RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033711
(113 letters)
>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
NMR {Saccharomyces cerevisiae}
Length = 108
Score = 140 bits (355), Expect = 4e-45
Identities = 57/109 (52%), Positives = 80/109 (73%), Gaps = 2/109 (1%)
Query: 5 DIQVPAAFDPFADAKAEDSGAGSKEYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKDLK 64
I+ +FDPFAD D + Y+HIR+QQRNGRK+LTTVQG+ +E+ +ILK LK
Sbjct: 2 SIENLKSFDPFADTG--DDETATSNYIHIRIQQRNGRKTLTTVQGVPEEYDLKRILKVLK 59
Query: 65 KEFCCNGTVVQDPELGQVIQLQGDQRKNVSTFLVQAGIVKKEHIKMHGF 113
K+F CNG +V+DPE+G++IQLQGDQR V F++ ++K++IK+HGF
Sbjct: 60 KDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFMISQLGLQKKNIKIHGF 108
>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
d.64.1.1
Length = 126
Score = 135 bits (340), Expect = 1e-42
Identities = 62/111 (55%), Positives = 84/111 (75%), Gaps = 2/111 (1%)
Query: 5 DIQVPAAFDPFADAKAEDS--GAGSKEYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKD 62
IQ +FDPFADA D AG+++Y+HIR+QQRNGRK+LTTVQG+ ++ K++K
Sbjct: 16 AIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKA 75
Query: 63 LKKEFCCNGTVVQDPELGQVIQLQGDQRKNVSTFLVQAGIVKKEHIKMHGF 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 = 126 bits (319), Expect = 1e-39
Identities = 41/96 (42%), Positives = 61/96 (63%)
Query: 17 DAKAEDSGAGSKEYVHIRVQQRNGRKSLTTVQGLKKEFSYNKILKDLKKEFCCNGTVVQD 76
D + E++ + ++HIRV+QR GRK TTV+G+ EF Y KI+K KK CN T+V++
Sbjct: 5 DFQFENNIDDFQTHIHIRVEQRRGRKCFTTVEGIPPEFDYEKIMKYWKKWLSCNATIVEE 64
Query: 77 PELGQVIQLQGDQRKNVSTFLVQAGIVKKEHIKMHG 112
E +VI+L GD R + FL + GI ++I +HG
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 = 58.7 bits (142), Expect = 1e-12
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 27 SKEYVHIRVQ---QRNGRKSLTTVQGLK-KEFSYNKILKDLKKEFCCNGTVVQDPELGQV 82
K +R+Q K + + G+ + K+ +LKK+ C G V V
Sbjct: 27 PKGDGVVRIQRQTSGRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAVKDG-----V 81
Query: 83 IQLQGDQRKNVSTFLVQAGIVKK 105
I++QGD+R + + L G+ K
Sbjct: 82 IEIQGDKRDLLKSLLEAKGMKVK 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 = 27.9 bits (61), Expect = 0.88
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 18/71 (25%)
Query: 51 KKEFSYNKIL----KDLKKEFCCNGT------VVQDPELGQVIQLQGDQRKNVSTFLV-- 98
+ ++ Y IL F C ++ E+ +I + + L
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS--KDAVSGTLRLFWT 70
Query: 99 ----QAGIVKK 105
Q +V+K
Sbjct: 71 LLSKQEEMVQK 81
>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 = 23.8 bits (52), Expect = 6.5
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
>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 = 6.6
Identities = 5/24 (20%), Positives = 7/24 (29%)
Query: 32 HIRVQQRNGRKSLTTVQGLKKEFS 55
H R++Q N S
Sbjct: 82 HARIEQWNHNFSFDAHDPCVFHSP 105
>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 = 7.8
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 = 8.5
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
0.318 0.135 0.384
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: 1,680,293
Number of extensions: 85101
Number of successful extensions: 149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 18
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)