RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4461
(95 letters)
>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
NMR {Saccharomyces cerevisiae}
Length = 108
Score = 128 bits (322), Expect = 2e-40
Identities = 41/76 (53%), Positives = 59/76 (77%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
RNGRKTLTTVQG+ EYDLK+I++ KK+FACNG +++ PE GE++QLQGDQR +C+++
Sbjct: 33 RNGRKTLTTVQGVPEEYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFM 92
Query: 80 TKTGLAKPEQLKVHGF 95
+ + +K+HGF
Sbjct: 93 ISQLGLQKKNIKIHGF 108
>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
d.64.1.1
Length = 126
Score = 126 bits (318), Expect = 2e-39
Identities = 59/76 (77%), Positives = 70/76 (92%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
RNGRKTLTTVQG++ +YD KK+V+A KK+FACNGTVIEHPEYGEV+QLQGDQR+NICQ+L
Sbjct: 51 RNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFL 110
Query: 80 TKTGLAKPEQLKVHGF 95
+ GLAK +QLKVHGF
Sbjct: 111 VEIGLAKDDQLKVHGF 126
>2xzm_F EIF1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_F
Length = 101
Score = 123 bits (309), Expect = 2e-38
Identities = 31/75 (41%), Positives = 50/75 (66%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
R GRK TTV+G+ E+D +KI++ KK +CN T++E E +V++L GD R I Q+L
Sbjct: 26 RRGRKCFTTVEGIPPEFDYEKIMKYWKKWLSCNATIVEEDEGKKVIKLNGDHRNQIQQFL 85
Query: 80 TKTGLAKPEQLKVHG 94
++ G+A + + +HG
Sbjct: 86 SEEGIAAVDNITIHG 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 = 65.6 bits (160), Expect = 1e-15
Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 20 RNGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQW 78
K + + G+ + +L K+ KK+ C G V + V+++QGD+R+ +
Sbjct: 41 GRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAVKD-----GVIEIQGDKRDLLKSL 95
Query: 79 LTKTG 83
L G
Sbjct: 96 LEAKG 100
>2hj0_A Putative citrate lyase, ALFA subunit; alpha beta protein.,
structural genomics, PSI-2, protein STR initiative; HET:
CIT; 2.70A {Streptococcus mutans}
Length = 519
Score = 33.8 bits (77), Expect = 0.004
Identities = 14/77 (18%), Positives = 31/77 (40%), Gaps = 1/77 (1%)
Query: 19 LRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ-RENICQ 77
R G + V ++ +K I A + +I+H + G V + R+ +
Sbjct: 73 FREGDYVMNMVLDEIAKMGIKDISIAPSSIANVHEPLIDHIKNGVVTNITSSGLRDKVGA 132
Query: 78 WLTKTGLAKPEQLKVHG 94
+++ + P ++ HG
Sbjct: 133 AISEGIMENPVIIRSHG 149
>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 = 33.5 bits (76), Expect = 0.006
Identities = 19/88 (21%), Positives = 31/88 (35%), Gaps = 17/88 (19%)
Query: 15 LLSLLRNGRKTLTTV---QGLSSEY--DLKKI-------VRACKKEFACN-GTVIEHPEY 61
L + G L + QG + +Y +L+ + V K A +I
Sbjct: 145 LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 62 GEVLQLQGDQRENICQWLTKTGLAKPEQ 89
E + QG NI +WL P++
Sbjct: 205 AEKVFTQG---LNILEWLENPS-NTPDK 228
>1xr4_A Putative citrate lyase alpha chain/citrate-ACP TR; the midwest
center for structural genomics, MCSG, structural
genomics; 2.37A {Salmonella typhimurium} SCOP: c.124.1.2
c.124.1.2
Length = 509
Score = 28.4 bits (63), Expect = 0.29
Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 1/77 (1%)
Query: 19 LRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ-RENICQ 77
R G K + V +E + + A + +IEH + G V Q+ R + +
Sbjct: 70 FRGGDKVVNMVMAKLAEMGFRDLTLASSSLIDAHWPLIEHIKNGVVRQIYTSGLRGKLGE 129
Query: 78 WLTKTGLAKPEQLKVHG 94
++ + P Q+ HG
Sbjct: 130 EISAGLMENPVQIHSHG 146
>3fxa_A SIS domain protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE; 1.60A {Listeria monocytogenes str}
Length = 201
Score = 24.9 bits (55), Expect = 4.6
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 17 SLLRNGRKTLTT----VQGLSSEYDLKKIVRACKKEFACNGTVI 56
++L N +T + L + +V+ +K C G ++
Sbjct: 6 AILDNIHQTWQEEANAISRLPEVTSEEALVKTVEKIAECTGKIV 49
>2qfm_A Spermine synthase; spermidine aminopropyltransferase, SPMSY,
structural genomics, structural genomics consortium,
SGC; HET: SPD MTA; 1.80A {Homo sapiens} PDB: 3c6k_A*
3c6m_A*
Length = 364
Score = 24.4 bits (53), Expect = 6.6
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 27 TTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGD 70
T G EYD+ ++V + N ++ ++G +L L GD
Sbjct: 123 PTADGRLVEYDIDEVVYDEDSPYQ-NIKILHSKQFGNILILSGD 165
>2v25_A Major cell-binding factor; antigen, adhesin, aspartate, glutamate,
transport, ABC transport, virulence factor, receptor;
1.49A {Campylobacter jejuni}
Length = 259
Score = 24.2 bits (53), Expect = 7.4
Identities = 4/43 (9%), Positives = 14/43 (32%), Gaps = 4/43 (9%)
Query: 24 KTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQ 66
+ Q +++ + + + + E P+Y +
Sbjct: 149 ANIGVAQAATTKKAIGEAAKKIGIDV----KFSEFPDYPSIKA 187
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
0.321 0.138 0.425
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,410,821
Number of extensions: 69219
Number of successful extensions: 154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 11
Length of query: 95
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 33
Effective length of database: 4,970,691
Effective search space: 164032803
Effective search space used: 164032803
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)