RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1342
(144 letters)
>3o58_Y 60S ribosomal protein L28; ribosomal RNA and proteins, ribosome;
4.00A {Saccharomyces cerevisiae} PDB: 3o5h_Y 3izc_O
3izs_O 3u5e_a 3u5i_a 1s1i_V 3jyw_V
Length = 149
Score = 127 bits (320), Expect = 9e-39
Identities = 64/105 (60%), Positives = 79/105 (75%), Gaps = 1/105 (0%)
Query: 36 TNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMRNYH 95
+ KTRK RGHVS G GR+GKHRKHPGGRG AGG HHHRIN DKYHPGYFGKVGMR +H
Sbjct: 3 SRFTKTRKHRGHVSAGKGRIGKHRKHPGGRGMAGGEHHHRINMDKYHPGYFGKVGMRYFH 62
Query: 96 IKKNAKWCPIINLDRLWTLVSDQTREKY-KDNKEGKAPIIDCVKA 139
++ W P++NLD+LWTL+ + R++Y K + AP+ID + A
Sbjct: 63 KQQAHFWKPVLNLDKLWTLIPEDKRDQYLKSASKETAPVIDTLAA 107
>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 148
Score = 126 bits (317), Expect = 2e-38
Identities = 77/104 (74%), Positives = 90/104 (86%)
Query: 36 TNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMRNYH 95
+ +KTRKLRGHVSHGHGR+GKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGM++YH
Sbjct: 3 SRLRKTRKLRGHVSHGHGRIGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMKHYH 62
Query: 96 IKKNAKWCPIINLDRLWTLVSDQTREKYKDNKEGKAPIIDCVKA 139
+K+N +CP +NLD+ WTLVS+QTR NK G APIID V++
Sbjct: 63 LKRNQSFCPTVNLDKPWTLVSEQTRVNAAKNKTGVAPIIDVVRS 106
>3iz5_O 60S ribosomal protein L27A (L15P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_O
Length = 144
Score = 118 bits (297), Expect = 2e-35
Identities = 65/105 (61%), Positives = 75/105 (71%), Gaps = 5/105 (4%)
Query: 36 TNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMRNYH 95
T KK RK RGHVS GHGR+GKHRKHPGGRGNAGGMHHHRI FDKYHPGYFGKVGMR +H
Sbjct: 3 TRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPGYFGKVGMRYFH 62
Query: 96 IKKNAKWCPIINLDRLWTLVSDQTREKYKDNKEGKAPIIDCVKAV 140
N CP +N++RLW++V + GKAP+ID +
Sbjct: 63 RLSNRFHCPAVNVERLWSMVPAEAGA-----GAGKAPVIDVTQFG 102
>4a17_K L29, RPL27A, 60S ribosomal protein L27A; eukaryotic ribosome,
ribosome, eukaryotic initiation factor 60S, translation,
large ribosomal subunit; 3.52A {Tetrahymena thermophila}
PDB: 4a1a_K 4a1c_K 4a1e_K
Length = 149
Score = 112 bits (281), Expect = 7e-33
Identities = 69/107 (64%), Positives = 87/107 (81%), Gaps = 3/107 (2%)
Query: 36 TNKKKTRKLRGHVSHGHGRVGKHRKH--PGGRGNAGGMHHHRINFDKYHPGYFGKVGMRN 93
++ KKTRKLRGHVSHGHGRVGKHRK GGRG AGGMHHHRI +K+HPGY+GK+GMR
Sbjct: 3 SHLKKTRKLRGHVSHGHGRVGKHRKGGCRGGRGKAGGMHHHRILMEKWHPGYYGKLGMRT 62
Query: 94 YHIKKNAKWCPIINLDRLWTLVSDQTREKYKDNKEGKAPIIDCVKAV 140
+H+KKN CP++N+D+LW+LVSD TR+KY ++K+ P+ID KA
Sbjct: 63 FHLKKNPLHCPVVNIDKLWSLVSDATRQKYAEDKKK-VPVIDVTKAG 108
>1vq8_L 50S ribosomal protein L15P; 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: c.12.1.1 PDB: 1vq4_L*
1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L*
1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L*
1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ...
Length = 165
Score = 89.1 bits (221), Expect = 1e-23
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 9/97 (9%)
Query: 39 KKTRKLRGHVSHGHGRVGKHRK--HPGGRGNAGGMHHHRINFDKYHPGYFGKVGMRNYHI 96
K ++ RG +HG G R H GGRG+AG H ++ GK G +
Sbjct: 3 SKKKRQRGSRTHGGGSHKNRRGAGHRGGRGDAGRDKHE-----FHNHEPLGKSGFKRPQK 57
Query: 97 KKNAKWCPIINLDRLWTLVSDQTREKYKDNKEGKAPI 133
+ + I++ + V+ + + ++G +
Sbjct: 58 VQ--EEAATIDVREIDENVTLLAADDVAEVEDGGFRV 92
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_C 4a1c_C 4a1e_C
Length = 410
Score = 30.2 bits (67), Expect = 0.25
Identities = 12/75 (16%), Positives = 21/75 (28%)
Query: 27 RRRPESLESTNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYF 86
R++ ++ + + S G GR GG G N + +
Sbjct: 49 RKQASGVKISTRGTAGMGHSAESWGTGRAVARIPRVGGSGTHRSGQAAFGNQCRKGRMFA 108
Query: 87 GKVGMRNYHIKKNAK 101
R H + N
Sbjct: 109 PLKTYRRVHRRVNVN 123
>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel,
cotranslational protein translocation, protein
conducting channel; 6.48A {Triticum aestivum} PDB:
2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C
1s1i_D 3jyw_D
Length = 362
Score = 26.3 bits (57), Expect = 4.1
Identities = 10/75 (13%), Positives = 22/75 (29%), Gaps = 4/75 (5%)
Query: 27 RRRPESLESTNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYF 86
+R+ ++ +T R+ + GR G + + P
Sbjct: 46 KRQAYAVSEKAGHQTSAESWGTGRAVARIPRVGGGGTGRSGQGAFGNMCRGGRMFAP--- 102
Query: 87 GKVGMRNYHIKKNAK 101
R +++K N
Sbjct: 103 -TKTWRKWNVKVNHN 116
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 26.4 bits (57), Expect = 4.5
Identities = 11/75 (14%), Positives = 21/75 (28%), Gaps = 4/75 (5%)
Query: 27 RRRPESLESTNKKKTRKLRGHVSHGHGRVGKHRKHPGGRGNAGGMHHHRINFDKYHPGYF 86
R+P ++ +T R+ + R R G + + P
Sbjct: 48 NRQPYAVSELAGHQTSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRGGRMFAP--- 104
Query: 87 GKVGMRNYHIKKNAK 101
R +H + N
Sbjct: 105 -TKTWRRWHRRVNTT 118
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer,
phenylalanine, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus
haemolyticus} PDB: 2rhs_B*
Length = 795
Score = 26.3 bits (59), Expect = 4.9
Identities = 7/12 (58%), Positives = 7/12 (58%)
Query: 40 KTRKLRGHVSHG 51
K KLRG S G
Sbjct: 102 KRAKLRGERSEG 113
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1
d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B
2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*
Length = 785
Score = 25.9 bits (58), Expect = 6.7
Identities = 4/12 (33%), Positives = 6/12 (50%)
Query: 40 KTRKLRGHVSHG 51
R ++G S G
Sbjct: 104 GERVIQGVRSFG 115
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
0.320 0.136 0.439
Gapped
Lambda K H
0.267 0.0527 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,320,345
Number of extensions: 128080
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 375
Number of HSP's successfully gapped: 23
Length of query: 144
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,328,508
Effective search space: 255381972
Effective search space used: 255381972
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 (21.8 bits)
S2: 52 (24.3 bits)