RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12978
(210 letters)
>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 = 53.3 bits (128), Expect = 1e-09
Identities = 12/27 (44%), Positives = 21/27 (77%)
Query: 51 EGEDELKKRQLMELAIINGTYRDNNAK 77
E +++L+K QL ELA +NGT R+++ +
Sbjct: 105 EDQNDLRKMQLRELARLNGTLREDDNR 131
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA
binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 52.3 bits (125), Expect = 4e-09
Identities = 21/27 (77%), Positives = 23/27 (85%)
Query: 51 EGEDELKKRQLMELAIINGTYRDNNAK 77
EGED LKK +LMELAI+NGTYRD N K
Sbjct: 104 EGEDSLKKMKLMELAILNGTYRDANLK 130
>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 = 37.0 bits (85), Expect = 0.004
Identities = 30/169 (17%), Positives = 46/169 (27%), Gaps = 60/169 (35%)
Query: 49 QAEGEDELKKRQLMELAIINGTYRDNNAKVLAAAVHILMLFPSSVS-----FSAACD-EE 102
Q +D + EL + TY ++ + L + F+ + E
Sbjct: 163 QGNTDDYFE-----ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 103 WRRMAVAAAQETQRLLSPGMPGMATQLRTPTATPLGAPLILSPR-IPAIPTSAASLLNGS 161
W L P+ TP L+ P P I ++
Sbjct: 218 W-------------------------LENPSNTPDKDYLLSIPISCPLI-----GVI--- 244
Query: 162 PGGQLMN-PADAHQLIYTPYADYANYAALTGSPLLTEYASADHSGGLYV 209
QL + A L +TP + TG HS GL
Sbjct: 245 ---QLAHYVVTAKLLGFTPGELRSYLKGATG-----------HSQGLVT 279
Score = 29.6 bits (66), Expect = 0.88
Identities = 13/73 (17%), Positives = 27/73 (36%), Gaps = 14/73 (19%)
Query: 53 EDELK---KR-QLMELAIINGTYRDNNAKVLAAAVHILMLFPSSVSFSAACDEEWRRMAV 108
E ++ R M++A+ +N ++A P V+ A+ +E + V
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN-------PGRVA--ASFSQEALQYVV 1830
Query: 109 A-AAQETQRLLSP 120
+ T L+
Sbjct: 1831 ERVGKRTGWLVEI 1843
>1b6g_A Haloalkane dehalogenase; hydrolase, alpha/beta-hydrolase; 1.15A
{Xanthobacter autotrophicus} SCOP: c.69.1.8 PDB: 1be0_A
1cij_A 2yxp_X 1edd_A 1edb_A 2dhc_A 2dhe_A 2eda_A 2edc_A
2had_A 1ede_A 2pky_X 1bez_A 1bee_A 2dhd_A* 1hde_A
Length = 310
Score = 27.8 bits (62), Expect = 2.8
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 11/57 (19%)
Query: 71 YRDNNAKVLAAAVHILML--FPSSVSFSAACDEEWRRMAVAAAQETQRLLSPGMPGM 125
Y D A L L P+ S+ +R+M A+ R+++P G
Sbjct: 38 YLDEGNS--DAEDVFLCLHGEPTW-SYL------YRKMIPVFAESGARVIAPDFFGF 85
>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal
binding protein, structural genomics, NPPSFA; 2.21A
{Pyrococcus horikoshii}
Length = 342
Score = 27.5 bits (60), Expect = 3.0
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 3/53 (5%)
Query: 54 DELKKRQLMELAIINGTYRDNNAKVLAAAVHILMLFPSSVSFSAACDEEWRRM 106
+E KR + NGT + +++ L+ VS +A E + +
Sbjct: 164 EEFHKRGFTTFIVTNGTIPERLEEMIKEDKLPTQLY---VSITAPDIETYNSV 213
>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 = 26.8 bits (58), Expect = 3.5
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 11/35 (31%)
Query: 53 EDELKKRQLME--LAIINGTYRDNNAKVLA--AAV 83
+ LKK ++ L + Y D++A LA A +
Sbjct: 19 KQALKK---LQASLKL----YADDSAPALAIKATM 46
>1spu_A Copper amine oxidase; oxidoreductase, TPQ, periplasmic, signal;
HET: PAQ; 2.00A {Escherichia coli} SCOP: b.30.2.1
d.17.2.1 d.17.2.1 d.82.1.1 PDB: 1d6y_A* 1d6u_A* 1d6z_A*
2wgq_A 1oac_A* 1dyu_A* 2w0q_A* 2wo0_A* 2wof_A* 2woh_A*
1lvn_A* 1jrq_A* 1qak_A* 1qaf_A* 1qal_A*
Length = 727
Score = 26.8 bits (58), Expect = 7.0
Identities = 13/111 (11%), Positives = 24/111 (21%), Gaps = 9/111 (8%)
Query: 103 WRRMAVAAAQETQRLLSPGMPGMATQLRTPTATPLGAPL---ILSPRIPAIPTSAASLLN 159
+ E + +G P+ I+ P + +
Sbjct: 563 MQVNQYNIGNEQDAAQKFDPGTIRLLSNPNKENRMGNPVSYQIIPYAGGTHPVAKGAQFA 622
Query: 160 GSPGGQLMNPADAHQLIYTPYADYANYAA------LTGSPLLTEYASADHS 204
QL T Y + T L +Y+ + S
Sbjct: 623 PDEWIYHRLSFMDKQLWVTRYHPGERFPEGKYPNRSTHDTGLGQYSKDNES 673
>1eep_A Inosine 5'-monophosphate dehydrogenase; alpha-beta barrel, TIM
barrel, IMPDH, IMP dehydrogenase, LOO purine
biosynthesis, oxidoreductase; 2.40A {Borrelia
burgdorferi} SCOP: c.1.5.1
Length = 404
Score = 26.0 bits (58), Expect = 9.9
Identities = 19/97 (19%), Positives = 33/97 (34%), Gaps = 13/97 (13%)
Query: 28 DNVTESSMKILNVEFSS----VNP----QQAEGEDELKKRQLMELAIINGTYRDNNAKVL 79
D VTES M I + Q + +++K + + NG + ++
Sbjct: 51 DTVTESQMAIAIAKEGGIGIIHKNMSIEAQRKEIEKVKTYKFQKTINTNGDTNEQKPEIF 110
Query: 80 AAAVHILML-----FPSSVSFSAACDEEWRRMAVAAA 111
A H+ F AC + ++ V AA
Sbjct: 111 TAKQHLEKSDAYKNAEHKEDFPNACKDLNNKLRVGAA 147
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 0.128 0.370
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,140,025
Number of extensions: 178214
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 326
Number of HSP's successfully gapped: 13
Length of query: 210
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 121
Effective length of database: 4,216,824
Effective search space: 510235704
Effective search space used: 510235704
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: 55 (25.0 bits)