RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780257|ref|YP_003064670.1| SSU ribosomal protein S19P
[Candidatus Liberibacter asiaticus str. psy62]
(92 letters)
>3a1p_B 30S ribosomal protein S19; RIMM N-terminal domain, PRC-barrel
domain, beta barrels, ribosome, 30S ribosomal subunit,
ribosome biogenesis; 2.30A {Thermus thermophilus} PDB:
1fka_S 1gix_V* 1hnw_S* 1hnx_S* 1hnz_S* 1hr0_S 1ibk_S*
1ibl_S* 1ibm_S 1jgo_V* 1jgp_V* 1jgq_V* 1ml5_V* 1xmo_S*
1xmq_S* 1xnq_S* 1xnr_S* 1yl4_V 2b64_S* 2b9m_S* ...
Length = 93
Score = 128 bits (323), Expect = 3e-31
Identities = 44/92 (47%), Positives = 62/92 (67%)
Query: 1 MARSVRKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPV 60
M RS++KG FV LL+KV + G + +++ W R I+P+ +G T VYNG++HVPV
Sbjct: 1 MPRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPV 60
Query: 61 SVSEEMVGFKLGDFAPTRHCPGHGSDKKAKRK 92
++E MVG KLG+FAPTR GHG + KA +K
Sbjct: 61 YITENMVGHKLGEFAPTRTYRGHGKEAKATKK 92
>2vqe_S 30S ribosomal protein S19; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1fka_S
1gix_V* 1hnw_S* 1hnx_S* 1hnz_S* 1hr0_S 1ibk_S* 1ibl_S*
1ibm_S 1jgo_V* 1jgp_V* 1jgq_V* 1ml5_V* 1xmo_S* 1xmq_S*
1xnq_S* 1xnr_S* 1yl4_V 2b64_S* 2b9m_S* ...
Length = 93
Score = 126 bits (319), Expect = 9e-31
Identities = 44/92 (47%), Positives = 62/92 (67%)
Query: 1 MARSVRKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPV 60
M RS++KG FV LL+KV + G + +++ W R I+P+ +G T VYNG++HVPV
Sbjct: 1 MPRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPV 60
Query: 61 SVSEEMVGFKLGDFAPTRHCPGHGSDKKAKRK 92
++E MVG KLG+FAPTR GHG + KA +K
Sbjct: 61 YITENMVGHKLGEFAPTRTYRGHGKEAKATKK 92
>3i1m_S 30S ribosomal protein S19; ribosome structure, protein-RNA
complex, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
{Escherichia coli k-12} PDB: 1vs7_S* 3e1a_L 3e1c_L
1vs5_S 3i1o_S 3i1q_S 3i1s_S 3i1z_S 3i21_S 2qal_S*
1p6g_S 1p87_S 2aw7_S 2avy_S 2i2u_S 2i2p_S* 2qan_S*
2qb9_S* 2qbb_S* 2qbd_S ...
Length = 92
Score = 125 bits (315), Expect = 3e-30
Identities = 53/92 (57%), Positives = 67/92 (72%)
Query: 1 MARSVRKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPV 60
M RS++KGPF+ LLKKV +A +SG + +R W R I P IGLT V+NGR+HVPV
Sbjct: 1 MPRSLKKGPFIDLHLLKKVEKAVESGDKKPLRTWSRRSTIFPNMIGLTIAVHNGRQHVPV 60
Query: 61 SVSEEMVGFKLGDFAPTRHCPGHGSDKKAKRK 92
V++EMVG KLG+FAPTR GH +DKKAK+K
Sbjct: 61 FVTDEMVGHKLGEFAPTRTYRGHAADKKAKKK 92
>3bbn_S Ribosomal protein S19; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 92
Score = 121 bits (305), Expect = 5e-29
Identities = 37/92 (40%), Positives = 59/92 (64%), Gaps = 1/92 (1%)
Query: 1 MARSVRKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPV 60
M RS++K PFV LL+K+ + + ++ W R I+P IG T ++NGR+H+P+
Sbjct: 1 MTRSLKKNPFVANHLLRKIEKLNKKAEKEIIVTWSRASTIIPTMIGHTIAIHNGREHLPI 60
Query: 61 SVSEEMVGFKLGDFAPTRHCPGHG-SDKKAKR 91
+++ MVG KLG+FAPT + GH +D K++R
Sbjct: 61 YITDRMVGHKLGEFAPTLNFRGHAKNDNKSRR 92
>3ofo_S 30S ribosomal protein S19; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, eryThr ketolide, macrolide, antibiotic,
EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_S*
2wwl_S 3ofp_S 2gy9_S 2gyb_S
Length = 79
Score = 112 bits (281), Expect = 3e-26
Identities = 44/76 (57%), Positives = 56/76 (73%)
Query: 3 RSVRKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPVSV 62
RS++KGPF+ LLKKV +A +SG + +R W R I P IGLT V+NGR+HVPV V
Sbjct: 1 RSLKKGPFIDLHLLKKVEKAVESGDKKPLRTWSRRSTIFPNMIGLTIAVHNGRQHVPVFV 60
Query: 63 SEEMVGFKLGDFAPTR 78
++EMVG KLG+FAPTR
Sbjct: 61 TDEMVGHKLGEFAPTR 76
>2zkq_s 40S ribosomal protein S15E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 89.4 bits (222), Expect = 2e-19
Identities = 27/80 (33%), Positives = 39/80 (48%)
Query: 6 RKGPFVTKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPVSVSEE 65
RK + K L K +A VV+ R+ I+P+ +G GVYNG+ V + E
Sbjct: 51 RKQHSLLKRLRKAKKEAPPMEKPEVVKTHLRDMIILPEMVGSMVGVYNGKTFNQVEIKPE 110
Query: 66 MVGFKLGDFAPTRHCPGHGS 85
M+G LG+F+ T HG
Sbjct: 111 MIGHYLGEFSITYKPVKHGR 130
>1s1h_S 40S ribosomal protein S15; 80S ribosome, 40S ribosomal subunit,
EEF2, tRNA translocation, sordarin, cryo-EM; 11.70A
{Saccharomyces cerevisiae} SCOP: i.1.1.1
Length = 80
Score = 86.3 bits (214), Expect = 2e-18
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 3 RSVRKGPFV-TKSLLKKVSQARDSGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPVS 61
R + P K L A ++ VR RN I+P+ IG G+YNG+ V
Sbjct: 1 RGMTSKPAGFMKKLRAAKLAAPENEKPAPVRTHMRNMIIVPEMIGSVVGIYNGKAFNQVE 60
Query: 62 VSEEMVGFKLGDFAPTR 78
+ EM+G LG+F+ T
Sbjct: 61 IRPEMLGHYLGEFSITY 77
>3jyv_S 40S ribosomal protein S15; eukaryotic ribosome, RACK1 protein,
flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC
7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus}
Length = 71
Score = 79.3 bits (196), Expect = 2e-16
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 3 RSVRKGPFVTKSLLKKVSQARD----SGGRGVVRVWCRNCDIMPQFIGLTFGVYNGRKHV 58
R + P +KK+ A+ + VR RN I+P+ IG G+YNG+
Sbjct: 1 RGMTSKPA---GFMKKLRAAKLAAPENEKPAPVRTHMRNMIIVPEMIGSVVGIYNGKAFN 57
Query: 59 PVSVSEEMVGFKLG 72
V + EM+G LG
Sbjct: 58 QVEIRPEMLGHYLG 71
>2o8q_A Hypothetical protein; structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-2; HET: MSE; 1.55A {Burkholderia xenovorans LB400}
Length = 134
Score = 26.1 bits (57), Expect = 2.0
Identities = 7/40 (17%), Positives = 15/40 (37%)
Query: 28 RGVVRVWCRNCDIMPQFIGLTFGVYNGRKHVPVSVSEEMV 67
RG V + + G + G +H + S+++
Sbjct: 72 RGWVEFEYEDIGAVMLEAGGSAFQPPGVRHRELRHSDDLE 111
>1gxy_A T-cell ECTO-ADP-ribosyltransferase 2; immuno-regulation; 1.71A
{Rattus norvegicus} SCOP: d.166.1.3 PDB: 1gxz_A* 1gy0_A
1og1_A* 1og4_A* 1og3_A*
Length = 226
Score = 25.5 bits (55), Expect = 2.8
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 2 ARSVRKGPFVTKSLLKKVSQARD 24
A SVR G F + SL KKV+Q+++
Sbjct: 137 AGSVRFGQFTSSSLSKKVAQSQE 159
>2iew_A Inositol polyphosphate multikinase; ATP-grAsp fold related,
transferase; 2.00A {Saccharomyces cerevisiae} PDB:
2if8_A*
Length = 363
Score = 24.3 bits (52), Expect = 6.6
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 67 VGFKLGDFAPTRHCPGHGSD 86
L DFA + PG G D
Sbjct: 319 SSMSLIDFAHSEITPGKGYD 338
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.323 0.139 0.437
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 812,758
Number of extensions: 32103
Number of successful extensions: 62
Number of sequences better than 10.0: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 12
Length of query: 92
Length of database: 5,693,230
Length adjustment: 59
Effective length of query: 33
Effective length of database: 4,262,834
Effective search space: 140673522
Effective search space used: 140673522
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.1 bits)