RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1520
(107 letters)
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 113 bits (286), Expect = 5e-31
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 3/87 (3%)
Query: 20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
E +++ A WLPVDIYIGG EHA++HL Y RF + G + EP K+LL QG
Sbjct: 528 YKEGMLDSEAANYWLPVDIYIGGIEHAIMHLLYFRFFHKLMRDAGMVNSDEPAKQLLCQG 587
Query: 80 MIMGQTYR---EKTSGKYLKPDEVFTK 103
M++ + E ++ P + +
Sbjct: 588 MVLADAFYYVGENGERNWVSPVDAIVE 614
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus}
PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Length = 878
Score = 108 bits (273), Expect = 3e-29
Identities = 36/82 (43%), Positives = 47/82 (57%), Gaps = 2/82 (2%)
Query: 20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
N + F+ +KA W+PVD YIGG EHAVLHL Y+RF FLH G EPF+ L QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575
Query: 80 MIMGQTYR--EKTSGKYLKPDE 99
M++ T + G ++ E
Sbjct: 576 MVLAWTDFGPVEVEGSVVRLPE 597
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 75.4 bits (185), Expect = 2e-17
Identities = 14/84 (16%), Positives = 27/84 (32%), Gaps = 6/84 (7%)
Query: 21 AEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGM 80
+ ++ + W P+D GK+ HL + F + K + V G
Sbjct: 589 EIIHEMKEEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAIF-----REEHWPKGIAVNGF 643
Query: 81 IMGQT-YREKTSGKYLKPDEVFTK 103
+ K+ G L + +
Sbjct: 644 GTLEGQKMSKSKGNVLNFIDAIEE 667
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 52.3 bits (125), Expect = 2e-09
Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 6/77 (7%)
Query: 28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYR 87
++ + W P+D GK+ HL + F + K + V G + +
Sbjct: 596 EEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAI-----FREEHWPKGIAVNGFGTLEGQK 650
Query: 88 -EKTSGKYLKPDEVFTK 103
K+ G L + +
Sbjct: 651 MSKSKGNVLNFIDAIEE 667
>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 = 27.5 bits (60), Expect = 0.87
Identities = 16/90 (17%), Positives = 28/90 (31%), Gaps = 17/90 (18%)
Query: 9 QIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVL-HLYYARF---IAHFLHAQG 64
+ K + S NA S + Q + Y K + Y R I FL
Sbjct: 504 EQKIRHDSTAWNASGSI-LNTLQQ---LKFY---KPYICDNDPKYERLVNAILDFLPKIE 556
Query: 65 KTPAREPFKRLLVQGM------IMGQTYRE 88
+ + LL + I + +++
Sbjct: 557 ENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586
Score = 24.8 bits (53), Expect = 8.0
Identities = 5/27 (18%), Positives = 9/27 (33%)
Query: 51 YYARFIAHFLHAQGKTPAREPFKRLLV 77
Y+ I H L F+ + +
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFL 498
>2pw9_A Putative formate dehydrogenase accessory protein; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.10A {Desulfotalea psychrophila LSV54}
SCOP: c.97.1.5
Length = 268
Score = 26.8 bits (60), Expect = 1.3
Identities = 9/35 (25%), Positives = 11/35 (31%), Gaps = 7/35 (20%)
Query: 35 PVDIYIGGKEHAVL-----HLYYARFIAHFLHAQG 64
P I + + L F A FL QG
Sbjct: 36 PYAIALNDRVIGSSMVLPVDLEE--FGAGFLFGQG 68
>3hr0_A COG4; conserved oligomeric golgi complex, intracellular
trafficking, vesicle tethering, multisubunit tethering
complex, exocyst; 1.90A {Homo sapiens}
Length = 263
Score = 26.1 bits (57), Expect = 2.5
Identities = 7/30 (23%), Positives = 11/30 (36%)
Query: 54 RFIAHFLHAQGKTPAREPFKRLLVQGMIMG 83
R + +L R+ F RL I+
Sbjct: 187 RSLIAYLTTVTTWTIRDKFARLSQMATILN 216
>2i10_A Putative TETR transcriptional regulator; structural genomics,
APC5890, TETR family, PSI-2, protein ST initiative;
HET: MSE NPO PGE; 2.05A {Rhodococcus SP} SCOP: a.4.1.9
a.121.1.1
Length = 202
Score = 25.9 bits (57), Expect = 2.6
Identities = 8/39 (20%), Positives = 9/39 (23%), Gaps = 3/39 (7%)
Query: 41 GGKE---HAVLHLYYARFIAHFLHAQGKTPAREPFKRLL 76
G K L Y A + A E L
Sbjct: 53 GSKRDLFEKTLDRYMCERTLQLEEAMVRPTAHEAVLDFL 91
>1f0l_A Diphtheria toxin; bacterial toxin, ADP-ribosylation, transmembrane;
HET: APU; 1.55A {Corynebacterium diphtheriae} SCOP:
b.2.1.1 d.166.1.1 f.1.2.1 PDB: 1ddt_A* 1mdt_A* 1sgk_A
1tox_A* 1xdt_T 4ae0_A 4ae1_A 1dtp_A*
Length = 535
Score = 24.5 bits (52), Expect = 9.3
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 11 KTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHA 62
K + + R I+ +V+F K+ +Y+G HA LH+ + R + +H+
Sbjct: 456 KIRMRCRAIDGDVTFCRPKSP------VYVGNGVHANLHVAFHRSSSEKIHS 501
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
0.320 0.134 0.398
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,584,962
Number of extensions: 83496
Number of successful extensions: 139
Number of sequences better than 10.0: 1
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 17
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
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 (21.8 bits)
S2: 51 (23.3 bits)