RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14865
(98 letters)
>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 = 30.8 bits (69), Expect = 0.046
Identities = 19/92 (20%), Positives = 28/92 (30%), Gaps = 30/92 (32%)
Query: 14 AQRVLRLSLDEFALPKFYLLFGVSLCIPANNTI--------FIKSI---SETLAK-NEP- 60
+ R L LS L +P + F K + +E A +EP
Sbjct: 5 STRPLTLSHGSLE---------HVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 61 ---HLTLEFLEECISGFKQSTI-----VLKHL 84
L +FL S + S + VL
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLC 87
Score = 24.2 bits (52), Expect = 9.8
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 13/41 (31%)
Query: 6 VRCYRHEEAQRVLRLSLDEF---AL--------PKFYLLFG 35
++ Y A+ + + D+ AL + +FG
Sbjct: 123 IKNYI--TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
>2owl_A Recombination-associated protein RDGC; replication, RECA; 2.40A
{Escherichia coli}
Length = 303
Score = 25.6 bits (56), Expect = 3.0
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 6/68 (8%)
Query: 26 ALPKFYLLFGVSLCIPANNTIFIKSISETLAKNEPHLTLEFLEECISGFKQSTIVLKHLC 85
A +F N I + S A++ TL L + + + +++
Sbjct: 119 AFSRFSQTMMW--IDTVNGLIMVDCASAKKAED----TLALLRKSLGSLPVVPLSMENPI 172
Query: 86 LEYMTPWL 93
+T W+
Sbjct: 173 ELTLTEWV 180
>1rl6_A Protein (ribosomal protein L6); RNA-binding protein, gentamicin
resistance, alpha/beta protein; 2.00A {Geobacillus
stearothermophilus} SCOP: d.141.1.1 d.141.1.1 PDB:
1giy_H 1ml5_h* 1c04_B 1yl3_H 2b66_H 2b9n_H 2b9p_H 1eg0_J
487d_J
Length = 177
Score = 25.1 bits (56), Expect = 3.6
Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 10/49 (20%)
Query: 9 YRHEEAQRVLRLSL-----DEFALPKFYLLFGVSLCIPANNTIFIKSIS 52
YR + + L LS+ E + G+ + +P+ I +K
Sbjct: 93 YRASKQGKKLVLSVGYSHPVEIEPEE-----GLEIEVPSQTKIIVKGAD 136
>3bbo_I Ribosomal protein L6; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 223
Score = 25.3 bits (56), Expect = 3.7
Identities = 8/49 (16%), Positives = 16/49 (32%), Gaps = 10/49 (20%)
Query: 9 YRHEEAQRVLRLSL-----DEFALPKFYLLFGVSLCIPANNTIFIKSIS 52
YR + L L+L + +P + + + N I +
Sbjct: 137 YRATVDGKELVLNLGFSHPVKMQIPD-----SLKVKVEENTRITVSGYD 180
>2zjr_E 50S ribosomal protein L6; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.141.1.1 d.141.1.1 PDB: 1nwx_E*
1xbp_E* 2zjp_E* 2zjq_E 1nwy_E 3cf5_E* 3dll_E* 3pio_E*
3pip_E* 1pnu_E 1pny_E 1vor_H 1vou_H 1vow_H 1voy_H 1vp0_H
Length = 185
Score = 25.1 bits (56), Expect = 3.8
Identities = 8/49 (16%), Positives = 17/49 (34%), Gaps = 10/49 (20%)
Query: 9 YRHEEAQRVLRLSL-----DEFALPKFYLLFGVSLCIPANNTIFIKSIS 52
+R + + L +++ P GV+ +P I + I
Sbjct: 94 FRAKLTGKALEMNIGYSHPVIIEPPA-----GVTFAVPEPTRIDVSGID 137
>3v2d_H 50S ribosomal protein L6; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_F 2hgj_H 2hgq_H 2hgu_H 1vsa_F 2j03_H 2jl6_H 2jl8_H
2v47_H 2v49_H 2wdi_H 2wdj_H 2wdl_H 2wdn_H 2wh2_H 2wh4_H
2wrj_H 2wrl_H 2wro_H 2wrr_H ...
Length = 180
Score = 25.1 bits (56), Expect = 3.9
Identities = 9/49 (18%), Positives = 17/49 (34%), Gaps = 10/49 (20%)
Query: 9 YRHEEAQRVLRLSL-----DEFALPKFYLLFGVSLCIPANNTIFIKSIS 52
YR R L L++ P+ G++ +P + + I
Sbjct: 94 YRARLVGRALELTVGFSHPVVVEPPE-----GITFEVPEPTRVRVSGID 137
>1nkw_E 50S ribosomal protein L6; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond formation;
3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB:
1sm1_E*
Length = 212
Score = 25.2 bits (56), Expect = 3.9
Identities = 8/49 (16%), Positives = 17/49 (34%), Gaps = 10/49 (20%)
Query: 9 YRHEEAQRVLRLSL-----DEFALPKFYLLFGVSLCIPANNTIFIKSIS 52
+R + + L +++ P GV+ +P I + I
Sbjct: 121 FRAKLTGKALEMNIGYSHPVIIEPPA-----GVTFAVPEPTRIDVSGID 164
>1un8_A Dihydroxyacetone kinase; transferase; HET: MYY; 2.5A {Citrobacter
freundii} SCOP: a.208.1.1 c.119.1.2 PDB: 1un9_A*
Length = 552
Score = 24.9 bits (55), Expect = 5.1
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 47 FIKSISETLAKNEPHLT 63
++ ++ TL+ E HL
Sbjct: 361 IVELVTATLSDLETHLN 377
>3msv_A Nuclear import adaptor, NRO1; helix repeats, heat repeats, protein
binding; 2.18A {Schizosaccharomyces pombe}
Length = 393
Score = 25.0 bits (53), Expect = 5.5
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 13 EAQRVLRLSLDEFALPK-FYLLFGVSL 38
EA R+LR + D LPK F+ + +L
Sbjct: 98 EADRILRNTEDISTLPKDFHAAYSSAL 124
>3qtm_A Uncharacterized protein C4B3.07; tetratricopeptide repeat,
enhancer of translation terminatio translation; HET:
CME; 2.15A {Schizosaccharomyces pombe} PDB: 3qtn_B
Length = 346
Score = 25.0 bits (53), Expect = 5.9
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 13 EAQRVLRLSLDEFALPK-FYLLFGVSL 38
EA R+LR + D LPK F+ + +L
Sbjct: 51 EADRILRNTEDISTLPKDFHAAYSSAL 77
>2x5f_A Aspartate_tyrosine_phenylalanine pyridoxal-5' phosphate-dependent
aminotransferase...; HET: PLP EPE; 1.80A {Staphylococcus
aureus}
Length = 430
Score = 24.6 bits (54), Expect = 7.0
Identities = 4/35 (11%), Positives = 14/35 (40%)
Query: 51 ISETLAKNEPHLTLEFLEECISGFKQSTIVLKHLC 85
+ + + H T + L E + + + +++
Sbjct: 163 QTYPIFDKDGHYTTDSLVEALQSYNKDKVIMILNY 197
>2f2f_C CDT C, cytolethal distending toxin C; actinobacillus
actinomycetemcomitans, oligomerization, stability and
toxic activity; 2.40A {Aggregatibacter
actinomycetemcomitans} SCOP: b.42.2.1
Length = 186
Score = 24.1 bits (51), Expect = 8.5
Identities = 11/63 (17%), Positives = 16/63 (25%), Gaps = 11/63 (17%)
Query: 33 LFGVSLCIPANNTIF-----------IKSISETLAKNEPHLTLEFLEECISGFKQSTIVL 81
G + C ++T+F IK LE C T L
Sbjct: 101 GEGTTDCKDIDHTVFNLIPTNTGAFLIKDALLGFCMTSHDFDDLRLEPCGISVSGRTFSL 160
Query: 82 KHL 84
+
Sbjct: 161 AYQ 163
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
0.325 0.139 0.426
Gapped
Lambda K H
0.267 0.0600 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,390,519
Number of extensions: 65747
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 18
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.7 bits)