RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032855
(132 letters)
>2xzm_Q Ribosomal protein S17 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_Q
Length = 157
Score = 150 bits (380), Expect = 6e-48
Identities = 69/106 (65%), Positives = 84/106 (79%)
Query: 25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
GTY+DKKCPFT +SIRG+I+ G S KMNRT+I+RR+YLH+V+KY RYEKRH NIP H
Sbjct: 50 GTYVDKKCPFTSNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVH 109
Query: 85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
ISPCF VKEGD ++ GQCRP+SKTVRFN L+V+P G +K F
Sbjct: 110 ISPCFSVKEGDILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQFL 155
>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 = 148 bits (374), Expect = 5e-47
Identities = 70/106 (66%), Positives = 84/106 (79%), Gaps = 2/106 (1%)
Query: 25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
G+YIDKKCPFTG VSIRG+IL GT S KM+RTI++RR YLH++ KY RYEKRH N+P H
Sbjct: 51 GSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVH 110
Query: 85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
+SP FRV+ GD V +GQCRP+SKTVRFNV+KV A +G A K F
Sbjct: 111 VSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSAA--AGKANKQFA 154
>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 = 146 bits (370), Expect = 2e-46
Identities = 70/107 (65%), Positives = 83/107 (77%), Gaps = 4/107 (3%)
Query: 25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
GTYIDKKCPFTG VSIRGRIL+G KM RTI++RR+YLH+++KY R+EKRH N+ H
Sbjct: 53 GTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVH 112
Query: 85 ISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
+SPCFR V+ GD V +G+CRPLSKTVRFNVLKV A G KK F
Sbjct: 113 LSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQFQ 156
>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 = 145 bits (368), Expect = 5e-46
Identities = 103/109 (94%), Positives = 107/109 (98%), Gaps = 2/109 (1%)
Query: 25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
GTYIDKKCPFTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH
Sbjct: 52 GTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 111
Query: 85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA--KKAFTA 131
+SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS+GG+ KKAFTA
Sbjct: 112 VSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA 160
>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 = 52.3 bits (126), Expect = 3e-10
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 43 RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
++L G S KM +T+ V R + H Y + KR AH P + K GD V I
Sbjct: 4 KVLTGVVVSDKMQKTVTVLVERQFPH--PLYGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 101 QCRPLSKTVRFNVLKVI 117
+ RP+SK RF VL+++
Sbjct: 61 ESRPISKRKRFRVLRLV 77
>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 = 52.9 bits (127), Expect = 5e-10
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 43 RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
+ + G A ++T+ V R H KY+R + AH P + K GD V +
Sbjct: 61 KTMQGRVVCATSDKTVAVEVVRLAPH--PKYKRRVRMKKKYQAH-DPDNQFKVGDVVRLE 117
Query: 101 QCRPLSKTVRFNVLKVI 117
+ 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 = 50.6 bits (122), Expect = 9e-10
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 41 RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 98
+ R L G S KM ++I+V R H Y ++ KR + + H GD V
Sbjct: 1 KIRTLQGRVVSDKMEKSIVVAIERFVKH--PIYGKFIKRTTKLHVH-DENNECGIGDVVE 57
Query: 99 IGQCRPLSKTVRFNVLKVI 117
I +CRPLSKT + +++V+
Sbjct: 58 IRECRPLSKTKSWTLVRVV 76
>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 = 50.3 bits (121), Expect = 2e-09
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 41 RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 98
+ ++ G S KM++TI V H Y + K AH K GD V
Sbjct: 1 QRKVYVGRVVSDKMDKTITVLVETYKKH--PLYGKRVKYSKKYKAH-DEHNEAKVGDIVK 57
Query: 99 IGQCRPLSKTVRFNVLKVI 117
I + RPLS T RF +++++
Sbjct: 58 IMETRPLSATKRFRLVEIV 76
>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 = 1.5
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 90 RVKEGDHVI---IGQCR 103
V+ GD VI QC
Sbjct: 82 TVRPGDKVIPLFTPQCG 98
>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 = 27.2 bits (61), Expect = 1.7
Identities = 8/17 (47%), Positives = 10/17 (58%), Gaps = 3/17 (17%)
Query: 90 RVKEGDHVI---IGQCR 103
++K GD VI I QC
Sbjct: 81 KLKAGDTVIPLYIPQCG 97
>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 = 27.2 bits (61), Expect = 1.7
Identities = 6/17 (35%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 90 RVKEGDHVI---IGQCR 103
+ G+ VI I QC
Sbjct: 83 EFQPGEKVIPLFISQCG 99
>2xg5_B PAPH, PAP fimbrial minor pilin protein; chaperone,
chaperone-surface active protein complex; HET: EC2 EC5;
2.00A {Escherichia coli} PDB: 2xg4_B* 2j2z_B*
Length = 173
Score = 26.8 bits (59), Expect = 1.7
Identities = 3/33 (9%), Positives = 11/33 (33%)
Query: 17 VLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTC 49
+ + ++ + G + G ++ C
Sbjct: 4 PPPGMSLPEYWGEEHVWWDGRAAFHGEVVRPAC 36
>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 = 2.1
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 90 RVKEGDHVI---IGQCR 103
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 = 2.2
Identities = 8/17 (47%), Positives = 9/17 (52%), Gaps = 3/17 (17%)
Query: 90 RVKEGDHVI---IGQCR 103
VK GD VI + QC
Sbjct: 83 CVKPGDKVIPLFVPQCG 99
>2i4k_A Sorting nexin-1, SNX1; 3-stranded beta sheet, 3 alpha helices,
proline rich loop, protein transport; NMR {Homo
sapiens}
Length = 128
Score = 26.3 bits (58), Expect = 2.5
Identities = 8/46 (17%), Positives = 20/46 (43%)
Query: 43 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC 88
++ T ++ V+R + F+ Y++ ++HS + P
Sbjct: 25 KVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQNGFIVPPP 70
>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 = 4.1
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 5/20 (25%)
Query: 90 RVKEGDHVII-----GQCRP 104
++ GDHV++ G+C
Sbjct: 80 ELQVGDHVVLSYGYCGKCTQ 99
>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 = 25.9 bits (57), Expect = 4.5
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 35 TGTVSIRGRILAGTC 49
GTV +G ++ C
Sbjct: 7 GGTVHFKGEVVNAAC 21
>3fpp_A Macrolide-specific efflux protein MACA; hexameric assembly,
membrane fusion protein, drug efflux pump, periplasmic
protein; 2.99A {Escherichia coli}
Length = 341
Score = 25.8 bits (57), Expect = 5.0
Identities = 6/14 (42%), Positives = 11/14 (78%)
Query: 91 VKEGDHVIIGQCRP 104
++ GD V+IG+ +P
Sbjct: 324 LEAGDEVVIGEAKP 337
>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 = 25.6 bits (55), Expect = 6.2
Identities = 14/86 (16%), Positives = 28/86 (32%), Gaps = 14/86 (16%)
Query: 23 FSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIP 82
F ++D + F + +I H + N L +K Y+ Y +
Sbjct: 493 FRMVFLDFR--F-----LEQKI----RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541
Query: 83 AHISPC---FRVKEGDHVIIGQCRPL 105
+ F K +++I + L
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDL 567
>2uy6_B PAP PILI, PAP fimbrial major pilin protein; donor strand
complementation, PILI/N-terminal extension, pilus
biogenesis, donor-strand exchange; 2.50A {Escherichia
coli} SCOP: b.2.3.2 PDB: 2uy7_B
Length = 163
Score = 25.3 bits (55), Expect = 7.1
Identities = 3/15 (20%), Positives = 6/15 (40%)
Query: 35 TGTVSIRGRILAGTC 49
G V+ ++ C
Sbjct: 8 QGKVTFNNTVVDAPC 22
>2jmr_A FIMF; protein, cell adhesion; NMR {Escherichia coli}
Length = 179
Score = 25.2 bits (55), Expect = 7.3
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 36 GTVSIRGRILAGTC 49
T++IRG + C
Sbjct: 4 STITIRGYVRDNGC 17
>2glj_A Probable M18-family aminopeptidase 1; aminopeptidase I, NYSGXRC,
structural genomics, PSI, protein structure initiative;
3.20A {Clostridium acetobutylicum}
Length = 461
Score = 25.4 bits (56), Expect = 8.1
Identities = 6/11 (54%), Positives = 7/11 (63%), Gaps = 1/11 (9%)
Query: 83 AHI-SPCFRVK 92
AHI SP +K
Sbjct: 100 AHIDSPRLDLK 110
>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint
center for structural genomics, JCSG, protein structu
initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima}
SCOP: c.14.1.4 c.14.1.4
Length = 527
Score = 25.2 bits (56), Expect = 8.4
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 56 RTIIVRRNYLHFVKKYQRYEKRHSNIP 82
R I+R + K R +K+H NIP
Sbjct: 500 RKYIMRALEVCETKVEYRPKKKHGNIP 526
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 25.2 bits (56), Expect = 8.4
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 56 RTIIVRRNYLHFVKKYQRYEKRHSNIP 82
R + R K Q K+H NIP
Sbjct: 504 RKRVARAFASLRNKSVQMPWKKHDNIP 530
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
0.327 0.138 0.427
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,051,859
Number of extensions: 111948
Number of successful extensions: 440
Number of sequences better than 10.0: 1
Number of HSP's gapped: 435
Number of HSP's successfully gapped: 36
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (23.9 bits)