RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031480
(159 letters)
>3iz6_P 40S ribosomal protein S11 (S17P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 161
Score = 210 bits (535), Expect = 5e-71
Identities = 152/160 (95%), Positives = 158/160 (98%), Gaps = 2/160 (1%)
Query: 1 MAEQTEKAFLKQPKVFLSSKKAGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60
MAEQTEKAFLKQPKVFLSSKK+GKGK+PGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1 MAEQTEKAFLKQPKVFLSSKKSGKGKKPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60
Query: 61 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120
FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61 FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120
Query: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA--KKAFTA 158
GDHVIIGQCRPLSKTVRFNVLKVIPAGS+GG+ KKAFTA
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA 160
>2xzm_Q Ribosomal protein S17 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_Q
Length = 157
Score = 204 bits (521), Expect = 7e-69
Identities = 96/157 (61%), Positives = 119/157 (75%), Gaps = 2/157 (1%)
Query: 1 MAEQTEKAFLKQPKVFLSSKKAGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60
M Q ++A+ KQ VFL+SKK K G R++K+IGLGFKTP+EAIEGTY+DKKCP
Sbjct: 1 MDTQIQRAYQKQDGVFLNSKKLLAKKT--SAGVRYYKNIGLGFKTPKEAIEGTYVDKKCP 58
Query: 61 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120
FT +SIRG+I+ G S KMNRT+I+RR+YLH+V+KY RYEKRH NIP HISPCF VKE
Sbjct: 59 FTSNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKE 118
Query: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 157
GD ++ GQCRP+SKTVRFN L+V+P G +K F
Sbjct: 119 GDILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQFL 155
>2zkq_q 40S ribosomal protein S11E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris} PDB: 3jyv_Q* 1s1h_Q
Length = 158
Score = 204 bits (521), Expect = 7e-69
Identities = 96/159 (60%), Positives = 121/159 (76%), Gaps = 5/159 (3%)
Query: 1 MAE-QTEKAFLKQPKVFLSSKKAGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKC 59
MA+ QTE+A+ KQP +F + K+ G+ + R++K+IGLGFKTP+EAIEGTYIDKKC
Sbjct: 1 MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKC 60
Query: 60 PFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-V 118
PFTG VSIRGRIL+G KM RTI++RR+YLH+++KY R+EKRH N+ H+SPCFR V
Sbjct: 61 PFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDV 120
Query: 119 KEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 157
+ GD V +G+CRPLSKTVRFNVLKV A G KK F
Sbjct: 121 QIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQFQ 156
>3u5c_L RP41, S18, YS12, 40S ribosomal protein S11-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_P 3o30_F 3o2z_F 3u5g_L 3jyv_Q*
1s1h_Q
Length = 156
Score = 197 bits (502), Expect = 5e-66
Identities = 91/157 (57%), Positives = 115/157 (73%), Gaps = 7/157 (4%)
Query: 1 MAEQTEKAFLKQPKVFLSSKKAGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60
+ Q+E+AF KQP +F + K + R++K+ GLGFKTP+ AIEG+YIDKKCP
Sbjct: 5 LTVQSERAFQKQPHIFNNPKVKTSKRTK-----RWYKNAGLGFKTPKTAIEGSYIDKKCP 59
Query: 61 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120
FTG VSIRG+IL GT S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+
Sbjct: 60 FTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQV 119
Query: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 157
GD V +GQCRP+SKTVRFNV+KV A +G A K F
Sbjct: 120 GDIVTVGQCRPISKTVRFNVVKVSAA--AGKANKQFA 154
>3bbn_Q Ribosomal protein S17; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 142
Score = 52.1 bits (125), Expect = 2e-09
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 70 RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 127
+ + G A ++T+ V R H KY+R + AH P + K GD V +
Sbjct: 61 KTMQGRVVCATSDKTVAVEVVRLAPH--PKYKRRVRMKKKYQAH-DPDNQFKVGDVVRLE 117
Query: 128 QCRPLSKTVRFNVLKVI 144
+ RP+SKT F L VI
Sbjct: 118 KSRPISKTKSFVALPVI 134
>3r8n_Q 30S ribosomal protein S17; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2ykr_Q 3fih_Q* 3iy8_Q 2wwl_Q
3oar_Q 3oaq_Q 3ofb_Q 3ofa_Q 3ofp_Q 3ofx_Q 3ofy_Q 3ofo_Q
3r8o_Q 4a2i_Q 3i1m_Q 1vs7_Q* 3e1a_J 3e1c_J 1vs5_Q 3i1o_Q
...
Length = 80
Score = 50.2 bits (121), Expect = 2e-09
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 68 RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 125
+ R L G S KM ++I+V R H Y ++ KR + + H GD V
Sbjct: 1 KIRTLQGRVVSDKMEKSIVVAIERFVKH--PIYGKFIKRTTKLHVH-DENNECGIGDVVE 57
Query: 126 IGQCRPLSKTVRFNVLKVI 144
I +CRPLSKT + +++V+
Sbjct: 58 IRECRPLSKTKSWTLVRVV 76
>2vqe_Q 30S ribosomal protein S17; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: b.40.4.5 PDB: 1gix_T*
1hnw_Q* 1hnx_Q* 1hnz_Q* 1hr0_Q 1ibk_Q* 1ibl_Q* 1ibm_Q
1jgo_T* 1jgp_T* 1jgq_T* 1ml5_T* 1xmo_Q* 1xmq_Q* 1xnq_Q*
1xnr_Q* 1yl4_T 2b64_Q* 2b9m_Q* 2b9o_Q* ...
Length = 105
Score = 50.8 bits (122), Expect = 3e-09
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 70 RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 127
++L G S KM +T+ V R + H Y + KR AH P + K GD V I
Sbjct: 4 KVLTGVVVSDKMQKTVTVLVERQFPH--PLYGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 128 QCRPLSKTVRFNVLKVI 144
+ RP+SK RF VL+++
Sbjct: 61 ESRPISKRKRFRVLRLV 77
>1qd7_I S17 ribosomal protein; 30S ribosomal subunit, low resolution model,
ribosome; 5.50A {Thermus thermophilus} SCOP: i.1.1.3
PDB: 1eg0_G 1rip_A
Length = 89
Score = 49.5 bits (119), Expect = 6e-09
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 68 RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 125
+ ++ G S KM++TI V H Y + K AH K GD V
Sbjct: 1 QRKVYVGRVVSDKMDKTITVLVETYKKH--PLYGKRVKYSKKYKAH-DEHNEAKVGDIVK 57
Query: 126 IGQCRPLSKTVRFNVLKVI 144
I + RPLS T RF +++++
Sbjct: 58 IMETRPLSATKRFRLVEIV 76
>2i4k_A Sorting nexin-1, SNX1; 3-stranded beta sheet, 3 alpha helices,
proline rich loop, protein transport; NMR {Homo sapiens}
Length = 128
Score = 26.7 bits (59), Expect = 2.4
Identities = 8/46 (17%), Positives = 20/46 (43%)
Query: 70 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC 115
++ T ++ V+R + F+ Y++ ++HS + P
Sbjct: 25 KVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQNGFIVPPP 70
>2jhf_A Alcohol dehydrogenase E chain; oxidoreductase, metal coordination,
NAD, zinc, inhibition, acetylation, metal-binding; HET:
NAD; 1.0A {Equus caballus} SCOP: b.35.1.2 c.2.1.1 PDB:
1adc_A* 1adf_A* 1adg_A* 1adb_A* 1bto_A* 1heu_A* 1hf3_A*
1hld_A* 1lde_A* 1ldy_A* 1mg0_A* 1n92_A* 1p1r_A* 1ye3_A
1het_A* 2jhg_A* 2ohx_A* 2oxi_A* 3bto_A* 4dwv_A* ...
Length = 374
Score = 27.2 bits (61), Expect = 2.6
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 117 RVKEGDHVI---IGQCR 130
V+ GD VI QC
Sbjct: 82 TVRPGDKVIPLFTPQCG 98
>2bzr_A Propionyl-COA carboxylase beta chain 5; fatty acid biosynthesis,
accase, ligase, transferase; 2.2A {Mycobacterium
tuberculosis} PDB: 2a7s_A
Length = 548
Score = 27.2 bits (61), Expect = 2.7
Identities = 15/67 (22%), Positives = 22/67 (32%), Gaps = 18/67 (26%)
Query: 43 FKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYE 102
P A E Y+ P + T RG I + ++ K Q
Sbjct: 499 LVNPYVAAERGYVGAVIPPSHT---RGYI----GTALRLLER-----------KIAQLPP 540
Query: 103 KRHSNIP 109
K+H N+P
Sbjct: 541 KKHGNVP 547
>1cdo_A Alcohol dehydrogenase; oxidoreductase, oxidoreductase
(CH-OH(D)-NAD(A)); HET: NAD; 2.05A {Gadus callarias}
SCOP: b.35.1.2 c.2.1.1
Length = 374
Score = 26.8 bits (60), Expect = 3.0
Identities = 6/17 (35%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 117 RVKEGDHVI---IGQCR 130
+ G+ VI I QC
Sbjct: 83 EFQPGEKVIPLFISQCG 99
>2fzw_A Alcohol dehydrogenase class III CHI chain; S-nitrosoglutathione
reductase, glutathione-dependent formaldehyde
dehydrogenase, oxidoreductase; HET: NAD; 1.84A {Homo
sapiens} SCOP: b.35.1.2 c.2.1.1 PDB: 3qj5_A* 1mc5_A*
2fze_A* 1m6w_A* 1ma0_A* 1mp0_A* 1teh_A* 1m6h_A*
Length = 373
Score = 26.8 bits (60), Expect = 3.0
Identities = 8/17 (47%), Positives = 10/17 (58%), Gaps = 3/17 (17%)
Query: 117 RVKEGDHVI---IGQCR 130
++K GD VI I QC
Sbjct: 81 KLKAGDTVIPLYIPQCG 97
>1e3i_A Alcohol dehydrogenase, class II; HET: NAD; 2.08A {Mus musculus}
SCOP: b.35.1.2 c.2.1.1 PDB: 1e3e_A* 1e3l_A* 3cos_A*
Length = 376
Score = 26.8 bits (60), Expect = 3.7
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 117 RVKEGDHVI---IGQCR 130
K GD VI QC+
Sbjct: 82 NFKPGDKVIPFFAPQCK 98
>1p0f_A NADP-dependent alcohol dehydrogenase; ADH topology,
NADP(H)-dependent, oxidoreductase; HET: NAP; 1.80A {Rana
perezi} SCOP: b.35.1.2 c.2.1.1 PDB: 1p0c_A*
Length = 373
Score = 26.8 bits (60), Expect = 3.9
Identities = 8/17 (47%), Positives = 9/17 (52%), Gaps = 3/17 (17%)
Query: 117 RVKEGDHVI---IGQCR 130
VK GD VI + QC
Sbjct: 83 CVKPGDKVIPLFVPQCG 99
>1on3_A Methylmalonyl-COA carboxyltransferase 12S subunit; domain
duplication, multienzyme complex, transcarboxylase; HET:
MCA; 1.90A {Propionibacterium freudenreichii} SCOP:
c.14.1.4 c.14.1.4 PDB: 1on9_A*
Length = 523
Score = 26.4 bits (59), Expect = 5.7
Identities = 16/67 (23%), Positives = 22/67 (32%), Gaps = 18/67 (26%)
Query: 43 FKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYE 102
F TP A +D T R +I + +M T K+ R
Sbjct: 474 FNTPYVAAARGQVDDVIDPADT---RRKI----ASALEMYAT-----------KRQTRPA 515
Query: 103 KRHSNIP 109
K+H N P
Sbjct: 516 KKHGNFP 522
>1f8f_A Benzyl alcohol dehydrogenase; rossmann fold, oxidoreductase; HET:
NAD; 2.20A {Acinetobacter calcoaceticus} SCOP: b.35.1.2
c.2.1.1
Length = 371
Score = 25.9 bits (58), Expect = 6.9
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 5/20 (25%)
Query: 117 RVKEGDHVII-----GQCRP 131
++ GDHV++ G+C
Sbjct: 80 ELQVGDHVVLSYGYCGKCTQ 99
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 25.6 bits (57), Expect = 8.2
Identities = 16/67 (23%), Positives = 22/67 (32%), Gaps = 18/67 (26%)
Query: 43 FKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYE 102
F P A E ++D+ T R R+ + R K Q
Sbjct: 482 FANPFVASERGFVDEVIQPRST---RKRV----ARAFASLRN-----------KSVQMPW 523
Query: 103 KRHSNIP 109
K+H NIP
Sbjct: 524 KKHDNIP 530
>3fpp_A Macrolide-specific efflux protein MACA; hexameric assembly,
membrane fusion protein, drug efflux pump, periplasmic
protein; 2.99A {Escherichia coli}
Length = 341
Score = 25.4 bits (56), Expect = 8.6
Identities = 6/14 (42%), Positives = 11/14 (78%)
Query: 118 VKEGDHVIIGQCRP 131
++ GD V+IG+ +P
Sbjct: 324 LEAGDEVVIGEAKP 337
>2jty_A Type-1A pilin, type-1 fimbrial protein, A chain;
protein/PILI/FIM, cell projection, fimbrium, chimera,
chaper structural protein; NMR {Escherichia coli}
Length = 184
Score = 25.2 bits (55), Expect = 8.7
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 62 TGTVSIRGRILAGTC 76
GTV +G ++ C
Sbjct: 7 GGTVHFKGEVVNAAC 21
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 25.4 bits (56), Expect = 9.3
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 49 AIEGTYIDKKCPFTGTVSIRGRILA 73
A+EG I + TG++S+RG +L
Sbjct: 498 ALEGIPIRQDVAMTGSLSVRGEVLP 522
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 0.137 0.416
Gapped
Lambda K H
0.267 0.0633 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,473,922
Number of extensions: 141391
Number of successful extensions: 383
Number of sequences better than 10.0: 1
Number of HSP's gapped: 376
Number of HSP's successfully gapped: 32
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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: 53 (24.4 bits)