RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 039810
(113 letters)
>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
NMR {Saccharomyces cerevisiae}
Length = 108
Score = 140 bits (355), Expect = 5e-45
Identities = 56/109 (51%), Positives = 79/109 (72%), Gaps = 2/109 (1%)
Query: 5 DTQIPSAFDPFAEANAEDSGAGSKDYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKDLK 64
+ +FDPFA+ D + +Y+HIR+QQRNGRK+LTTVQG+ +E+ +ILK LK
Sbjct: 2 SIENLKSFDPFADTG--DDETATSNYIHIRIQQRNGRKTLTTVQGVPEEYDLKRILKVLK 59
Query: 65 KEFCCNGTVVQDPELGQVIQLQGDQRKNVSTFLVQAGIVKKEFIKIHGF 113
K+F CNG +V+DPE+G++IQLQGDQR V F++ ++K+ IKIHGF
Sbjct: 60 KDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFMISQLGLQKKNIKIHGF 108
>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
d.64.1.1
Length = 126
Score = 136 bits (344), Expect = 4e-43
Identities = 61/111 (54%), Positives = 84/111 (75%), Gaps = 2/111 (1%)
Query: 5 DTQIPSAFDPFAEANAEDS--GAGSKDYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKD 62
Q +FDPFA+A+ D AG++DY+HIR+QQRNGRK+LTTVQG+ ++ K++K
Sbjct: 16 AIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKA 75
Query: 63 LKKEFCCNGTVVQDPELGQVIQLQGDQRKNVSTFLVQAGIVKKEFIKIHGF 113
KK+F CNGTV++ PE G+VIQLQGDQRKN+ FLV+ G+ K + +K+HGF
Sbjct: 76 FKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKDDQLKVHGF 126
>2xzm_F EIF1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_F
Length = 101
Score = 128 bits (322), Expect = 4e-40
Identities = 41/96 (42%), Positives = 59/96 (61%)
Query: 17 EANAEDSGAGSKDYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKDLKKEFCCNGTVVQD 76
+ E++ + ++HIRV+QR GRK TTV+G+ EF Y KI+K KK CN T+V++
Sbjct: 5 DFQFENNIDDFQTHIHIRVEQRRGRKCFTTVEGIPPEFDYEKIMKYWKKWLSCNATIVEE 64
Query: 77 PELGQVIQLQGDQRKNVSTFLVQAGIVKKEFIKIHG 112
E +VI+L GD R + FL + GI + I IHG
Sbjct: 65 DEGKKVIKLNGDHRNQIQQFLSEEGIAAVDNITIHG 100
>1d1r_A Hypothetical 11.4 KD protein YCIH in PYRF-OSMB intergenic region;
alpha-beta plait, open-faced beta sandwich,
ferredoxin-like fold; NMR {Escherichia coli} SCOP:
d.64.1.1
Length = 116
Score = 59.4 bits (144), Expect = 5e-13
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 34 RVQQRNGRKSLTTVQGLK-KEFSYNKILKDLKKEFCCNGTVVQDPELGQVIQLQGDQRKN 92
R K + + G+ + K+ +LKK+ C G V VI++QGD+R
Sbjct: 37 RQTSGRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAVKDG-----VIEIQGDKRDL 91
Query: 93 VSTFLVQAGIVKK 105
+ + L G+ K
Sbjct: 92 LKSLLEAKGMKVK 104
>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 = 29.1 bits (64), Expect = 0.29
Identities = 12/75 (16%), Positives = 25/75 (33%), Gaps = 19/75 (25%)
Query: 51 KKEFSYNKIL----KDLKKEFCCNGT------VVQDPELGQVIQLQGDQRKNVSTFLV-- 98
+ ++ Y IL F C ++ E+ +I + + L
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS--KDAVSGTLRLFWT 70
Query: 99 ----QAGIVKKEFIK 109
Q +V+K F++
Sbjct: 71 LLSKQEEMVQK-FVE 84
>3lew_A SUSD-like carbohydrate binding protein; structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 1PE 2PE; 1.70A {Bacteroides vulgatus}
Length = 495
Score = 26.8 bits (59), Expect = 1.9
Identities = 12/56 (21%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 16 AEANAEDSGAGSKDYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKDLKKEFCCNG 71
AEA A + + + ++ ++ G K++ T L ++ I + +KE G
Sbjct: 354 AEAKAHLNDPDAINKLN-DLKTARGAKTIHT--NLSQQDLLETIWLERRKELWGEG 406
>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 = 26.2 bits (57), Expect = 3.1
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 17/69 (24%)
Query: 3 EFDTQIPSAFDPFAEANAEDSGAG--SK--DYVHIRVQQRNGRKSLTTVQGLKKEFSYNK 58
+F+ +P + FA + + A K YV V+ G +++
Sbjct: 36 QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSK--------VG-----QFDQ 82
Query: 59 ILKDLKKEF 67
+L EF
Sbjct: 83 VLNLCLTEF 91
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 25.6 bits (56), Expect = 4.6
Identities = 5/17 (29%), Positives = 8/17 (47%), Gaps = 4/17 (23%)
Query: 2 SEFDT----QIPSAFDP 14
FD QIP+ ++
Sbjct: 980 LRFDRLVAGQIPTGWNA 996
>2izv_A Suppressor of cytokine signaling 4; signal transduction inhibitor,
growth regulation, signal transduction, SH2 domain,
nuclear protein; 2.55A {Homo sapiens} SCOP: a.271.1.1
d.93.1.1
Length = 187
Score = 24.8 bits (54), Expect = 6.0
Identities = 5/24 (20%), Positives = 7/24 (29%)
Query: 32 HIRVQQRNGRKSLTTVQGLKKEFS 55
H R++Q N S
Sbjct: 82 HARIEQWNHNFSFDAHDPCVFHSP 105
>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA
binding protein/DNA), transcription/DNA complex; HET:
DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB:
1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A
1du0_A* 1ztr_A 1enh_A 2p81_A
Length = 61
Score = 23.4 bits (51), Expect = 8.1
Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 35 VQQRNGRKSLTTVQ--GLKKEFSYNKIL 60
+ ++ R + ++ Q LK+EF+ N+ L
Sbjct: 1 MAEKRPRTAFSSEQLARLKREFNENRYL 28
>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA
binding, homeodomain, homeotic proteins, development,
specificity; HET: DNA; 2.40A {Drosophila melanogaster}
SCOP: a.4.1.1 PDB: 9ant_A*
Length = 81
Score = 24.0 bits (52), Expect = 8.2
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 31 VHIRVQQRNGRKSLTTVQG--LKKEFSYNKIL 60
+R GR++ T Q L+KEF N L
Sbjct: 14 AGTNGLRRRGRQTYTRYQTLELEKEFHTNHYL 45
>2vif_A Suppressor of cytokine signalling 6; growth regulation, signal
transduction inhibitor, KIT regula phosphotyrosine,
signaling protein; HET: PTR; 1.45A {Homo sapiens}
Length = 141
Score = 24.4 bits (53), Expect = 8.8
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 32 HIRVQQRNGRKSLTTVQGLKK 52
H R++ NGR S ++
Sbjct: 72 HTRIEHSNGRFSFYEQPDVEG 92
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 0.135 0.382
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,669,943
Number of extensions: 84171
Number of successful extensions: 163
Number of sequences better than 10.0: 1
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 21
Length of query: 113
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 36
Effective length of database: 4,551,876
Effective search space: 163867536
Effective search space used: 163867536
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.3 bits)