RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13469
(74 letters)
>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated
sodium-selective ION C membrane, metal transport; HET:
PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 3rw0_A*
Length = 285
Score = 45.1 bits (107), Expect = 2e-07
Identities = 8/49 (16%), Positives = 17/49 (34%)
Query: 12 HRGPSSLFLLSETNTVRQYTRFIIEWPPFEYAVLLTIIANCVVLALEEH 60
L+ + + I+E F ++ I+ N + + LE
Sbjct: 4 KDDDDKGSLVPRGSHMYLRITNIVESSFFTKFIIYLIVLNGITMGLETS 52
>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium
channel, sodium selective, gated ION channel; HET: BNG
PX4; 3.05A {Alpha proteobacterium HIMB114}
Length = 229
Score = 36.9 bits (86), Expect = 1e-04
Identities = 6/33 (18%), Positives = 15/33 (45%)
Query: 28 RQYTRFIIEWPPFEYAVLLTIIANCVVLALEEH 60
+ + + F++ V+ II N V++ +
Sbjct: 2 TPFFSSLKDNRIFQFTVVSIIILNAVLIGATTY 34
>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 = 29.4 bits (65), Expect = 0.082
Identities = 12/63 (19%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 7 HATASHRGPSSLFLLSETNTVRQYTRFIIEWPPFEYAVLLTIIANCVVLALEEHLPKGDK 66
H + + S+ L+ ++ Y +I + P ++ I+ + +EE+L
Sbjct: 509 HDSTAWNASGSI--LNTLQQLKFYKPYICDNDPKYERLVNAILDF--LPKIEENLICSKY 564
Query: 67 TAL 69
T L
Sbjct: 565 TDL 567
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 26.5 bits (58), Expect = 0.69
Identities = 10/45 (22%), Positives = 14/45 (31%)
Query: 3 PHSHHATASHRGPSSLFLLSETNTVRQYTRFIIEWPPFEYAVLLT 47
H H + RG L R+ W YA L++
Sbjct: 6 HHHHSSGLVPRGSHMLEDPGAVTGPRKGGSRRNAWGNQSYAELIS 50
>1u7z_A Coenzyme A biosynthesis bifunctional protein coabc; ligase; HET:
PMT; 2.30A {Escherichia coli} SCOP: c.72.3.1 PDB:
1u7w_A* 1u7u_A* 1u80_A*
Length = 226
Score = 25.9 bits (58), Expect = 1.1
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 58 EEHLPKGDKTALAKKLI 74
++ LP K L + L+
Sbjct: 197 DKVLPLERKELLGQLLL 213
>3c2e_A Nicotinate-nucleotide pyrophosphorylase; qprtase, prtase, BNA6,
mechanism, cytoplasm, glycosyltransferase, nucleus;
1.90A {Saccharomyces cerevisiae} PDB: 3c2f_A* 3c2o_A*
3c2v_A* 3c2r_A*
Length = 294
Score = 25.2 bits (56), Expect = 1.9
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 38 PPFEYAVLLT-IIANCVVLALEEHLPKGDKTALA 70
P +E+ + + V L E +P D
Sbjct: 1 PVYEHLLPVNGAWRQDVTNWLSEDVPSFDFGGYV 34
>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial
ribosome, large ribosomal subunit, ribosomal R ribosome;
12.10A {Bos taurus}
Length = 211
Score = 24.8 bits (55), Expect = 3.0
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 1 MGPHSHHATASHRGPSS 17
P +H T +HR P +
Sbjct: 131 GQPATHGQTKTHRRPGA 147
>3tqv_A Nicotinate-nucleotide pyrophosphorylase; glycosyltransferase,
transferase; 2.62A {Francisella tularensis subsp}
Length = 287
Score = 24.8 bits (55), Expect = 3.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 48 IIANCVVLALEEHLPKGDKTA 68
I+ V +L E + GD TA
Sbjct: 18 IVTRLVRESLAEDIATGDITA 38
>2vsv_A Rhophilin-2; scaffold protein, RHO GTPase binding,
protein-binding, RHOB, nitration, cytoplasm, PDZ
domain, CAsp8; 1.82A {Homo sapiens}
Length = 109
Score = 24.4 bits (53), Expect = 3.2
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 1 MGPHSHHATASHRGPSSLFLLSETNTVR 28
M H HH++ G +L+ S ++R
Sbjct: 1 MHHHHHHSSGVDLGTENLYFQSMPRSIR 28
>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E
2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E
2wrj_E 2wrl_E 2wro_E 2wrr_E ...
Length = 206
Score = 24.4 bits (54), Expect = 3.6
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 1 MGPHSHHATASHRGPSSL 18
GP SH A HR P S+
Sbjct: 124 GGPDSHGAHKIHRHPGSI 141
>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B*
1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B
3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E
1vou_E 1vow_E 1voy_E ...
Length = 211
Score = 24.4 bits (54), Expect = 3.8
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 1 MGPHSHHATASHRGPSSL 18
GP SH + HR P S+
Sbjct: 124 GGPASHGSKKWHRRPGSI 141
>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 = 24.6 bits (53), Expect = 3.9
Identities = 4/23 (17%), Positives = 7/23 (30%)
Query: 11 SHRGPSSLFLLSETNTVRQYTRF 33
+ S+LF + F
Sbjct: 138 DKKSNSALFRAVGEGNAQLVAIF 160
>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer
RNA, 23S ribosomal subunit, ribosome recycling factor,
RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B
1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D
2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D
2qbg_D 2qbi_D* 2qbk_D* 2qov_D ...
Length = 209
Score = 24.4 bits (54), Expect = 4.2
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 1 MGPHSHHATASHRGPSSL 18
+H + SHR P S+
Sbjct: 129 TQDATHGNSLSHRVPGSI 146
>1x1o_A Nicotinate-nucleotide pyrophosphorylase; transferase, structural
genomics, NPPSFA, national project O structural and
functional analyses; 1.90A {Thermus thermophilus}
Length = 286
Score = 24.0 bits (53), Expect = 4.7
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 49 IANCVVLALEEHLPKGDKTALA 70
+ + L E L +GD T+L
Sbjct: 14 LEEALRAWLREDLGQGDLTSLL 35
>1o4u_A Type II quinolic acid phosphoribosyltransferase; structural
genomics, joint center for structural genomics, J
protein structure initiative; 2.50A {Thermotoga
maritima} SCOP: c.1.17.1 d.41.2.1
Length = 285
Score = 24.0 bits (53), Expect = 5.5
Identities = 4/26 (15%), Positives = 11/26 (42%)
Query: 45 LLTIIANCVVLALEEHLPKGDKTALA 70
+ I + ++ ++E K D +
Sbjct: 12 HMEKILDLLMSFVKEDEGKLDLASFP 37
>2xwg_A Sortase; hydrolase, fimbrial assembly; 2.40A {Actinomyces oris}
Length = 235
Score = 23.4 bits (50), Expect = 9.9
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 1 MGPHSHHATASHRGPSSLFLLSETNTVRQYTRFIIEWPPFEYA 43
GP +H H G S+ + N +++ F +
Sbjct: 140 GGPSTHSVLTGHTGLSTATMFDNLNQLKKGDVFYVSSLGQTLK 182
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 0.135 0.412
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,131,920
Number of extensions: 51476
Number of successful extensions: 90
Number of sequences better than 10.0: 1
Number of HSP's gapped: 90
Number of HSP's successfully gapped: 17
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
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 (23.4 bits)