RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14161
(91 letters)
>3mca_B Protein DOM34, elongation factor 1 alpha-like protein; protein
protein complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 390
Score = 114 bits (287), Expect = 2e-32
Identities = 44/87 (50%), Positives = 61/87 (70%), Gaps = 1/87 (1%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESNTGSSTSS 60
MKL+ KNI +K+ SG + + PEE EDMWH YN++ GD ++AST+R+V TGS++ S
Sbjct: 1 MKLIQKNI-EKNGSGWITMCPEEPEDMWHLYNILQVGDQLKASTVRRVVKVGATGSTSGS 59
Query: 61 RVRTMLTISVESIDFDTQACVLRLKGN 87
RV L I VE++DFDT+A L +KG
Sbjct: 60 RVVMKLRILVENMDFDTKAAQLHIKGR 86
>3oby_A Protein pelota homolog; SM fold, hydrolase; 2.90A {Archaeoglobus
fulgidus}
Length = 352
Score = 107 bits (269), Expect = 4e-30
Identities = 31/86 (36%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESNTGSSTSS 60
M++V +N+ +D G + L+PE +D+WH +I +GD V A+T R QS S
Sbjct: 1 MQIVEENL--RDNEGEIKLIPETLDDLWHLRFIIEKGDVVFATTKRASQSSD-KLRSDKE 57
Query: 61 RVRTMLTISVESIDFDTQACVLRLKG 86
V L I VE ++F A LR+ G
Sbjct: 58 MVTVRLGIEVEKVEFHRFANRLRVSG 83
>2vgn_A DOM34; translation termination factor, protein biosynthesis,
translation regulation, cell division, mRNA
degradation; 2.5A {Saccharomyces cerevisiae} SCOP:
b.38.4.1 c.55.4.2 d.79.3.2 PDB: 2vgm_A 3izq_0 3j16_A*
Length = 386
Score = 106 bits (265), Expect = 2e-29
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 3/87 (3%)
Query: 1 MKLVHKNIN-DKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESNTGSSTS 59
MK++ + V+ L+PE+ ED++ Y ++ + D + + +
Sbjct: 1 MKVISLKKDSFNKGGAVITLLPEDKEDLFTVYQIVDKDDELIFKKKFTSKLDE--AGKKK 58
Query: 60 SRVRTMLTISVESIDFDTQACVLRLKG 86
S L I V S DFD + L+ KG
Sbjct: 59 STDLVKLKIKVISEDFDMKDEYLKYKG 85
>3agj_B Protein pelota homolog; GTP binding, translation-hydrolase
complex; HET: GTP; 2.30A {Aeropyrum pernix}
Length = 358
Score = 103 bits (257), Expect = 3e-28
Identities = 28/91 (30%), Positives = 38/91 (41%), Gaps = 8/91 (8%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESNTGSSTSS 60
M++ +K +V L PE ED+W + GD VR T R V GS
Sbjct: 3 MRVEVL----DNKRRIVRLRPESEEDLWLLRITLRPGDVVRKRTSRDVP----VGSGRKE 54
Query: 61 RVRTMLTISVESIDFDTQACVLRLKGNCGNC 91
RV L I ++SI+F LR+ G
Sbjct: 55 RVVMTLRIRLDSIEFQPFTGKLRISGIVVEG 85
>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell
cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1
c.55.4.2 d.79.3.2
Length = 347
Score = 102 bits (255), Expect = 5e-28
Identities = 23/89 (25%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESN-TGSSTS 59
M+++ +++ K+ + E +D+W+ N+++EGD V A T R+V+ ++ S
Sbjct: 1 MRILEEDL----KNSTYRIRIESLDDLWYLRNILSEGDEVSAITFRRVEESADVQRSRER 56
Query: 60 SRVRTMLTISVESIDFDTQACVLRLKGNC 88
R+ + + VE I+F LR+ G
Sbjct: 57 ERIPITIRLKVEKIEFQDFDNRLRILGTV 85
>3j15_A Protein pelota; ribosome recycling, ribosome, archaea,
translation-transport complex; HET: ADP; 6.60A
{Pyrococcus furiosus}
Length = 357
Score = 97.6 bits (242), Expect = 3e-26
Identities = 26/92 (28%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKV-QSESNTGSSTS 59
M+++ + K K G V + E +D+WH Y++I GD V A T+RK Q + +
Sbjct: 1 MEILEE----KPKEGKVKVKAETLDDLWHLYHIIDPGDIVYAKTLRKQAQRADSLRAEKV 56
Query: 60 SRVRTMLTISVESIDFDTQACVLRLKGNCGNC 91
+ L + E I+F A +R+ G
Sbjct: 57 EVIPVFLGVQAEKINFHKFANQVRVTGPIVYA 88
>3obw_A Protein pelota homolog; SM fold, hydrolase; 2.60A {Sulfolobus
solfataricus}
Length = 364
Score = 97.1 bits (241), Expect = 7e-26
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 9/87 (10%)
Query: 1 MKLVHKNINDKDKSGVVALVPEESEDMWHAYNLITEGDSVRASTIRKVQSESNTGSSTSS 60
M+++ + +K V L E +D+W + ++ + D V A T R V S
Sbjct: 21 MRILEFD----EKRQAVKLHIESEDDLWLLHLILEKDDKVVAKTTRDVG-----LGKESR 71
Query: 61 RVRTMLTISVESIDFDTQACVLRLKGN 87
R+ + + V+ +F LR+ G
Sbjct: 72 RIPMTIILKVDYTEFQEFTNRLRIHGI 98
>4afh_A ACHBP; acetylcholine-binding protein, nicotinic receptor, ION
chann; HET: NAG BMA MAN L0B; 1.88A {Capitella teleta}
PDB: 4afg_A*
Length = 230
Score = 24.9 bits (54), Expect = 3.8
Identities = 2/13 (15%), Positives = 4/13 (30%)
Query: 72 SIDFDTQACVLRL 84
D +C +
Sbjct: 138 VSQDDVDSCHFQF 150
>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster
biosynthesis, metal transport; 1.35A {Arabidopsis
thaliana} PDB: 2jnv_A
Length = 154
Score = 24.8 bits (54), Expect = 4.2
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 70 VESIDFDTQACVLRLKGNCGNC 91
V + D ++L+G CG+C
Sbjct: 27 VALHEIDGNVVRVKLQGACGSC 48
>1t5c_A CENP-E protein, centromeric protein E; kinesin motor-domain-ADP
complex, stranded beta-sheet core with solvent exposed
alpha-helices; HET: ADP PIN; 2.50A {Homo sapiens}
Length = 349
Score = 24.8 bits (55), Expect = 4.5
Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 15/55 (27%)
Query: 29 HAYNLITEGDSVRASTIRKVQSESNTGS----STSSRVRTMLTISVESIDFDTQA 79
A IT+G+ R G SSR T+ + +ES + +
Sbjct: 176 MALKWITKGEKSRH-----------YGETKMNQRSSRSHTIFRMILESREKGEPS 219
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
0.312 0.126 0.353
Gapped
Lambda K H
0.267 0.0594 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,192,784
Number of extensions: 51725
Number of successful extensions: 235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 22
Length of query: 91
Length of database: 6,701,793
Length adjustment: 58
Effective length of query: 33
Effective length of database: 5,082,375
Effective search space: 167718375
Effective search space used: 167718375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.7 bits)