRSTGSMIKL 59
A +R+TI +++ G +IGK G++V + + G ++
Sbjct: 60 AKSIRVTIH----TARPGIVIGKKGEDVEKLRKVVADIAGVPAQI 100
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 218
Score = 27.9 bits (63), Expect = 0.40
Identities = 8/43 (18%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 19 ADEVRLTIELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPN 61
D +++ I + P +I Q V +L+ + + N
Sbjct: 69 IDLIQVIIHMGFP----KLLIENRPQGVEDLKINVQKELNCVN 107
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 28.0 bits (63), Expect = 0.41
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 8/45 (17%)
Query: 19 ADEVRLTIELVVPSSQVGRIIGKGGQNV----RELQRSTGSMIKL 59
A +R+TI +++ G +IGK G++V + + G ++
Sbjct: 61 AKSIRVTIH----TARPGIVIGKKGEDVEKLRKVVADIAGVPAQI 101
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 26.9 bits (60), Expect = 1.2
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 27 ELVVPSSQVGRIIGKGGQNVRELQRSTG 54
E+++ + + G +IGK G +RE+ + G
Sbjct: 105 EVIIEAEKPGLVIGKHGATLREITKQIG 132
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 26.5 bits (59), Expect = 1.3
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 27 ELVVPSSQVGRIIGKGGQNVRELQRSTG 54
E+++ + + G +IGK G RE+ ++TG
Sbjct: 101 EVIIEARKPGLVIGKYGSTSREIVKNTG 128
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 26.5 bits (59), Expect = 1.3
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 27 ELVVPSSQVGRIIGKGGQNVRELQRSTG 54
E+++ + + G +IGK G+ +R + +
Sbjct: 110 EVLIEAKKPGLVIGKNGETLRLITQKVK 137
>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform
B'; KH domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.51.1.1
Length = 91
Score = 25.8 bits (56), Expect = 1.4
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 27 ELVVPSSQVGRIIGKGGQNVRELQRSTGSMIKLPNSFNEEETNVHIVGS 75
E VV +G IG G N+++ ++ G +E+ I G
Sbjct: 18 EFVVREDLMGLAIGTHGSNIQQARKVPGVT---AIELDEDTGTFRIYGE 63
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 24.0 bits (53), Expect = 9.5
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 8 EKMREEGLFAGADEVRLTIELVVPSSQVGRIIGKGGQ 44
+++ ++ I +V + IIGK GQ
Sbjct: 226 NEIKPGDANPNMLVIKGEI-IVDRENLKPIIIGKKGQ 261
>1qpo_A Quinolinate acid phosphoribosyl transferase; type II prtase, de
novo NAD biosynthesis, PRPP, phosphoribos transferase;
2.40A {Mycobacterium tuberculosis H37RV} SCOP: c.1.17.1
d.41.2.1 PDB: 1qpn_A 1qpq_A* 1qpr_A*
Length = 284
Score = 24.0 bits (53), Expect = 9.5
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 11 REEGLFAGADEVRLTIELVVPSSQV 35
RE G+ AG D LT+ V+ ++
Sbjct: 47 REAGVVAGLDVALLTLNEVLGTNGY 71
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
0.316 0.136 0.375
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,410,425
Number of extensions: 72192
Number of successful extensions: 255
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 87
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
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: 51 (23.4 bits)