RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1816
(122 letters)
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 118 bits (297), Expect = 1e-34
Identities = 48/75 (64%), Positives = 57/75 (76%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGT ARV+IGQ ++SVR + EALRRAKFKFPGRQKI S+KWGFT
Sbjct: 115 MRGAFGKPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSRKWGFT 174
Query: 61 KYDREEYETLRDQNR 75
K+ REEY L+ + R
Sbjct: 175 KFTREEYVKLKAEGR 189
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 117 bits (293), Expect = 3e-34
Identities = 50/75 (66%), Positives = 64/75 (85%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGTVA+V+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SKKWGFT
Sbjct: 115 MRGAFGKPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFT 174
Query: 61 KYDREEYETLRDQNR 75
K++ +E+E + + R
Sbjct: 175 KFNADEFENMVAEKR 189
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 117 bits (293), Expect = 3e-34
Identities = 40/75 (53%), Positives = 50/75 (66%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GK G ARV+IG + SVR + I+AL RAK KFPGRQK+ S+KWGFT
Sbjct: 115 MRGAFGKALGKAARVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKWGFT 174
Query: 61 KYDREEYETLRDQNR 75
K R +Y LR+Q +
Sbjct: 175 KLTRAQYSRLRNQKK 189
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 114 bits (286), Expect = 3e-33
Identities = 45/75 (60%), Positives = 54/75 (72%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKP G ARV+IGQ I SVR+ D K V+E LRRA++KFPG+QKI +SKKWGFT
Sbjct: 113 MRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKWGFT 172
Query: 61 KYDREEYETLRDQNR 75
DR EY R+
Sbjct: 173 NLDRPEYLKKREAGE 187
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 110 bits (276), Expect = 2e-32
Identities = 50/68 (73%), Positives = 61/68 (89%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGTVARV+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SKKWGFT
Sbjct: 84 MRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFT 143
Query: 61 KYDREEYE 68
K++ +E+E
Sbjct: 144 KFNADEFE 151
>1vq8_H 50S ribosomal protein L10E; 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.41.4.1 PDB: 1vq4_H*
1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H*
1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H*
2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Length = 171
Score = 87.0 bits (215), Expect = 6e-23
Identities = 20/56 (35%), Positives = 27/56 (48%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 56
MR A+GK GT ARV G+ + + + + V EA RRA K +I S
Sbjct: 113 MRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSSPA 168
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J*
1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J*
1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H*
1giy_P ...
Length = 157
Score = 83.9 bits (207), Expect = 6e-22
Identities = 18/56 (32%), Positives = 21/56 (37%), Gaps = 2/56 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 56
MR +GK GT AR + + PAV A RRA K I S
Sbjct: 101 MRAPFGKSVGTAARSHGANHDFIAWVNPD--PAVEFAWRRAYMKVTPTVNIDSSPA 154
>2zjr_J 50S ribosomal protein L16; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.41.4.2 PDB: 1sm1_K* 2zjp_J* 2zjq_J
1nkw_K 3cf5_J* 3dll_J* 3pio_J* 1njm_K* 1nwx_K* 1njp_K*
1xbp_K* 1y69_K 1nwy_K* 3pip_J* 1pnu_K 1pny_K 1vor_N
1vou_N 1vow_N 1voy_N ...
Length = 142
Score = 41.1 bits (96), Expect = 1e-05
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 51
M G + V+ V G+ + V + + EA R A K P + K+
Sbjct: 84 MGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQ--AKEAFRLAGHKLPIQTKM 132
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M
2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M
2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Length = 136
Score = 38.4 bits (89), Expect = 1e-04
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 56
M G + VA + G+ + + + EA + A K P + V+K
Sbjct: 82 MGKGKGNVEYWVALIQPGKVLYEMDGVPEE--LAREAFKLAAAKLPIKTTF-VTKT 134
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13,
mitochondrial; mitochondrial ribosome, large ribosomal
subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB:
3iy9_I
Length = 118
Score = 36.6 bits (84), Expect = 4e-04
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQK 50
M G G V V G+ ++ + +F+ L + K P K
Sbjct: 70 MGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEV-QGFLDQVAHKLPFAAK 118
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 135
Score = 35.3 bits (81), Expect = 0.001
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 51
M G P+ VA V G+ + + S + A+ A K P R +
Sbjct: 83 MGSGKGSPEYWVAVVKPGRILYEI--SGVAENIARRAVAIAASKMPIRTQF 131
>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 = 33.5 bits (76), Expect = 0.013
Identities = 18/113 (15%), Positives = 37/113 (32%), Gaps = 37/113 (32%)
Query: 20 PIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK---------------WGFTKYDR 64
P++S+ + + V + + + P +++ +S +G R
Sbjct: 337 PMLSISNLTQ--EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 65 EEY-ETLRDQNRTSIISTPKS--------VFFPI---FQGSPTLSE--EEIIE 103
+ + DQ+R P S F P+ F S L + I +
Sbjct: 395 KAKAPSGLDQSR-----IPFSERKLKFSNRFLPVASPFH-SHLLVPASDLINK 441
Score = 31.6 bits (71), Expect = 0.050
Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 29/92 (31%)
Query: 13 ARVNIGQPIMSVRSSDKFKPAVIEALRRAKFK----FPGRQKIYVSKKWGFTKYDREEY- 67
AR+ +P +S A+ A+ + F G Q G + ++Y
Sbjct: 129 ARIMAKRPFDKKSNS-----ALFRAVGEGNAQLVAIFGG-Q--------G----NTDDYF 170
Query: 68 ETLRDQNRTSIISTPKSVFFPIFQGS-PTLSE 98
E LRD + T + + + S TLSE
Sbjct: 171 EELRD-----LYQTYHVLVGDLIKFSAETLSE 197
>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}
Length = 385
Score = 28.0 bits (63), Expect = 0.77
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 34 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRTSIISTPKSVFF 87
+IEA PG + ++S+KW D++ + +R I + K +
Sbjct: 210 LIEAAMIGINMAPGLNREFISEKWRT--LDKKIWWDVRKDAFNKIDNESKFKIY 261
>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase,
transferase; HET: SAH; 1.96A {Streptococcus mutans}
Length = 384
Score = 28.0 bits (63), Expect = 0.77
Identities = 8/54 (14%), Positives = 17/54 (31%), Gaps = 2/54 (3%)
Query: 34 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRTSIISTPKSVFF 87
IEA PG + + ++W + D +R++ +
Sbjct: 209 CIEAAMIGMNIAPGFNRDFAFEEWPW--VDEALVTRVRNEADEQADYDIQLDIS 260
>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170,
putative RNA methylase, PSI,MCSG, structu genomics;
1.50A {Listeria monocytogenes str}
Length = 393
Score = 28.0 bits (63), Expect = 0.84
Identities = 9/54 (16%), Positives = 18/54 (33%), Gaps = 2/54 (3%)
Query: 34 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRTSIISTPKSVFF 87
IEA + PG + +VS+ W + ++ + R +
Sbjct: 216 PIEAALIGQNIAPGFNREFVSETWDW--MPKQVWADARQEAEDLANYDQPLNII 267
>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 = 27.5 bits (60), Expect = 1.1
Identities = 8/35 (22%), Positives = 15/35 (42%)
Query: 69 TLRDQNRTSIISTPKSVFFPIFQGSPTLSEEEIIE 103
T R + T +S + + S TL+ +E+
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
>2pk7_A Uncharacterized protein; NESG, PLR1, putative
tetraacyldisaccharide-1-P 4-kinase, Q4K structural
genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP:
b.171.1.1
Length = 69
Score = 25.4 bits (56), Expect = 2.0
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 9/52 (17%)
Query: 61 KYDREEYETLRDQNRTSIISTPKSVFFPIFQGSPTLSEEEIIESSNNETNDE 112
K ++ E +IS + +PI G P + E E + E D+
Sbjct: 19 KLSADKTE---------LISKGAGLAYPIRDGIPVMLESEARTLTTEERLDK 61
>1u07_A TONB protein; beta-hairpin, protein transport; 1.13A {Escherichia
coli} SCOP: d.212.1.2 PDB: 2gsk_B* 1ihr_A 1qxx_A
Length = 90
Score = 25.8 bits (57), Expect = 2.4
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 8 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQ 49
P G V V I + + F+ V A+RR +++ PG+
Sbjct: 35 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKP 71
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 26.3 bits (58), Expect = 3.3
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 25 RSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNR 75
R+ + I+A KF FPGR Y S KW + +D +++ R +R
Sbjct: 126 RNQEISGTYQIQAWT--KFDFPGRGNTYSSFKWRWYHFDGVDWDESRKLSR 174
>1n62_B Carbon monoxide dehydrogenase large chain; CODH, molybdenum,
molybdopterin, oxidoreductase; HET: CUB MCN FAD; 1.09A
{Oligotropha carboxidovorans} SCOP: d.41.1.1 d.133.1.1
PDB: 1n5w_B* 1n61_B* 1n60_B* 1n63_B* 1zxi_B*
Length = 809
Score = 25.7 bits (57), Expect = 4.8
Identities = 2/13 (15%), Positives = 5/13 (38%)
Query: 1 MRGAYGKPQGTVA 13
R ++ + A
Sbjct: 386 YRCSFRVTEAVYA 398
>2k5r_A Uncharacterized protein XF2673; solution structure, structural
genomics, PSI-2, protein structure initiative; NMR
{Xylella fastidiosa TEMECULA1}
Length = 97
Score = 24.7 bits (53), Expect = 5.2
Identities = 9/53 (16%), Positives = 17/53 (32%)
Query: 61 KYDREEYETLRDQNRTSIISTPKSVFFPIFQGSPTLSEEEIIESSNNETNDEE 113
R + ++I+ + F I P L EE I + ++
Sbjct: 37 TVQRADGSIQNQSLHEALITRDRKQVFRIEDSIPVLLPEEAIATIQIANFPDK 89
>3v93_A Cyclic nucleotide specific phosphodiesterase; parasite,
phosphodiesterases,, hydrolase; 2.00A {Trypanosoma
cruzi} PDB: 3v94_A*
Length = 345
Score = 25.1 bits (55), Expect = 7.9
Identities = 5/57 (8%), Positives = 18/57 (31%), Gaps = 7/57 (12%)
Query: 59 FTKYDREEYETLRDQNRTSIISTPKSVFFPIFQGSPTLSE-EEIIESSNNETNDEEN 114
+ D + ++ I T S+ +++ + + + +E+
Sbjct: 189 TSSMDNASFLEFKNIVSHLIGHTDMSLHSET------VAKHGAKLSAGGFDCTCKED 239
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 24.7 bits (53), Expect = 9.4
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 8 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
P G V V I + + F+ V A+RR +++ PG+ + F
Sbjct: 174 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKPGSGIVVNILFK 221
>3pkz_A Recombinase SIN; small serine recombinase, resolvase, DNA,
recombination; 1.80A {Staphylococcus aureus}
Length = 124
Score = 24.1 bits (53), Expect = 9.8
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 35 IEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNR 75
+E L+ G +KI+ K+ G + +R + +
Sbjct: 19 LENLKTF-----GAEKIFTEKQSGKSIENRPILQKALNFVE 54
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 0.374
Gapped
Lambda K H
0.267 0.0815 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,782,423
Number of extensions: 96105
Number of successful extensions: 240
Number of sequences better than 10.0: 1
Number of HSP's gapped: 237
Number of HSP's successfully gapped: 40
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
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: 51 (23.3 bits)