RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7141
(215 letters)
>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 = 128 bits (323), Expect = 2e-38
Identities = 64/110 (58%), Positives = 82/110 (74%)
Query: 75 HFKEKIKYSPDKMWYIACLIRGMSVDQALIQLGYVAKKGAPFIRDTILEAQEMAVKDHNV 134
H + +IKYS DKMWY+A LIRGMS+DQAL QL + KKGA I++ +LEAQ+MAV+DHNV
Sbjct: 1 HCRRQIKYSKDKMWYLAKLIRGMSIDQALAQLEFNDKKGAKIIKEVLLEAQDMAVRDHNV 60
Query: 135 EFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYCTYFVRLEEGKPP 184
EF+SNL++AES + +K +R H R R G +E YC YFV+L EG PP
Sbjct: 61 EFRSNLYIAESTSGRGQCLKRIRYHGRGRFGIMEKVYCHYFVKLVEGPPP 110
>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 = 52.9 bits (128), Expect = 1e-09
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 80 IKYSPDKMWYIACLIRGMSVDQALIQLGYVAKKGAPFIRDTILEAQEMAVKDHNVEFKSN 139
+ S K+ +A LIRG V QAL L Y KK A ++ + A A + + +
Sbjct: 10 ARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHNDGAD-IDD 68
Query: 140 LWVAESFVLKDIVIKGMRRHARVRMGRV 167
L V + FV + +K + A+ R R+
Sbjct: 69 LKVTKIFVDEGPSMKRIMPRAKGRADRI 96
>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 = 51.3 bits (124), Expect = 5e-09
Identities = 27/106 (25%), Positives = 50/106 (47%), Gaps = 8/106 (7%)
Query: 80 IKYSPDKMWYIACLIRGMSVDQALIQLGYVAKKGAPFIRDTILEAQEMAVKDHNVEF-KS 138
++ SP K+ + LIRG S+++A L Y K+GA F+ + A A +N + +
Sbjct: 10 VRISPRKVRLVVDLIRGKSLEEARNILRYTNKRGAYFVAKVLESA--AANAVNNHDALED 67
Query: 139 NLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYC--TYFVRLEEGK 182
L+V ++V + + AR R ++ + T + + GK
Sbjct: 68 RLYVKAAYVDEGPA---VLPRARGRADIIKKRTSHITVILGEKHGK 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 = 50.5 bits (121), Expect = 4e-08
Identities = 32/120 (26%), Positives = 51/120 (42%), Gaps = 3/120 (2%)
Query: 80 IKYSPDKMWYIACLIRGMSVDQALIQLGYVAKKGAPFIRDTILEAQEMAVKDHNVEF-KS 138
I S DK + IRG S + L+ L + + I I A A HN +F K+
Sbjct: 39 ISMSVDKARRVIDQIRGRSYAETLMILELMPYRACYPIFKLIYSA--AANASHNKQFNKA 96
Query: 139 NLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYCTYFVRLEEGKPPKNYYWTGPQTGPEK 198
NL ++++ V K I +K ++ AR R + C + L + +Y P+K
Sbjct: 97 NLIISKAEVNKGITLKKVKPRARGRSYMILRPTCHITIVLRDITHFDSYDKFLESLTPKK 156
>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 = 48.0 bits (115), Expect = 1e-07
Identities = 23/102 (22%), Positives = 45/102 (44%), Gaps = 3/102 (2%)
Query: 80 IKYSPDKMWYIACLIRGMSVDQALIQLGYVAKKGAPFIRDTILEAQEMAVKDHNVEF-KS 138
++ SP K+ + +IRG SV A L ++ + + + + A A HN E +
Sbjct: 31 VRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVAKVLNSA--KANALHNDEMLED 88
Query: 139 NLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYCTYFVRLEE 180
L+V E++V +K + AR ++ + + + E
Sbjct: 89 RLFVKEAYVDAGPTLKRLIPRARGSANIIKKRTSHITIIVAE 130
>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 = 39.1 bits (91), Expect = 3e-04
Identities = 21/133 (15%), Positives = 33/133 (24%), Gaps = 35/133 (26%)
Query: 83 SPDKMWYIACLIRGMSVDQALIQLGYVA-------------------------------- 110
A IR + + +A L V
Sbjct: 25 HFKNTRETAFAIRKLPLGKAKRYLEDVIAHKQAIPFRRYCGGVGRTAQAKSRHSNGQGRW 84
Query: 111 -KKGAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEY 169
K A FI D + A+ A L+V+ V + + A R+
Sbjct: 85 PAKSARFILDLLKNAESNAEVKGL--DVDTLYVSHIQVNQAQKQRRRTYRAHGRINPYMS 142
Query: 170 KYCTYFVRLEEGK 182
C + L E +
Sbjct: 143 SPCHIELILSEKE 155
>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 = 37.5 bits (87), Expect = 0.001
Identities = 21/130 (16%), Positives = 34/130 (26%), Gaps = 32/130 (24%)
Query: 83 SPDKMWYIACLIRGMSVDQALIQLGYVA------------------------------KK 112
S IA I+G + +A+ L V +K
Sbjct: 25 SFKHSKAIAREIKGKTAGEAVDYLEAVIEGDQPVPFKQHNSGVGHKSKVDGWDAGRYPEK 84
Query: 113 GAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYC 172
+ D + A A DH + + K +G + A R
Sbjct: 85 ASKAFLDLLENAVGNA--DHQGFDGEAMTIKHVAAHKVGEQQGRKPRAMGRASAWNSPQV 142
Query: 173 TYFVRLEEGK 182
+ LEE +
Sbjct: 143 DVELILEEPE 152
>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 = 37.6 bits (87), Expect = 0.001
Identities = 18/132 (13%), Positives = 34/132 (25%), Gaps = 34/132 (25%)
Query: 83 SPDKMWYIACLIRGMSVDQALIQLGYVA-------------------------------- 110
S A I G + +A L V
Sbjct: 25 SFKNTRETAQAINGWELTKAQKYLEQVLDHQRAIPFRRFNSSIGRTAQGKEFGVTKARWP 84
Query: 111 KKGAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYK 170
K F++ + A A + + L+V+ V + + A R+ + E
Sbjct: 85 AKSVKFVQGLLQNAAANA--EAKGLDATKLYVSHIQVNQAPKQRRRTYRAHGRINKYESS 142
Query: 171 YCTYFVRLEEGK 182
+ + E +
Sbjct: 143 PSHIELVVTEKE 154
>2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 184
Score = 36.4 bits (84), Expect = 0.003
Identities = 21/132 (15%), Positives = 35/132 (26%), Gaps = 34/132 (25%)
Query: 83 SPDKMWYIACLIRGMSVDQALIQLGYVA-------------------------------- 110
A I+GM + +A L V
Sbjct: 25 HFKNTRETAQAIKGMHIRKATKYLKDVTLQKQCVPFRRYNGGVGRCAQAKQWGWTQGRWP 84
Query: 111 KKGAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYK 170
KK A F+ + A+ A + +L + V K ++ A R+
Sbjct: 85 KKSAEFLLHMLKNAESNA--ELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYMSS 142
Query: 171 YCTYFVRLEEGK 182
C + L E +
Sbjct: 143 PCHIEMILTEKE 154
>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 = 36.1 bits (83), Expect = 0.003
Identities = 15/132 (11%), Positives = 30/132 (22%), Gaps = 34/132 (25%)
Query: 83 SPDKMWYIACLIRGMSVDQALIQLGYVA-------------------------------- 110
+ + I+G++++ A L V
Sbjct: 27 HFKNTYEVVRAIKGLNLENAKRYLKAVIDRKRCIPFTRFTGCIGRTAQAHEFGRTQGRWP 86
Query: 111 KKGAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYK 170
K I + A +NL + V + + A R+
Sbjct: 87 VKSVKVILGLLDNLSANA--QAKSLNTANLVIQHGQVNRAQKGRRRTYRAHGRINPYLNS 144
Query: 171 YCTYFVRLEEGK 182
C + +E
Sbjct: 145 GCHVEIFAQEVA 156
>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 = 32.5 bits (73), Expect = 0.12
Identities = 28/216 (12%), Positives = 63/216 (29%), Gaps = 49/216 (22%)
Query: 22 FLPLITTASDLHTSQSCLKKSLAEIEVPRFTRHNNVVFPPQQEGEERRPAF--VCHFKEK 79
F D Q K L++ E+ ++++ R F + +E+
Sbjct: 25 FEDAFVDNFDCKDVQDMPKSILSKEEI------DHIIMSKDAVSGTLR-LFWTLLSKQEE 77
Query: 80 IKY-------SPDKMWYIACLIRGMSVDQALIQLGYVAKK------GAPFIRDTILEAQE 126
+ + + + I+ +++ Y+ ++ F + + Q
Sbjct: 78 MVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 127 M-AVKDHNVEFKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYC----TYFVRLEEG 181
++ +E + V +I G+ + G K +
Sbjct: 137 YLKLRQALLELRPAKNV---------LIDGV-----LGSG----KTWVALDVCLSYKVQC 178
Query: 182 KPPKNYYW--TGPQTGPEKLEEYLQSLRYRKISSSL 215
K +W PE + E LQ L +I +
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKL-LYQIDPNW 213
>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 = 30.4 bits (68), Expect = 0.48
Identities = 14/93 (15%), Positives = 29/93 (31%), Gaps = 27/93 (29%)
Query: 1 MFQLRILSNCVL--------HQLNSNGKLFLPLITTA---------SDLHTSQSCLKKSL 43
M + L+ + L + ++ + L+ A L+ L +L
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG----LNLTL 393
Query: 44 AEIEVPRFTRHNNVVFPPQQEGEERRPAFVCHF 76
+ + P + + F ER+ F F
Sbjct: 394 RKAKAPSGLDQSRIPF------SERKLKFSNRF 420
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 28.3 bits (63), Expect = 2.2
Identities = 24/160 (15%), Positives = 56/160 (35%), Gaps = 19/160 (11%)
Query: 60 PPQQEGEERRPAFVCHFKEKIKYSPDKMWYIACLIRGMSVD--QALIQLGYVAKKGAPFI 117
P + R + +EK K P+ + + RG D Q + L ++
Sbjct: 208 RPDANSIKSRLMTIAI-REKFKLDPNVIDRLIQTTRG---DIRQVINLLSTISTTTKTIN 263
Query: 118 RDTILEAQEMAVKDHNVE-FKSNLWVAESFVLKDIVIKGMRRHARVRMGRVEYKYCTYFV 176
+ I E + K+ ++ F + + + DI + + ++ + ++ + +
Sbjct: 264 HENINEISKAWEKNIALKPFDIAHKMLDGQIYSDIGSRNFTLNDKIALYFDDFDFTPLMI 323
Query: 177 RLEEGKPPKNYYWTGPQTGPEKLEEYLQSL-RYRKISSSL 215
+E NY T P L+ L + ++ +
Sbjct: 324 --QE-----NY----LSTRPSVLKPGQSHLEAVAEAANCI 352
>3fxq_A LYSR type regulator of TSAMBCD; transcriptional regulator, LTTR,
TSAR, WHTH, DNA- transcription, transcription
regulation; 1.85A {Comamonas testosteroni} PDB: 3fxr_A*
3fxu_A* 3fzj_A 3n6t_A 3n6u_A*
Length = 305
Score = 28.0 bits (63), Expect = 2.3
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 14/54 (25%)
Query: 12 LHQLNSNGKLFLPL-----ITTASD-LHTSQSCLKKSLAEIE----VPRFTRHN 55
L L + + + + A+ LH SQ L ++ ++E P R
Sbjct: 4 LQTL----QALICIEEVGSLRAAAQLLHLSQPALSAAIQQLEDELKAPLLVRTK 53
>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 = 26.8 bits (58), Expect = 3.6
Identities = 4/17 (23%), Positives = 7/17 (41%), Gaps = 8/17 (47%)
Query: 77 KEKIK--------YSPD 85
K+ +K Y+ D
Sbjct: 19 KQALKKLQASLKLYADD 35
Score = 26.8 bits (58), Expect = 4.2
Identities = 7/19 (36%), Positives = 11/19 (57%), Gaps = 7/19 (36%)
Query: 197 EKLEEYLQSLRYRKISSSL 215
EK Q+L+ K+ +SL
Sbjct: 18 EK-----QALK--KLQASL 29
Score = 26.5 bits (57), Expect = 5.7
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 10/36 (27%)
Query: 12 LHQLNSNGKLFLPLITTASDLHTSQSCLKKSLAEIE 47
L +L ++ KL+ +A L +K A +E
Sbjct: 22 LKKLQASLKLYAD--DSAPAL-----AIK---ATME 47
>2qdf_A OMP85, outer membrane protein assembly factor YAET; potra domain,
protein transport; 2.20A {Escherichia coli K12} PDB:
2qcz_A 2v9h_A
Length = 335
Score = 27.3 bits (61), Expect = 4.2
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 142 VAESFVLKDIVIKGMRR 158
+AE FV+KDI +G++R
Sbjct: 4 MAEGFVVKDIHFEGLQR 20
>3efc_A OMP85, outer membrane protein assembly factor YAET; potra fold,
cell membrane, cell outer membrane, ME protein; 3.30A
{Escherichia coli}
Length = 395
Score = 26.9 bits (60), Expect = 5.8
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 142 VAESFVLKDIVIKGMRR 158
+AE FV+KDI +G++R
Sbjct: 3 MAEGFVVKDIHFEGLQR 19
>1rf8_B Eukaryotic initiation factor 4F subunit P150; protein
biosynthesis, translation regulat biosynthetic protein,
translation; HET: MTN M7G; NMR {Saccharomyces
cerevisiae} SCOP: a.210.1.1
Length = 100
Score = 25.8 bits (56), Expect = 6.3
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 70 PAFVCHFKEKIKYSPDKMW 88
P F+ FK+K+ D W
Sbjct: 66 PTFLLQFKDKLNVKADAEW 84
>3taw_A Hypothetical glycoside hydrolase; 5-bladed beta-propeller,
structural genomics, joint center F structural genomics,
JCSG; HET: MSE; 1.70A {Parabacteroides distasonis} PDB:
3r67_A*
Length = 356
Score = 26.2 bits (57), Expect = 9.5
Identities = 14/104 (13%), Positives = 30/104 (28%), Gaps = 3/104 (2%)
Query: 51 FTRHNNVVFPPQQEGEERRPAFVCHFKEKIKYSPDKMWYIACLIRGMSVDQALIQLGYVA 110
F R F P ++ + +I + D + + V + + +
Sbjct: 94 FERDTKPAFYPAKDNQAENECPGGTEDPRIAMTEDGTYVLLYTQWNRKVPRLAV---ATS 150
Query: 111 KKGAPFIRDTILEAQEMAVKDHNVEFKSNLWVAESFVLKDIVIK 154
K + + + K + KS V K ++ K
Sbjct: 151 KDLKHWTKFGPAFEKAYNGKFKDEATKSASLVTTLKGDKQVIAK 194
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 0.415
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: 3,346,127
Number of extensions: 197633
Number of successful extensions: 375
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 26
Length of query: 215
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 125
Effective length of database: 4,188,903
Effective search space: 523612875
Effective search space used: 523612875
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: 55 (25.3 bits)