RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 030658
(173 letters)
>3iz5_V 60S ribosomal protein L17 (L22P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_V
Length = 171
Score = 245 bits (628), Expect = 8e-85
Identities = 148/171 (86%), Positives = 158/171 (92%)
Query: 1 MVKYSKEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQAIPF 60
MVKYS+E +NPTKS KA G DLRVHFKNTRETA AIRKLPL KAKRYLEDV+AHKQAIPF
Sbjct: 1 MVKYSREANNPTKSSKAMGRDLRVHFKNTRETAFAIRKLPLGKAKRYLEDVIAHKQAIPF 60
Query: 61 TRFCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQV 120
R+CGGVGRTAQAK+RH NGQGRWP KSA+FILDLLKNAESNAEVKGLDVD LY+SHIQV
Sbjct: 61 RRYCGGVGRTAQAKSRHSNGQGRWPAKSARFILDLLKNAESNAEVKGLDVDTLYVSHIQV 120
Query: 121 NQAQKQRRRTYRAHGRINPYMSSPCHIELTLSEKEEPVKKEPETQLATSKS 171
NQAQKQRRRTYRAHGRINPYMSSPCHIEL LSEKEEPVKKEPE+Q+A K+
Sbjct: 121 NQAQKQRRRTYRAHGRINPYMSSPCHIELILSEKEEPVKKEPESQIAARKA 171
>3u5e_P L20A, YL17, 60S ribosomal protein L17-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_I
2ww9_I 2wwb_I 3o5h_Q 3o58_Q 3u5i_P 1s1i_N 3izc_V 3izs_V
3jyw_N
Length = 184
Score = 221 bits (565), Expect = 5e-75
Identities = 102/173 (58%), Positives = 120/173 (69%), Gaps = 1/173 (0%)
Query: 1 MVKYSKEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQAIPF 60
M +Y NP KS ARGS LRV FKNTRETA AI LTKA++YLE V+ H++AIPF
Sbjct: 1 MARYGATSTNPAKSASARGSYLRVSFKNTRETAQAINGWELTKAQKYLEQVLDHQRAIPF 60
Query: 61 TRFCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQV 120
RF +GRTAQ K + RWP KS KF+ LL+NA +NAE KGLD LY+SHIQV
Sbjct: 61 RRFNSSIGRTAQGKE-FGVTKARWPAKSVKFVQGLLQNAAANAEAKGLDATKLYVSHIQV 119
Query: 121 NQAQKQRRRTYRAHGRINPYMSSPCHIELTLSEKEEPVKKEPETQLATSKSKK 173
NQA KQRRRTYRAHGRIN Y SSP HIEL ++EKEE V K E ++ S++
Sbjct: 120 NQAPKQRRRTYRAHGRINKYESSPSHIELVVTEKEEAVAKAAEKKVVRLTSRQ 172
>4a17_Q RPL17, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_Q 4a1c_Q 4a1e_Q
Length = 183
Score = 217 bits (555), Expect = 2e-73
Identities = 93/172 (54%), Positives = 109/172 (63%), Gaps = 1/172 (0%)
Query: 2 VKYSKEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQAIPFT 61
YS+EP N K+ K SDLRVHFKNT E AI+ L L AKRYL+ V+ K+ IPFT
Sbjct: 4 TNYSREPANQAKAVKTSASDLRVHFKNTYEVVRAIKGLNLENAKRYLKAVIDRKRCIPFT 63
Query: 62 RFCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQVN 121
RF G +GRTAQA QGRWPVKS K IL LL N +NA+ K L+ L I H QVN
Sbjct: 64 RFTGCIGRTAQAH-EFGRTQGRWPVKSVKVILGLLDNLSANAQAKSLNTANLVIQHGQVN 122
Query: 122 QAQKQRRRTYRAHGRINPYMSSPCHIELTLSEKEEPVKKEPETQLATSKSKK 173
+AQK RRRTYRAHGRINPY++S CH+E+ E V+KE A K
Sbjct: 123 RAQKGRRRTYRAHGRINPYLNSGCHVEIFAQEVAAKVRKEAPKDAAKKVPKT 174
>2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 184
Score = 215 bits (548), Expect = 2e-72
Identities = 113/173 (65%), Positives = 135/173 (78%), Gaps = 1/173 (0%)
Query: 1 MVKYSKEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQAIPF 60
MV+YS +P+NPTKSCK+RGS+LRVHFKNTRETA AI+ + + KA +YL+DV KQ +PF
Sbjct: 1 MVRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLQKQCVPF 60
Query: 61 TRFCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQV 120
R+ GGVGR AQAK QGRWP KSA+F+L +LKNAESNAE+KGLDVD+L I HIQV
Sbjct: 61 RRYNGGVGRCAQAKQ-WGWTQGRWPKKSAEFLLHMLKNAESNAELKGLDVDSLVIEHIQV 119
Query: 121 NQAQKQRRRTYRAHGRINPYMSSPCHIELTLSEKEEPVKKEPETQLATSKSKK 173
N+A K RRRTYRAHGRINPYMSSPCHIE+ L+EKE+ V K E K +
Sbjct: 120 NKAPKMRRRTYRAHGRINPYMSSPCHIEMILTEKEQIVPKPEEEVAQKKKISQ 172
>1vq8_R 50S ribosomal protein L22P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: d.55.1.1 PDB: 1vq4_R*
1vq5_R* 1vq6_R* 1vq7_R* 1s72_R* 1vq9_R* 1vqk_R* 1vql_R*
1vqm_R* 1vqn_R* 1vqo_R* 1vqp_R* 1yhq_R* 1yi2_R* 1yij_R*
1yit_R* 1yjn_R* 1yjw_R* 2otj_R* 2otl_R* ...
Length = 155
Score = 210 bits (537), Expect = 4e-71
Identities = 52/155 (33%), Positives = 83/155 (53%), Gaps = 4/155 (2%)
Query: 2 VKYSKEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQAIPFT 61
+ YS E D P + KA + ++ FK+++ A I+ +A YLE V+ Q +PF
Sbjct: 3 ISYSVEAD-PDTTAKAMLRERQMSFKHSKAIAREIKGKTAGEAVDYLEAVIEGDQPVPFK 61
Query: 62 RFCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQVN 121
+ GVG ++ GR+P K++K LDLL+NA NA+ +G D +A+ I H+ +
Sbjct: 62 QHNSGVGHKSKVDGWD---AGRYPEKASKAFLDLLENAVGNADHQGFDGEAMTIKHVAAH 118
Query: 122 QAQKQRRRTYRAHGRINPYMSSPCHIELTLSEKEE 156
+ +Q+ R RA GR + + S +EL L E E
Sbjct: 119 KVGEQQGRKPRAMGRASAWNSPQVDVELILEEPEV 153
>1i4j_A 50S ribosomal protein L22; mutant, erythromycin resistance, RNA
binding, RNA binding protein; 1.80A {Thermus
thermophilus} SCOP: d.55.1.1 PDB: 1bxe_A 1giy_S 1ml5_s*
1vsa_Q 1vsp_Q 1yl3_S 2b66_W 2b9n_W 2b9p_W 2hgj_V 2hgq_V
2hgu_V 2j01_W 2j03_W 2jl6_W 2jl8_W 2v47_W 2v49_W 2wdi_W
2wdj_W ...
Length = 110
Score = 57.5 bits (140), Expect = 1e-11
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 4/73 (5%)
Query: 85 PVKSAKFILDLLKNAESNAEVK-GLDVDALYISHIQVNQAQKQRRRTYRAHGRINPYMSS 143
+ A F+ +L++A +NA D LY+ V++ RA GR +
Sbjct: 40 NKRGAYFVAKVLESAAANAVNNHDALEDRLYVKAAYVDEGPAVLP---RARGRADIIKKR 96
Query: 144 PCHIELTLSEKEE 156
HI + L EK
Sbjct: 97 TSHITVILGEKHG 109
>2zjr_P 50S ribosomal protein L22; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.55.1.1 PDB: 1j5a_L* 1jzy_L* 1jzz_L*
1k01_L* 1nkw_Q 1nwx_Q* 1nwy_Q* 1ond_Q* 1sm1_Q* 1xbp_Q*
2zjp_P* 2zjq_P 1jzx_L 3cf5_P* 3dll_P* 3pio_P* 3pip_P*
1pnu_Q 1pny_Q 1vor_T ...
Length = 134
Score = 58.0 bits (141), Expect = 1e-11
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 85 PVKSAKFILDLLKNAESNAEVK-GLDVDALYISHIQVNQAQKQRRRTYRAHGRINPYMSS 143
P +++ + +L +A++NA + D L++ V+ +R RA G N
Sbjct: 61 PRSASEPVAKVLNSAKANALHNDEMLEDRLFVKEAYVDAGPTLKRLIPRARGSANIIKKR 120
Query: 144 PCHIELTLSEKEE 156
HI + ++EK
Sbjct: 121 TSHITIIVAEKGN 133
>3r8s_S 50S ribosomal protein L22; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_Q 1p86_Q 1vs8_S 1vs6_S 2aw4_S 2awb_S 1vt2_S 2i2v_S
2j28_S 2i2t_S* 2qao_S* 2qba_S* 2qbc_S* 2qbe_S 2qbg_S
2qbi_S* 2qbk_S* 2qov_S 2qox_S 2qoz_S* ...
Length = 110
Score = 57.1 bits (139), Expect = 2e-11
Identities = 21/71 (29%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 85 PVKSAKFILDLLKNAESNAEVK-GLDVDALYISHIQVNQAQKQRRRTYRAHGRINPYMSS 143
K+A + +L++A +NAE G D+D L ++ I V++ +R RA GR + +
Sbjct: 40 NKKAAVLVKKVLESAIANAEHNDGADIDDLKVTKIFVDEGPSMKRIMPRAKGRADRILKR 99
Query: 144 PCHIELTLSEK 154
HI + +S++
Sbjct: 100 TSHITVVVSDR 110
>3bbo_U Ribosomal protein L22; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 199
Score = 57.1 bits (138), Expect = 1e-10
Identities = 22/90 (24%), Positives = 37/90 (41%), Gaps = 1/90 (1%)
Query: 85 PVKSAKFILDLLKNAESNAEV-KGLDVDALYISHIQVNQAQKQRRRTYRAHGRINPYMSS 143
P ++ I L+ +A +NA K + L IS +VN+ ++ RA GR +
Sbjct: 69 PYRACYPIFKLIYSAAANASHNKQFNKANLIISKAEVNKGITLKKVKPRARGRSYMILRP 128
Query: 144 PCHIELTLSEKEEPVKKEPETQLATSKSKK 173
CHI + L + + + T K
Sbjct: 129 TCHITIVLRDITHFDSYDKFLESLTPKKLI 158
>2ftc_M Mitochondrial ribosomal protein L22 isoform A; mitochondrial
ribosome, large ribosomal subunit, ribosomal R ribosome;
12.10A {Bos taurus} PDB: 3iy9_M
Length = 110
Score = 53.3 bits (129), Expect = 5e-10
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 2/75 (2%)
Query: 85 PVKSAKFILDLLKNAESNAEV-KGLDV-DALYISHIQVNQAQKQRRRTYRAHGRINPYMS 142
K AK I ++L A+ A ++ LYI+ + Q +R Y GR
Sbjct: 36 DKKGAKIIKEVLLEAQDMAVRDHNVEFRSNLYIAESTSGRGQCLKRIRYHGRGRFGIMEK 95
Query: 143 SPCHIELTLSEKEEP 157
CH + L E P
Sbjct: 96 VYCHYFVKLVEGPPP 110
>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 = 38.7 bits (89), Expect = 5e-04
Identities = 31/193 (16%), Positives = 62/193 (32%), Gaps = 41/193 (21%)
Query: 1 MVKYS---KEPDNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRY--LEDVMAHK 55
+ KYS K+P T S + +L+V +N H R + Y + +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYA-LH--RSI----VDHYNIPKTFDSDD 463
Query: 56 QAIPFTR--FCGGVGRTAQAKNRHPNGQGRWPVKSAKFILDL------LKNAESNAEVKG 107
P+ F +G + R + F LD +++ + G
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHP----ERMTLFRMVF-LDFRFLEQKIRHDSTAWNASG 518
Query: 108 LDVDAL-----YISHIQVNQAQKQRR--------RTYRAHGRINPYMSSPCHIELTLSEK 154
++ L Y +I N + +R + + Y + + L +
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYT---DLLRIALMAE 575
Query: 155 EEPVKKEPETQLA 167
+E + +E Q+
Sbjct: 576 DEAIFEEAHKQVQ 588
Score = 28.3 bits (62), Expect = 1.6
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 17/71 (23%)
Query: 90 KFILDLLKNAESNAEVKGLDVDALYISHIQVNQA--------QKQRRRTYRAHG---RIN 138
K + D+ K+ S E +D + +S V+ KQ + RIN
Sbjct: 36 KDVQDMPKSILSKEE-----IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN 90
Query: 139 -PYMSSPCHIE 148
++ SP E
Sbjct: 91 YKFLMSPIKTE 101
>3r6w_A FMN-dependent NADH-azoreductase 1; nitrofurazone, P. aeruginosa,
nitroreductase, flavodoxin, oxidoreductase; HET: FMN
NFZ; 2.08A {Pseudomonas aeruginosa} PDB: 3lt5_A* 2v9c_A*
3keg_A*
Length = 212
Score = 27.7 bits (61), Expect = 1.8
Identities = 8/42 (19%), Positives = 16/42 (38%)
Query: 77 HPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHI 118
P G+ + A+ L + A A V +V + + +
Sbjct: 10 SPRGERSQSRRLAEVFLAAYREAHPQARVARREVGRVPLPAV 51
>1t5b_A Acyl carrier protein phosphodiesterase; structural genomics, FMN,
alpha/beta/alpha sandwich, PSI, protein structure
initiative; HET: FMN; 1.40A {Salmonella typhimurium}
SCOP: c.23.5.3 PDB: 1tik_A 2z98_A* 2d5i_A* 1v4b_A*
2z9b_A* 2z9c_A* 2z9d_A*
Length = 201
Score = 26.6 bits (58), Expect = 3.8
Identities = 3/43 (6%), Positives = 12/43 (27%)
Query: 77 HPNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQ 119
+ + ++ + E+ D+ A + +
Sbjct: 10 SILAGYSQSGQLTDYFIEQWREKHVADEITVRDLAANPVPVLD 52
>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 = 26.9 bits (59), Expect = 4.6
Identities = 13/87 (14%), Positives = 28/87 (32%), Gaps = 17/87 (19%)
Query: 9 DNPTKSCKARGSDLRVHFKNTRETAHAIRKLPLTKAKRYLEDVMAHKQA----------- 57
D + D+++ +T +R L + ++R + D +
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDT-FDGSDLRVLSGSISER-IVDCIIRLPVKWETTTQFKAT 499
Query: 58 --IPFTRFCGGVGRTAQAKNRHPNGQG 82
+ F GG +R+ +G G
Sbjct: 500 HILDFGP--GGASGLGVLTHRNKDGTG 524
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
0.315 0.129 0.374
Gapped
Lambda K H
0.267 0.0576 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,470,917
Number of extensions: 135836
Number of successful extensions: 280
Number of sequences better than 10.0: 1
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 18
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
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: 41 (21.6 bits)
S2: 54 (24.9 bits)