RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 043998
(101 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 = 81.3 bits (200), Expect = 1e-20
Identities = 35/63 (55%), Positives = 46/63 (73%)
Query: 34 RFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSE 93
R Q + + +SN+ HA+EAL RAKFKFP RQKII SRKWGFTKF+R +Y++ K+E
Sbjct: 128 RVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSRKWGFTKFTREEYVKLKAE 187
Query: 94 NRM 96
R+
Sbjct: 188 GRI 190
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 80.5 bits (198), Expect = 2e-20
Identities = 28/64 (43%), Positives = 38/64 (59%)
Query: 33 SRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKS 92
++ Q I + N H EAL RAKFKFP RQKI +S+KWGFTKF+ ++ +
Sbjct: 127 AKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFTKFNADEFENMVA 186
Query: 93 ENRM 96
E R+
Sbjct: 187 EKRL 190
>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 = 79.7 bits (196), Expect = 4e-20
Identities = 25/63 (39%), Positives = 40/63 (63%)
Query: 34 RFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSE 93
R +F + + + +A +AL RAK KFP RQK++ S+KWGFTK +RA Y R +++
Sbjct: 128 RVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKWGFTKLTRAQYSRLRNQ 187
Query: 94 NRM 96
++
Sbjct: 188 KKL 190
>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 = 79.8 bits (196), Expect = 4e-20
Identities = 27/63 (42%), Positives = 37/63 (58%)
Query: 34 RFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSE 93
R Q IF + DSN E L RA++KFP +QKII+S+KWGFT R +YL+ +
Sbjct: 126 RVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKWGFTNLDRPEYLKKREA 185
Query: 94 NRM 96
+
Sbjct: 186 GEV 188
>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 = 73.5 bits (180), Expect = 2e-18
Identities = 27/55 (49%), Positives = 34/55 (61%)
Query: 33 SRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADY 87
+R Q I + N H EAL RAKFKFP RQKI +S+KWGFTKF+ ++
Sbjct: 96 ARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFTKFNADEF 150
>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 = 52.0 bits (124), Expect = 8e-10
Identities = 13/75 (17%), Positives = 26/75 (34%), Gaps = 7/75 (9%)
Query: 7 HRAKEKQRPSVIQRQQSNQSSMGICQ-------SRFKALQTIFKLFHPDSNSHHAQEALH 59
H+ + + + M +R +A + +F + ++ H +EA
Sbjct: 92 HQVLRENKQATGAGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFR 151
Query: 60 RAKFKFPVRQKIIVS 74
RA K +I S
Sbjct: 152 RAYNKITPSCRIDSS 166
>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 = 50.0 bits (119), Expect = 3e-09
Identities = 8/43 (18%), Positives = 10/43 (23%), Gaps = 2/43 (4%)
Query: 34 RFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRK 76
R F + + A RA K I S
Sbjct: 114 RSHGANHDFIAWVNPD--PAVEFAWRRAYMKVTPTVNIDSSPA 154
>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 = 38.8 bits (89), Expect = 6e-05
Identities = 8/18 (44%), Positives = 10/18 (55%), Gaps = 1/18 (5%)
Query: 32 QSRFKALQTIFKLFHPDS 49
Q+ K LQ KL+ DS
Sbjct: 20 QA-LKKLQASLKLYADDS 36
>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 = 27.6 bits (61), Expect = 0.57
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 52 HHAQEALHRAKFKFPVRQKIIVSRKW 77
A+EA A K P++ K++ +
Sbjct: 113 EQAKEAFRLAGHKLPIQTKMVKREVY 138
>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 = 26.5 bits (58), Expect = 1.1
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 50 NSHHAQEALHRAKFKFPVRQKIIV 73
A+EA A K P++ +
Sbjct: 109 PEELAREAFKLAAAKLPIKTTFVT 132
>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 = 26.1 bits (57), Expect = 1.9
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 54 AQEALHRAKFKFPVRQKIIV 73
A+ A+ A K P+R + I+
Sbjct: 114 ARRAVAIAASKMPIRTQFII 133
>3gff_A IROE-like serine hydrolase; NP_718593.1, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; 2.12A {Shewanella oneidensis}
Length = 331
Score = 26.1 bits (57), Expect = 2.2
Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 7/58 (12%)
Query: 32 QSRFKALQTIFKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLR 89
+ ++ +FK F D S + ++ ++S ++G YL
Sbjct: 253 IGLYDGIRHLFKDFAIDIYSDSFSKQQVIDQYG-------VLSERFGHKVTPSQQYLE 303
>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 = 25.8 bits (56), Expect = 3.1
Identities = 13/101 (12%), Positives = 33/101 (32%), Gaps = 16/101 (15%)
Query: 4 SLDHRAKEKQRPS-VIQRQQSNQSSM-------GICQSRFKALQTIFKLFHP------DS 49
+ R +K+ S + + + + G F+ L+ +++ +H
Sbjct: 131 IMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKF 190
Query: 50 NSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSR--ADYL 88
++ E + V + + +W + DYL
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
>1zt2_A DNA primase small subunit; heterodimeric complex, replication,
transferase; HET: DNA; 3.33A {Sulfolobus solfataricus}
SCOP: d.264.1.1
Length = 330
Score = 24.8 bits (53), Expect = 6.6
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 75 RKWGFTKFSRADYLRWKS 92
R++ F Y+R S
Sbjct: 36 REFALQPFGSDTYVRHLS 53
>1z3x_A Putative cytidyltransferase; transferase activator; 1.50A
{Thermosynechococcus elongatus} SCOP: a.118.1.22
a.261.1.1 PDB: 1z3y_A
Length = 238
Score = 24.7 bits (53), Expect = 7.2
Identities = 4/34 (11%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 62 KFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENR 95
+F + V++++ + + + + + W+ R
Sbjct: 165 RFGYSVQRQLWLGCGQNWDRL--WEKIGWRQGKR 196
>3tx2_A Probable 6-phosphogluconolactonase; ssgcid, hydrolase; 1.50A
{Mycobacterium abscessus}
Length = 251
Score = 24.5 bits (54), Expect = 7.3
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 46 HPDSNSHHAQEAL 58
P+ N+ A EAL
Sbjct: 84 DPERNAWQAWEAL 96
>1d00_A Tumor necrosis factor receptor associated protein 2; B-sandwich,
protein-peptide complex, apoptosis; 2.00A {Homo sapiens}
SCOP: b.8.1.1 h.1.2.1 PDB: 1ca4_A 1d0j_A 1f3v_B 1czy_A
1d01_A 1d0a_A
Length = 168
Score = 24.2 bits (52), Expect = 8.2
Identities = 6/51 (11%), Positives = 12/51 (23%)
Query: 42 FKLFHPDSNSHHAQEALHRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWKS 92
L ++ H R ++ G F + K+
Sbjct: 99 LMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKMEAKN 149
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 24.4 bits (53), Expect = 9.1
Identities = 11/36 (30%), Positives = 16/36 (44%)
Query: 61 AKFKFPVRQKIIVSRKWGFTKFSRADYLRWKSENRM 96
KF FP R S KW + F D+ + +R+
Sbjct: 140 TKFDFPGRGNTYSSFKWRWYHFDGVDWDESRKLSRI 175
>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 = 23.8 bits (51), Expect = 9.5
Identities = 5/17 (29%), Positives = 6/17 (35%)
Query: 54 AQEALHRAKFKFPVRQK 70
Q L + K P K
Sbjct: 102 VQGFLDQVAHKLPFAAK 118
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 0.129 0.401
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,465,222
Number of extensions: 66189
Number of successful extensions: 196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 40
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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: 40 (21.6 bits)
S2: 51 (23.9 bits)