RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2576
(80 letters)
>3ecs_A Translation initiation factor EIF-2B subunit alpha; eukaryotic
translation initiation factor 2balpha (EIF2balpha);
2.65A {Homo sapiens}
Length = 315
Score = 65.9 bits (161), Expect = 8e-15
Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 6/69 (8%)
Query: 11 PVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPP 70
P Y V+A +K F + QD + F L ++ +P DY P
Sbjct: 225 PFY---VVAESFKFVRLFPLN-QQDVPDKFKYKADTLKV--AQTGQDLKEEHPWVDYTAP 278
Query: 71 ELVSLFISN 79
L++L ++
Sbjct: 279 SLITLLFTD 287
>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
SCOP: c.124.1.5
Length = 276
Score = 39.5 bits (93), Expect = 2e-05
Identities = 13/67 (19%), Positives = 20/67 (29%), Gaps = 16/67 (23%)
Query: 11 PVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPP 70
P Y V A YK + + E + V++ N +D P
Sbjct: 213 PFY---VAAETYKF--------HPTLKSGDVMLM-----ERDLIRGNVRIRNVLFDVTPW 256
Query: 71 ELVSLFI 77
+ V I
Sbjct: 257 KYVRGII 263
>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase,
hexamer, rossmann fold; 2.50A {Thermococcus
kodakaraensis} PDB: 3a9c_A* 3vm6_A*
Length = 338
Score = 31.9 bits (73), Expect = 0.011
Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 16/73 (21%)
Query: 11 PVYQVIVLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLS-YEHRDLVSKVQVFNPE 64
+ A YK P+ + P +V+ E + ++V+NP
Sbjct: 245 WTM---IAAETYKFHPE-TMLGQL------VEIEMRDPTEVIPEDELKTWPKNIEVWNPA 294
Query: 65 YDYVPPELVSLFI 77
+D PPE V + I
Sbjct: 295 FDVTPPEYVDVII 307
>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 = 28.7 bits (63), Expect = 0.15
Identities = 11/75 (14%), Positives = 30/75 (40%), Gaps = 17/75 (22%)
Query: 5 GSNLCSPVYQVIVLAPL--YKLSPQFLC----SYDQ--DTFNNFISP--EKVLSYEHRDL 54
+ + + L L YK ++C Y++ + +F+ E ++ ++ DL
Sbjct: 511 STAWNASGSILNTLQQLKFYK---PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 55 VSKVQV-FNPEYDYV 68
+++ E + +
Sbjct: 568 ---LRIALMAEDEAI 579
Score = 24.4 bits (52), Expect = 5.9
Identities = 13/66 (19%), Positives = 20/66 (30%), Gaps = 10/66 (15%)
Query: 12 VYQVIV---LAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYV 68
+ Q V L YK FL S + ++ + L + QVF V
Sbjct: 78 MVQKFVEEVLRINYK----FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK--YNV 131
Query: 69 P-PELV 73
+
Sbjct: 132 SRLQPY 137
>1t5o_A EIF2BD, translation initiation factor EIF2B, subunit DELT; subunit
delta, structural GEN PSI, protein structure initiative;
1.90A {Archaeoglobus fulgidus} SCOP: c.124.1.5
Length = 351
Score = 28.4 bits (64), Expect = 0.18
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 13/76 (17%)
Query: 13 YQVIVLA-----PLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEHRDLVSK-VQVF 61
Y V V+A P Y +P ++D + + E+++ R + V+V+
Sbjct: 248 YTVSVVAKHHNIPFYVAAP--KATFDWERTAKDVVIEERPREELIFCGKRQIAPLNVKVY 305
Query: 62 NPEYDYVPPELVSLFI 77
NP +D P E V+ I
Sbjct: 306 NPAFDPTPLENVTALI 321
>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
genomics, translation initiation factor, AIF-2B subunit,
PSI; 2.60A {Thermotoga maritima} SCOP: c.124.1.5
Length = 347
Score = 28.0 bits (63), Expect = 0.25
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 58 VQVFNPEYDYVPPELVSLFI 77
V+V NP +D L++ I
Sbjct: 306 VKVLNPAFDVTENTLITAII 325
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
2yrf_A*
Length = 374
Score = 28.1 bits (63), Expect = 0.26
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 58 VQVFNPEYDYVPPELVSLFI 77
V VFNP +D P +L+S I
Sbjct: 331 VPVFNPAFDITPHDLISGII 350
>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
structure initiative eukaryotic initiation factor; 2.10A
{Leishmania major} SCOP: c.124.1.5
Length = 383
Score = 26.4 bits (59), Expect = 0.83
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 56 SKVQVFNPEYDYVPPELVSLFI 77
+ ++NP +D P EL++ I
Sbjct: 337 PHLSIWNPVFDITPSELITGGI 358
>1w2w_B 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 191
Score = 24.9 bits (55), Expect = 3.1
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 58 VQVFNPEYDYVPPELVSLFI 77
+ V+NP +D P EL+ I
Sbjct: 152 INVWNPAFDITPHELIDGII 171
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 24.5 bits (52), Expect = 4.6
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 9/37 (24%)
Query: 44 EKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80
EK + L + ++++ D P +L I T
Sbjct: 18 EK---QALKKLQASLKLYAD--DSAP----ALAIKAT 45
>3gwj_A Arylphorin; mono-glucosylated N-glycan, stability, glycosyla
glycoprotein, secreted, storage protein, oxygen
transport; HET: NAG BMA MAN GLC; 2.43A {Antheraea
pernyi}
Length = 674
Score = 24.5 bits (53), Expect = 5.5
Identities = 14/65 (21%), Positives = 26/65 (40%)
Query: 12 VYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPE 71
V Q+ YK+ + + D + N + E L + K F+ +D + E
Sbjct: 26 VDQLNTNDEYYKIGKDYDIEANIDNYTNKKAVEDFLKMYRCGFLPKYNEFSVFHDKLRDE 85
Query: 72 LVSLF 76
++LF
Sbjct: 86 AIALF 90
>3ces_A MNMG, tRNA uridine 5-carboxymethylaminomethyl modificat GIDA, GIDA;
tRNA modification, FAD binding domain, structural
genomics; 2.41A {Escherichia coli} PDB: 3cp2_A 3g05_A
Length = 651
Score = 24.0 bits (53), Expect = 6.3
Identities = 4/7 (57%), Positives = 5/7 (71%)
Query: 64 EYDYVPP 70
EYD+ P
Sbjct: 366 EYDFFDP 372
>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modificat MNMG;
modification, 5-carboxymethylaminomethyl uridine, WOBB
uridine, FAD; HET: FAD; 2.30A {Aquifex aeolicus} PDB:
2zxh_A* 2e57_A*
Length = 637
Score = 24.0 bits (53), Expect = 6.3
Identities = 6/7 (85%), Positives = 6/7 (85%)
Query: 64 EYDYVPP 70
EYD VPP
Sbjct: 371 EYDVVPP 377
>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA;
rossmann fold, FAD-binding domain, dinucleotide-binding
motif; HET: FAD; 3.20A {Chlorobium tepidum}
Length = 641
Score = 24.0 bits (53), Expect = 7.2
Identities = 4/7 (57%), Positives = 5/7 (71%)
Query: 64 EYDYVPP 70
EYD+ P
Sbjct: 360 EYDFFHP 366
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
0.322 0.139 0.426
Gapped
Lambda K H
0.267 0.0575 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,202,069
Number of extensions: 56390
Number of successful extensions: 100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 99
Number of HSP's successfully gapped: 17
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
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 (23.8 bits)