RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780259|ref|YP_003064672.1| 50S ribosomal protein L23
[Candidatus Liberibacter asiaticus str. psy62]
(110 letters)
>3fin_X 50S ribosomal protein L23; ribonucleoprotein, metal-binding,
RNA- binding, rRNA-binding, zinc, tRNA-binding,
repressor; 6.40A {Thermus thermophilus} PDB: 1n88_A
1vsa_R 1vsp_R 2hgj_W 2hgq_W 2hgu_W 2j01_X 2j03_X 2jl6_X
2jl8_X 2v47_X 2v49_X 2wdi_X 2wdj_X 2wdl_X 2wdn_X 2wh2_X
2wh4_X 3d5b_X 3d5d_X ... (X:)
Length = 93
Score = 97.0 bits (242), Expect = 7e-22
Identities = 40/104 (38%), Positives = 56/104 (53%), Gaps = 13/104 (12%)
Query: 7 YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVK 66
YD I++PV++EK+ + + F V ++K+EIK+AVE F VKVV VNTL +GK K
Sbjct: 3 YDVILAPVLSEKAYAGFAEGKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGKKK 62
Query: 67 RLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAGV 110
RL R R D K+A V +A G I+ G+
Sbjct: 63 RLGRY-------------LGKRPDRKKAIVQVAPGQKIEALEGL 93
>2zjr_Q 50S ribosomal protein L23; ribosome, large ribosomal
subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} (Q:)
Length = 95
Score = 96.3 bits (240), Expect = 1e-21
Identities = 35/106 (33%), Positives = 55/106 (51%), Gaps = 13/106 (12%)
Query: 4 IRFYDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKG 63
+ YD + +PVI+EK+ + F V ++K+EIK A++ F V+V+ ++T+ G
Sbjct: 1 MSHYDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPG 60
Query: 64 KVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAG 109
K KR+ R R D K+A V LA+G SI+ AG
Sbjct: 61 KRKRVGRF-------------IGQRNDRKKAIVRLAEGQSIEALAG 93
>3i1n_T 50S ribosomal protein L23; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_R 1p86_R 1vs8_T 2aw4_T
2awb_T 1vs6_T 2i2v_T 2i2t_T* 2qao_T* 2qba_T* 2qbc_T*
2qbe_T 2qbg_T 2qbi_T* 2qbk_T* 2qov_T 2qox_T 2qoz_T*
2qp1_T* 2rdo_T ... (T:)
Length = 100
Score = 94.0 bits (234), Expect = 5e-21
Identities = 39/110 (35%), Positives = 61/110 (55%), Gaps = 14/110 (12%)
Query: 1 MINIRFYDTIISPVIAEKSTLLAGQ-NQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59
+ R + +P ++EK++ + N +V V KD++K+EIK+AV+ LF V+V VNTL
Sbjct: 2 IREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTL 61
Query: 60 IRKGKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAG 109
+ KGKVKR + R D K+A+VTL +G ++D G
Sbjct: 62 VVKGKVKRHGQR-------------IGRRSDWKKAYVTLKEGQNLDFVGG 98
>1vq8_S 50S ribosomal protein L23P; ribosome 50S, protein-protein
complex, RNA-RNA complex, protein-RNA complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} (S:)
Length = 85
Score = 71.6 bits (176), Expect = 4e-14
Identities = 24/100 (24%), Positives = 35/100 (35%), Gaps = 27/100 (27%)
Query: 7 YDTIISPVIAEKSTLLAG-QNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKV 65
+D I P + EK+ QN++ F V +SK E+ AVE + V V VNT
Sbjct: 3 WDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG- 61
Query: 66 KRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSID 105
K+A V L++
Sbjct: 62 -------------------------EKKAVVRLSEDDDAQ 76
>2go5_4 Ribosomal protein L23; SR, SRP, ribosome, translation/RNA
complex; 7.40A {Triticum SP} PDB: 2j37_4 (4:)
Length = 152
Score = 70.6 bits (173), Expect = 7e-14
Identities = 24/104 (23%), Positives = 38/104 (36%), Gaps = 18/104 (17%)
Query: 1 MINIRFYDTIISPVIAEKSTLLAGQN-QVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59
+ Y + P+ E + N +VF V + K +IK+AV+ ++ ++ VNTL
Sbjct: 64 RNKLDQYQILKYPLTTESAMKKIEDNNTLVFIVDLKADKKKIKAAVKKMYDIQAKKVNTL 123
Query: 60 IRKGKVKRLSRISAARSRVRSSRDMYVS-RKDVKRAFVTLAKGY 102
IR K+ YV D V G
Sbjct: 124 IRPDGKKK----------------AYVKLTPDYDALDVANKIGI 151
>2zkr_s 60S ribosomal protein L23A; protein-RNA complex, 60S
ribosomal subunit, ribosomal protein/RNA complex; 8.70A
{Canis familiaris} (s:)
Length = 156
Score = 65.7 bits (160), Expect = 2e-12
Identities = 28/112 (25%), Positives = 44/112 (39%), Gaps = 28/112 (25%)
Query: 1 MINIRFYDTIISPVIAEKSTLLAGQN-QVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59
+ Y I P+ E + N +VF V ++K +IK AV+ L+ + V VNTL
Sbjct: 68 RNKLDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTL 127
Query: 60 IRKGKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYS-IDISAGV 110
IR K+A+V LA Y +D++ +
Sbjct: 128 IRPDG--------------------------EKKAYVRLAPDYDALDVANKI 153
>3bbo_V Ribosomal protein L23; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} (V:)
Length = 198
Score = 62.7 bits (152), Expect = 2e-11
Identities = 28/106 (26%), Positives = 43/106 (40%), Gaps = 27/106 (25%)
Query: 4 IRFYDTIISPVIAEKST-LLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRK 62
+ Y + SP+I E + +A +N ++F V + K I+ A+ F VKV VNTLIR
Sbjct: 109 LDVYQILQSPIITEAAIKNIADENSLLFTVDVRADKKMIREAISNFFGVKVRKVNTLIRP 168
Query: 63 GKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISA 108
K+A++ L K Y+ A
Sbjct: 169 DG--------------------------TKKAYIMLNKEYNASELA 188
>2wwb_K 60S ribosomal protein L25; ribosome, protein EXIT tunnel,
cotranslational protein translocation, protein
conducting channel; 6.48A {Triticum aestivum} PDB:
2wwa_K 2ww9_K 1s1i_T (K:)
Length = 142
Score = 61.7 bits (150), Expect = 4e-11
Identities = 28/112 (25%), Positives = 46/112 (41%), Gaps = 28/112 (25%)
Query: 1 MINIRFYDTIISPVIAEKST-LLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59
+ Y I P+ +E + + N +VF V ++K +IK AV+ L+ V V+ VNTL
Sbjct: 54 YNRLDSYKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTL 113
Query: 60 IRKGKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYS-IDISAGV 110
+R K+A+V L Y +DI+ +
Sbjct: 114 VRPNG--------------------------TKKAYVRLTADYDALDIANRI 139
>3ea6_A Staphylococcal enterotoxin K; superantigen; 0.92A
{Staphylococcus aureus} PDB: 2ntt_A 2nts_A 2g9h_D*
(A:1-88)
Length = 88
Score = 26.3 bits (58), Expect = 1.6
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 3/59 (5%)
Query: 1 MINIRFYDTIISPVIAE--KSTLLAGQNQVVFNVKKDSSKSEIKSAVEA-LFSVKVVSV 56
+ N+R + T V + K NQ+ F+ + SE K + F K + V
Sbjct: 6 IDNLRNFYTKKDFVDLKDVKDNDTPIANQLQFSNESYDLISESKDFNKFSNFKGKKLDV 64
>2hma_A Probable tRNA (5-methylaminomethyl-2-
thiouridylate)-methyltransferase; alpha-beta, beta
barrel, structural genomics, PSI-2; HET: MSE SAM; 2.41A
{Streptococcus pneumoniae} (A:219-284)
Length = 66
Score = 25.8 bits (57), Expect = 2.0
Identities = 5/37 (13%), Positives = 14/37 (37%)
Query: 69 SRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSID 105
+ + +V KD+ + + + +G+ D
Sbjct: 30 GGLGIGGQHGGDNAPWFVVGKDLSKNILYVGQGFYHD 66
>2ctw_A DNAJ homolog subfamily C member 5; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Mus
musculus} (A:)
Length = 109
Score = 24.4 bits (52), Expect = 6.5
Identities = 4/16 (25%), Positives = 10/16 (62%)
Query: 29 VFNVKKDSSKSEIKSA 44
V + K+++ +IK +
Sbjct: 22 VLGLDKNATSDDIKKS 37
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.318 0.130 0.329
Gapped
Lambda K H
0.267 0.0671 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 672,801
Number of extensions: 23533
Number of successful extensions: 130
Number of sequences better than 10.0: 1
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 35
Length of query: 110
Length of database: 4,956,049
Length adjustment: 65
Effective length of query: 45
Effective length of database: 2,758,724
Effective search space: 124142580
Effective search space used: 124142580
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 (21.8 bits)
S2: 50 (23.2 bits)