RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9793
(133 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 = 32.7 bits (74), Expect = 0.031
Identities = 16/79 (20%), Positives = 24/79 (30%), Gaps = 17/79 (21%)
Query: 7 LEHPTLKVP------YEILNKKFRAV--QKTIDREVSYVQSAANEL--------EKTIAS 50
LEH L VP L ++F + + T + EL +
Sbjct: 16 LEH-VLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 51 SEKPPLTEVTRLLGGMFER 69
S+ +V L FE
Sbjct: 75 SKVGQFDQVLNLCLTEFEN 93
Score = 27.7 bits (61), Expect = 1.6
Identities = 18/73 (24%), Positives = 27/73 (36%), Gaps = 19/73 (26%)
Query: 24 RAVQKTIDREVSYVQSAANELEKTIASSEKPPL--TEVT--RLLG---GMFERLQA--LK 74
+ + I +E++ SEK L T+ T L FE L++ L
Sbjct: 1700 KLKTEKIFKEINE------HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLI 1753
Query: 75 RK----AGESIGE 83
AG S+GE
Sbjct: 1754 PADATFAGHSLGE 1766
>3t97_C Nuclear pore glycoprotein P62; nucleoporin, coiled-coil, nuclear
pore complex, central TRAN channel, alpha helical
proteins, triple helix; 2.80A {Rattus norvegicus}
Length = 64
Score = 30.1 bits (68), Expect = 0.050
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 27 QKTIDREVSYVQSAANELEKTIASSEKPPLTEVTRLLGGMF 67
QK +D+E+ ++ S ELE ++ E+ V G ++
Sbjct: 28 QKRLDQELDFILSQQKELEDLLSPLEE----SVKEQSGTIY 64
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 29.5 bits (66), Expect = 0.28
Identities = 22/114 (19%), Positives = 39/114 (34%), Gaps = 8/114 (7%)
Query: 16 YEILNKKFR-AVQKTIDREVSYVQSAANELEKTIASSEKPPLTEVTRLLGGMFERLQALK 74
Y + + KFR A+ +T ++ Q E E + + P E + A +
Sbjct: 315 YSVSHPKFREAISQTFPWVLTCCQFDDKETEDDKDAETEIPAGESSDAAPSA----DAAQ 370
Query: 75 RKAGESIGEELQVGHVCKRRIEHLKEHSGNVLSNTSPDEIPPHNTP---FPPCP 125
K ++ +++Q + G P PP P +PP P
Sbjct: 371 MKEMMAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPP 424
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer;
2.40A {Thermoplasma acidophilum} SCOP: c.51.1.1
d.104.1.1
Length = 434
Score = 27.9 bits (63), Expect = 1.1
Identities = 5/20 (25%), Positives = 10/20 (50%)
Query: 66 MFERLQALKRKAGESIGEEL 85
E L + K+GE + ++
Sbjct: 46 SLEYLDLYRIKSGEELLQQT 65
>4f9t_A 50S ribosomal protein L1; rossman fold, RNA; HET: MPD; 1.46A
{Thermus thermophilus} PDB: 3u4m_A 1eg0_N 1vsp_A 2hgj_C
2hgq_C 2hgu_C 1vsa_A 4abs_C 3zvp_C 1zho_A 1ml5_c*
1yl3_C 1giy_C 2hw8_A 2j01_C 2j03_C 2jl6_C 2jl8_C
2om7_K* 2v47_C ...
Length = 229
Score = 26.9 bits (60), Expect = 1.8
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 19 LNKKFRAVQKTIDREVSYVQSAANELEKTIASS 51
K++RA+ + +D Y A L K +A++
Sbjct: 4 HGKRYRALLEKVDPNKIYTIDEAAHLVKELATA 36
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein,
nucleotide-binding, protein biosynthesis, translation,
zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB:
3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C*
3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2
Length = 234
Score = 26.9 bits (60), Expect = 2.3
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 19 LNKKFRAVQKTIDREVSYVQSAANELEKTIASS 51
L K+ R +++ +D Y + A L K +A++
Sbjct: 4 LTKRMRVIREKVDATKQYDINEAIALLKELATA 36
>1u19_A Rhodopsin; G protein-coupled receptor, membrane protein, retinal
protei photoreceptor, signaling protein; HET: MAN NAG
BMA RET PLM HTO HTG; 2.20A {Bos taurus} SCOP: f.13.1.2
PDB: 1hzx_A* 1gzm_A* 1l9h_A* 2g87_A* 2hpy_A* 2i35_A*
2i36_A* 2i37_A* 2ped_A* 3oax_A* 3c9l_A* 1jfp_A* 1ln6_A*
1f88_A* 3cap_A* 3dqb_A* 3pqr_A* 3pxo_A* 3c9m_A* 2x72_A*
...
Length = 349
Score = 27.0 bits (60), Expect = 2.4
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 16 YEILNKKFR-AVQKTI--DREVSYVQSAANELEKTIASSEKP 54
Y ++NK+FR + T+ + A+ + KT S P
Sbjct: 307 YIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAP 348
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 26.8 bits (59), Expect = 2.5
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 19 LNKKFRAVQKTIDREVSYVQSAANELEKTIASS 51
+K+F +QK + + Y A L K ++S+
Sbjct: 118 RSKRFLEIQKLREIKQEYDLKTALSLMKQMSST 150
>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active
site, N-glycosylation, C cation, chloride anion, zinc
IONS, dipept glycoprotein; HET: NAG BIX; 1.29A {Homo
sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A*
2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3rbu_A* 3bi1_A* 2oot_A*
2pvv_A* 2pvw_A* 2xei_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A*
3d7f_A* ...
Length = 707
Score = 26.5 bits (57), Expect = 3.3
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 20 NKKFRAVQKTIDREVSYVQSAANELEKTI 48
++ V+K I +Q+AA L++ +
Sbjct: 679 RLAWKEVKKHISIAAFTIQAAAGTLKEVL 707
>1u2m_A Histone-like protein HLP-1; coiled coil, chaperone; 2.30A
{Escherichia coli} SCOP: f.48.1.1 PDB: 1sg2_A
Length = 143
Score = 25.6 bits (56), Expect = 3.8
Identities = 8/79 (10%), Positives = 26/79 (32%), Gaps = 3/79 (3%)
Query: 8 EHPTLKVPYEILNKKFRAVQKTIDREVSYVQSAANELEKTIASSEKPPLTEVTRLLGGMF 67
+ L +F+ + R + +Q+ +L+ A S++ T++ + +
Sbjct: 17 QVAQKTGVSNTLENEFKGRASELQRMETDLQAKMKKLQSMKAGSDR---TKLEKDVMAQR 73
Query: 68 ERLQALKRKAGESIGEELQ 86
+ + +
Sbjct: 74 QTFAQKAQAFEQDRARRSN 92
>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent
of ribosome, rRNA BI regulation of translation,
translation, ribosomal RNA; 2.10A {Aquifex aeolicus}
Length = 242
Score = 25.8 bits (57), Expect = 4.6
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 19 LNKKFRAVQKTIDREVSYVQSAANELEKTIAS 50
KK+ K +DR Y A +L K +
Sbjct: 4 RGKKYIEASKLVDRNKRYTLEEAVDLLKKMEE 35
>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 = 25.7 bits (55), Expect = 5.2
Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 4/24 (16%)
Query: 92 KRRIEHLKEHSGNVLSNTSPDEIP 115
K+ ++ L + S L + D P
Sbjct: 19 KQALKKL-QAS---LKLYADDSAP 38
>3hlx_A Pyrroloquinoline-quinone synthase; PQQC, PQQ biosynthesis, oxidase,
complex, all helical, oxido; HET: PQQ; 1.30A {Klebsiella
pneumoniae subsp} PDB: 3hml_A* 1otv_A 3hnh_A* 1otw_A*
Length = 258
Score = 25.5 bits (55), Expect = 6.5
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 51 SEKPPLTEVTRLLGGMFERLQALK-RKAGESIGEELQVGHVCKRRIEHLKEH 101
SE+ L V + + ++A S EL + + R++ +H
Sbjct: 113 SERHVLPGVRFAVDAYLNFARRACWQEAACSSLTELFAPQIHQSRLDSWPQH 164
>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein,
ALPH-beta sandwich, winged-helix, helix helix, DNA
binding protein; HET: DNA MSE; 1.50A {Thermotoga
maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A*
Length = 225
Score = 25.1 bits (56), Expect = 7.5
Identities = 13/60 (21%), Positives = 21/60 (35%), Gaps = 21/60 (35%)
Query: 69 RLQALKRKAGESIGEELQVG--------HVCKR---RI----------EHLKEHSGNVLS 107
R++AL R+ ES +L G R I E+L + V++
Sbjct: 113 RVRALIRRKSESKSTKLVCGDLILDTATKKAYRGSKEIDLTKKEYQILEYLVMNKNRVVT 172
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane
protein translocation protein- protein complex,
ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Length = 429
Score = 25.2 bits (56), Expect = 8.1
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 62 LLGGMFERLQALKRKAGES 80
LL LQ L ++ G+
Sbjct: 89 LLTVAIPSLQRLAKEEGDY 107
>1tki_A Titin; serine kinase, muscle, autoinhibition; 2.00A {Homo sapiens}
SCOP: d.144.1.7
Length = 321
Score = 25.3 bits (56), Expect = 8.5
Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 8/65 (12%)
Query: 1 MTDKKCLEHPTLKVPYEILN-------KKFRAVQKTIDREVSYVQSAANELEKTIASSEK 53
MT + L+HP LK E ++ K R I ++++ V +A + A +
Sbjct: 250 MTASEALQHPWLKQKIERVSTKVIRTLKHRRYYHTLIKKDLNMV-VSAARISCGGAIRSQ 308
Query: 54 PPLTE 58
++
Sbjct: 309 KGVSV 313
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
0.314 0.132 0.384
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,967,543
Number of extensions: 103763
Number of successful extensions: 184
Number of sequences better than 10.0: 1
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 25
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (23.8 bits)